Search for motifs of 1577 Regulatory Elements (REs) was performed by NSITE program [http://www.softberry.com]; version 3.2009 SET of REs: REGSITE DB: Plant Transcription Regulatory Sites [Last Update: March 15, 2009] For NSITE programs | Only one of identical REs (regardless RE NAME and GROUP) is presented in this Set Search Parameters: Expected Mean Number : 0.01 or less Statistical Siginicance Level : 0.95 Level of homology between known RE and motif: 90% or higher Variation of Distance between RE Blocks : 20% ============================================================ > A.thaliana, Chr 1: GENE: inorganic pyrophosphatase |LOCUS: AT1G01050 |PROD: the same as GENE |complement(31181..33148) |SUPPORT | 9 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +478 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.17 T - 0.33 C - 0.14 1 ccaaaccaaa ttatttgtga aaaatgtaat gcaagtatcc tacatagatt 51 ataggagtga ccgcaaaaac acaaactatg tttcgtaata aaaaataaag 101 tatttttaaa aagatgtaaa tctttgtaaa taATTGAgtg gtagtgtagt 151 gagtgttacg ataaTATAAA AGtttgatcc gtatatctcg gtggtgactc 201 ATATATACAT TTTACAATCA CTTGCTAGAC CAACGGGCTT CACTTGTTTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00117 Mean Expected Number 0.003 +strand -103 : -91 AAgTATTTTTAAA AC RSP00421 Mean Expected Number 0.005 -strand -9 : -15 ACCGAGA AC RSP00750 Mean Expected Number 0.007 -strand +20 : +9 TgATTGTAAAAT AC RSP00871 Mean Expected Number 0.005 +strand -8 : +2 GGTGAcTCAT AC RSP01017 Mean Expected Number 0.007 -strand +51 : +44 AGAAACAA Totally 5 motifs of 5 different REs have been found Description of REs found 115. Group RE: AT-1 (2) /AC: RSP00117//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (2) /TF: unknown 402. Group RE: DRE1 /AC: RSP00421//OS: Zea mays /GENE: rab17/RE: DRE1 /TF: unknown 712. Group TF: GT-1 /AC: RSP00750//OS: Catharanthus roseus /GENE: STR/RE: BN rev /TF: GT-1 807. Group RE: GLM1 /AC: RSP00871//OS: Triticum aestivum /GENE: LMWG-1D1/RE: GLM1 /TF: unknown 942. Group TF: AEF /AC: RSP01017//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 2 /TF: AEF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G01110 |PROD: the same as GENE |52869..54685 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +153 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.15 T - 0.42 C - 0.14 1 tttattacgc aagagaaaat tacgctgctg ttgtcatcca gacttctttc 51 agaggatatt tggtgagcaa ttattaatga cctatatttt tactttcatt 101 tttttaacca acttgacttc tagaccactt tttagtgACA ATgatgtgtg 151 tctatgtcTA TAAAATtaac attgcttata caagatctac catttaaaag 201 ATTGGGATTT CATTTAGATA ATTTTTTTTT GGGTCTTGAT ATAAGTTTTG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00228 Mean Expected Number 0.001 -strand -56 : -67 ATCATTgTCACT AC RSP00953 Mean Expected Number 0.007 +strand -133 : -125 CAATTATTA AC RSP01640 Mean Expected Number 0.008 +strand -49 : -40 CTATGTCTaT Totally 3 motifs of 3 different REs have been found Description of REs found 221. Group TF: GT-1 /AC: RSP00228//OS: Pisum sativum /GENE: rbcS-3A/RE: BOX III /TF: GT-1 880. Group TF: ATHB6 /AC: RSP00953//OS: Arabidopsis thaliana /GENE: ATHB6/RE: ATHB6 BS /TF: ATHB6 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: AP2 domain-containing transcription factor |LOCUS: AT1G01250 |PROD: the same as GENE |complement(104491..105324) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +15 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.18 T - 0.29 C - 0.16 1 tgaaatagaa ttacgcacac tacgtactac tatccatttg gcagtagatt 51 tggaaaatta cattccggta atcgaaagtc tatgatttaa atgtacgttg 101 ggggcattta tgtaaattca gataataaac agtaacgctt ttggttagaa 151 aatgggattg gatgagatTA TAAATGtaga taacagtgtg acttaaccac 201 ATAACAAACT CTTTAATGTC ACCACAGAGA ATGAAGCTAT CATCACCACC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00157 Mean Expected Number 0.009 +strand -95 : -84 ATTTATgTAAAT AC RSP00157 Mean Expected Number 0.009 -strand -84 : -95 ATTTAcATAAAT AC RSP00192 Mean Expected Number 0.002 +strand +2 : +13 TAACAAACTCTt AC RSP00377 Mean Expected Number 0.003 -strand -38 : -47 AtCCAATCCC AC RSP00559 Mean Expected Number 0.004 +strand -90 : -80 TGTAAaTTCAG AC RSP00683 Mean Expected Number 0.002 -strand -159 : -168 GCCAAaTGGA AC RSP01013 Mean Expected Number 0.003 -strand -161 : -170 CAAATGGAtA AC RSP01071 Mean Expected Number 0.006 -strand -100 : -109 CcAACGTACA Totally 8 motifs of 7 different REs have been found Description of REs found 152. Group RE: D2 /AC: RSP00157//OS: Glycine max /GENE: GmAux28/RE: D2 /TF: unknown 185. Group RE: AACA motif /AC: RSP00192//OS: Oryza sativa /GENE: Gt3/RE: AACA motif /TF: unknown 362. Group RE: LS5 /AC: RSP00377//OS: Lemna gibba /GENE: Lhcb2 (cabAB19)/RE: LS5 /TF: unknown 535. Group RE: 2'/Box II J1 /AC: RSP00559//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: 2'/Box II J1 /TF: unknown 652. Group TF: GBF3 /AC: RSP00683//OS: Arabidopsis thaliana /GENE: Adh/RE: -190 half G-box (core) /TF: GBF3 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 989. Group TF: PvAlf /AC: RSP01071//OS: Arachis hypogea; Phaseolus vulgaris /GENE: Em/RE: Em1c /TF: PvAlf ||Identical REs AC: RSP01153 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G02070 |PROD: the same as GENE |complement(370257..370967) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +20 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.19 T - 0.27 C - 0.17 1 acaaaaggaa ggagaaaaca gtcatttccg aaaaactccc cattttaagg 51 ttggctttct ctctaaaacc gaaaagtgaa aacgacggca agcaaactct 101 ctagtctacc tgtacatttt tactaacacg catagttgta taattacttt 151 aaacatcacg gcctaacaTA TATATAcaag ggtcgatata tataaataat 201 AAAGATTGTG AAGATATATC ATGGAGAGAG TGTGTTGCAT GTGCGGTGAT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00157 Mean Expected Number 0.007 +strand -15 : -4 ATaTATATAAAT AC RSP00157 Mean Expected Number 0.007 -strand -4 : -15 ATTTATATAtAT AC RSP00535 Mean Expected Number 0.001 +strand -40 : -25 GCCT-- +6 bp --TATATA AC RSP00566 Mean Expected Number 0.001 -strand -20 : -29 CCTTGTATAT AC RSP01205 Mean Expected Number 0.004 +strand -161 : -152 CCATTTTAAG Totally 5 motifs of 4 different REs have been found Description of REs found 152. Group RE: D2 /AC: RSP00157//OS: Glycine max /GENE: GmAux28/RE: D2 /TF: unknown 511. Group RE: LRE-TATA AA1 /AC: RSP00535//OS: Lycopersicon esculentum /GENE: rbcS3C/RE: LRE-TATA AA1 /TF: unknown 542. Group RE: TATA P /AC: RSP00566//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: TATA P /TF: unknown 1115. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01205//OS: Arabidopsis thaliana /GENE: AtCRC/RE: EM2 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: FUS5 |LOCUS: AT1G02090 |PROD: |complement(387278..389646) |SUPPORT | 9 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +78 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.22 T - 0.26 C - 0.16 1 aagaagaata ttcaatagtc tctctcttcc ccgggattgt ttgggctcac 51 cagacgcggt ttctaatatt tctcttagta ggccttggcc cagaaactac 101 gaaatttgag cCCAATtatt aaacaagatt ctagaagaat tcggtcggtc 151 acataaaaaa aacagtaaTA TAAAAAcgga agaaggaagg agcagagaga 201 AGAAGTTTGG GATTTTATTC GTTATTAGTG TGGTAAGAAA GAAAACCCTA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.002 -strand +51 : +43 TTAGGGTTT AC RSP00369 Mean Expected Number 0.002 +strand +43 : +51 AAACCCTAA AC RSP00653 Mean Expected Number 0.007 -strand +1 : -10 TTCTCTCTgCT AC RSP00860 Mean Expected Number 0.009 +strand +36 : +44 AGAAAGAAA AC RSP00864 Mean Expected Number 0.000 -strand -174 : -182 AGAGAGAGA AC RSP00953 Mean Expected Number 0.003 +strand -88 : -80 CAATTATTA AC RSP01031 Mean Expected Number 0.007 -strand -69 : -76 AGAATCTT AC RSP01303 Mean Expected Number 0.003 +strand +42 : +51 aAAACCCTAA Totally 8 motifs of 8 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 880. Group TF: ATHB6 /AC: RSP00953//OS: Arabidopsis thaliana /GENE: ATHB6/RE: ATHB6 BS /TF: ATHB6 956. Group TF: AEF /AC: RSP01031//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 2 /TF: AEF 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: SAM1 |LOCUS: AT1G02500 |PROD: S-adenosylmethionine synthetase 1 (SAM1) |518251..520437 |SUPPORT | 2 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +786 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.15 T - 0.28 C - 0.22 1 gaccaatcgg tccccaatag tcagaaaatt ttgaaaataa tgccaaaaaa 51 tagtaaatat tggtaggcca actccaaagc caaatacata tatatttctt 101 tacaagtcca aagtagggtg gtttaaccaa ataaaccggt gaccagtcat 151 tagtgaaccg taaaaggccT ATAAATAacc aacgtgttct gactcacttt 201 CTCGTCTCAA ACCGTTCCTT CTCTTTTAAC ACTTGTTCTT TTAAGGCAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00158 Mean Expected Number 0.010 -strand -68 : -78 TATTTGgTTAA AC RSP01006 Mean Expected Number 0.001 -strand -79 : -85 ACCACCC AC RSP01296 Mean Expected Number 0.007 +strand -32 : -24 CTATAAATA AC RSP01635 Mean Expected Number 0.001 +strand -129 : -119 CTCCAAAGCCA Totally 4 motifs of 4 different REs have been found Description of REs found 153. Group RE: D3 /AC: RSP00158//OS: Glycine max /GENE: GmAux28/RE: D3 /TF: unknown 931. Group TF: PtMYB1; PtMYB4 /AC: RSP01006//OS: Pinus sylvestris /GENE: PsGS1b/RE: GS1b AC box 1 (AC-II) /TF: PtMYB1; PtMYB4 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1455. Group RE: TERE /AC: RSP01635//OS: Arabidopsis thaliana /GENE: XCP1/RE: TERE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: EMB2386 |LOCUS: AT1G02780 |PROD: 60S ribosomal protein L19 (RPL19A) |complement(607821..609435) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +44 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.16 T - 0.31 C - 0.18 1 ccgtgtttct aaacctcaat ttataaattt ggtgtagctt ttcaaccttg 51 atgaaattat tacatagaat cattcgttaa aagacttata attgggttta 101 gaaaagccca ttttaaattt aaagcCCAAT atactgctcg aaaaggagga 151 aaccctagaa acattgtggt aTATAAATTc ttttcgtctc gttcgctaat 201 CAGTTCTCCG CCACACCAAT CTCCAGAAAA GGGGAGAAGC AAAAATGGTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00501 Mean Expected Number 0.004 -strand -61 : -67 CGAGCAG AC RSP01033 Mean Expected Number 0.006 -strand +32 : +23 CCTTTTCTGG AC RSP01103 Mean Expected Number 0.006 +strand -190 : -183 AAACCTCA Totally 3 motifs of 3 different REs have been found Description of REs found 477. Group TF: EmBP-1 /AC: RSP00501//OS: Triticum aestivum /GENE: Em/RE: Em2 /TF: EmBP-1 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1021. Group RE: AC1 /AC: RSP01103//OS: Spinacia oleracea /GENE: rps22/RE: AC1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G02820 |PROD: the same as GENE |complement(623782..624474) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +170 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.11 T - 0.27 C - 0.22 1 taaaacaagt tgttaattac atacaaaacg actttgaaaa caattttaat 51 tataagttac aactaacttt aaaaccctaa acccaaaaaa aaaaatcaaa 101 agaaacagaa aACAATaact ttgggtgaaa gcctaaattg acgcagccta 151 tctgctctgc ttcctctaTA TAAACCctcc tctcatctct cttccttctc 201 ATCTATCCTG CAAAGCATTT TGAAATCTGT CAAGAGAGAT AGGACGACCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00144 Mean Expected Number 0.002 -strand -74 : -79 CACCCA AC RSP00279 Mean Expected Number 0.007 -strand -121 : -129 TTAGGGTTT AC RSP00369 Mean Expected Number 0.007 +strand -129 : -121 AAACCCTAA AC RSP00385 Mean Expected Number 0.009 -strand +26 : +19 ATTTCAAA AC RSP01065 Mean Expected Number 0.001 -strand +9 : -2 AGGATaGATGA AC RSP01600 Mean Expected Number 0.007 -strand -162 : -169 TTTCAAAG Totally 6 motifs of 6 different REs have been found Description of REs found 140. Group TF: SEF3 /AC: RSP00144//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: SEF3 BS 1 /TF: SEF3 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 370. Group RE: ERE-core /AC: RSP00385//OS: Dianthus caryophillus /GENE: GST1/RE: ERE-core /TF: unknown ||Identical REs AC: RSP00893 984. Group RE: Fungus RE /Group TF: homeodomain TF /AC: RSP01065//OS: Arabidopsis thaliana /GENE: At5g64250/RE: Fungus RE /TF: homeodomain TF 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: SR1 |LOCUS: AT1G02840 |PROD: pre-mRNA splicing factor SF2 (SF2) / SR1 protein |626741..629819 |SUPPORT | 13 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +177 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.16 T - 0.34 C - 0.20 1 tccataaagt tggaatggtc acaggcaaat gaacctatct aacaacaagc 51 cagtttcgga gacatgtaat ttttttgttt gtgagaattt tttaagttgc 101 tttctttgta atgttttaag attttgatta aagcagataA TTGAaacgtt 151 tcttcgccac actatagtaT ATAAAAGgct cacgtgactc acgtgacgct 201 CCCTTATTAA CCTATATCGT TCGCCAACTT CGAAACCCTA AATTCCCAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.002 -strand +41 : +33 TTAGGGTTT AC RSP00369 Mean Expected Number 0.002 +strand +33 : +41 AAACCCTAA AC RSP00985 Mean Expected Number 0.009 -strand -161 : -170 AGaTAGGTTC AC RSP01061 Mean Expected Number 0.000 -strand -9 : -17 GTGAGTCAC AC RSP01303 Mean Expected Number 0.004 +strand +32 : +41 gAAACCCTAA AC RSP01642 Mean Expected Number 0.004 -strand -134 : -143 AcATGTCTCC Totally 6 motifs of 6 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 906. Group TF: PBP (Myb305) /AC: RSP00985//OS: Antirrhinum majus /GENE: gPAL2/RE: P-box /TF: PBP (Myb305) 981. Group TF: Hahb-4 /AC: RSP01061//OS: Oryza sativa /GENE: GluA-3/RE: GCN4 motif /TF: Hahb-4 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1462. Group RE: ARE /AC: RSP01642//OS: Nicotiana tabacum /GENE: WIPK/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G03170 |PROD: the same as GENE |769632..770684 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +173 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.12 T - 0.34 C - 0.23 1 catatattta aagtttttca ctagagaaaa actaccaaaa tttggatgat 51 ctggtgccag ttaaaatggt tccatattaa tagggattat aagattttat 101 tatatattca tgcaataaaa ggtgtcgaat aatataaaga atCCAATgcc 151 aagtggactc gccacTATAA ATActtgctc acccctccct cttccctttc 201 ACATTCATTC CTCTCTTCTT AACTAACATC CAATCTCTCT CATTCGTTCC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00522 Mean Expected Number 0.003 -strand -45 : -51 CCACTTG AC RSP00683 Mean Expected Number 0.001 +strand -53 : -44 GCCAAGTGGA AC RSP00863 Mean Expected Number 0.003 -strand +16 : +8 AGAGAGGAA AC RSP00914 Mean Expected Number 0.001 +strand -156 : -147 GATGATCTGG AC RSP00915 Mean Expected Number 0.000 +strand -156 : -147 GATGATCTGG AC RSP01296 Mean Expected Number 0.007 +strand -36 : -28 CTATAAATA AC RSP01301 Mean Expected Number 0.002 +strand -36 : -27 CTATAAATAC Totally 7 motifs of 7 different REs have been found Description of REs found 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 652. Group TF: GBF3 /AC: RSP00683//OS: Arabidopsis thaliana /GENE: Adh/RE: -190 half G-box (core) /TF: GBF3 799. Group TF: BPC1 /AC: RSP00863//OS: Arabidopsis thaliana /GENE: STK/RE: GA-4 /TF: BPC1 845. Group RE: B2 /Group TF: Opaque-2 /AC: RSP00914//OS: Zea mays /GENE: b-32/RE: B2 /TF: Opaque-2 846. Group TF: Opaque-2 /AC: RSP00915//OS: Zea mays /GENE: b-32/RE: B3 /TF: Opaque-2 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: extracellular dermal glycoprotein, putative / EDGP |LOCUS: AT1G03220 |PROD: the same as GENE |787122..788651 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +21 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.11 T - 0.28 C - 0.24 1 aatgaaagaa actagatctg ctttgtgtca ttttcacata aatgagaagc 51 aaaatcacga aaccataaga gtgtcgtatg aattttgaaa gtcaaaataa 101 cgtcacacac cattatCCAA Ttattcaaaa ttagccgaca aaaaaactaa 151 acaaatctca aaaccttgtc TATAAATAca ctcaatcctc ttcttcaaac 201 TCAACATCGT CATCTCTAAC AATGGCGCCT TCTCCGATCA TCTTCTCCGT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01094 Mean Expected Number 0.004 -strand -78 : -89 TAATTGGATAAt AC RSP01296 Mean Expected Number 0.010 +strand -31 : -23 CTATAAATA AC RSP01301 Mean Expected Number 0.002 +strand -31 : -22 CTATAAATAC AC RSP01598 Mean Expected Number 0.004 +strand -175 : -168 TGTCATTT Totally 4 motifs of 4 different REs have been found Description of REs found 1012. Group TF: GT-1 /AC: RSP01094//OS: Pisum sativum /GENE: GS2/RE: GT-1 box /TF: GT-1 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 1419. Group RE: Inr /AC: RSP01598//OS: Spinacia oleracea /GENE: RPL21/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: glutaredoxin family protein |LOCUS: AT1G03850 |PROD: the same as GENE |complement(976099..977760) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +76 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.10 T - 0.35 C - 0.23 1 aaatatattt ttaagttttg gatgatttac actcaacatt aataaataat 51 cataagttta gttatagatc tttattttgg atacggtgac atggcttcgg 101 atatcaagag aatacagttt acacatgctt cATTGAcccc caaagccaaa 151 tgctctccaa aatcctctaT ATAAATTctt taataatcac atctcttacc 201 AAACGAACCC AACTACACAA GTCTCTCTCT CTTTTCCCAT TTCTCCCTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00864 Mean Expected Number 0.003 -strand +32 : +24 AGAGAGAGA AC RSP00864 Mean Expected Number 0.003 -strand +30 : +22 AGAGAGAGA AC RSP00913 Mean Expected Number 0.000 +strand -116 : -107 GGTGACATGG AC RSP01280 Mean Expected Number 0.000 +strand -116 : -106 GGTGACaTGGC Totally 4 motifs of 3 different REs have been found Description of REs found 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 844. Group TF: Opaque-2 /AC: RSP00913//OS: Zea mays /GENE: b-32/RE: B1 /TF: Opaque-2 1179. Group TF: OBF4; OBF5 /AC: RSP01280//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: OBF4; OBF5 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein, Location of ESTs 203I24T7 |LOCUS: AT1G04000 |PROD: the same as GENE |complement(1028105..1029118) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +246 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.13 T - 0.33 C - 0.20 1 caacttttat gagaataaaa aggaacaatt tagtcataaa tttatatttc 51 aatgggtaac ccaaaattga agaaacggta aagcaaagaa ggacaatcca 101 gtaaattcca attgagtggc attaatgtaa ttttATTGAa aagtagaggg 151 taatttaaac ctccagcctc TATAAATTgt cgtaacctac ccattccctt 201 AAACTTTCTG TTATCCCCTC TTTCTCTTAT TCTCTCTCTC TCGCTATCTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00355 Mean Expected Number 0.009 -strand +13 : +6 TAACAGAA AC RSP00864 Mean Expected Number 0.002 -strand +41 : +33 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 -strand +39 : +31 AGAGAGAGA AC RSP01104 Mean Expected Number 0.005 +strand -44 : -37 AAACCTCC AC RSP01639 Mean Expected Number 0.001 -strand -103 : -112 GATTGTCCTT Totally 5 motifs of 4 different REs have been found Description of REs found 340. Group RE: GARE2 /AC: RSP00355//OS: Oryza sativa /GENE: Rep-1/RE: GARE2 /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1022. Group RE: AC2 /AC: RSP01104//OS: Spinacia oleracea /GENE: rps22/RE: AC2 /TF: unknown 1459. Group RE: ARE /AC: RSP01639//OS: Nicotiana tabacum /GENE: PR-Q; ACS2/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: self-incompatibility protein-related |LOCUS: AT1G04645 |PROD: the same as GENE |complement(1293769..1294262) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +24 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.16 T - 0.37 C - 0.17 1 ttattatttt attttttttg tctgggtcaa aaccacacta aattctcatt 51 ttactgattt ggatgtttgt ttggtcacat gacttttaca ctgatttctt 101 tgtttgtttg gTCAATagtc aatgggatag ttactatgtg aagaaaccgt 151 cgagcccttg gaatacTATA AAATcaactc caagagcaac ctgaaaagcc 201 ACATTCATAA ATACAAACAT CAAAATGGAA AAAGTTTCTA TTGTTTGCTT 251 C Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G05060 |PROD: the same as GENE |complement(1451057..1452871) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +14 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.18 T - 0.29 C - 0.18 1 tttttgcaac ctcgggttaa aagtcaaaaa gagcttctct ccaatctatc 51 ttccttcttc aaccttgatc tccaaggttg ggaaatcgtt tttttaatcc 101 tATTGTcgat taaaaatcat atctttttat ggatatctga gaccgaagaa 151 gatataataa tatgTATAAA TAagaagcaa cgagactaat caaccgaaac 201 AACAACAAAA GAAAATGAGT TTTCTTGGAG CAGGGAGACT CGCGGGAAAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00015 Mean Expected Number 0.002 -strand +49 : +42 TTTCCCGC AC RSP01209 Mean Expected Number 0.004 +strand -78 : -69 CTTTTTATGG Totally 2 motifs of 2 different REs have been found Description of REs found 14. Group TF: E2F1 /AC: RSP00015//OS: Arabidopsis thaliana /GENE: AtCDC6/RE: E2F1-BE /TF: E2F1 ||Identical REs AC: RSP00165 RSP00298 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: RCI3 |LOCUS: AT1G05260 |PROD: |1529767..1531438 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +59 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.12 T - 0.28 C - 0.19 1 atctcttcat tagtaagagt attaaaaaac cattttgtaa ttatgaataa 51 aaatttctca aatttttatt gtggcgctga ttatgagcca gaaaaataaa 101 gtagaaaaag agcacatgtt agttagctta gatggaccca cttctactac 151 caaacatgca aactcttcta TATAAACCta tgttaacgtc tcaatacatc 201 ACACAACATA ATCCTCCCAA ACAGAGAGAG TCTCAAAAAT TAAACCAACA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00596 Mean Expected Number 0.006 -strand -126 : -131 GCCACA AC RSP00654 Mean Expected Number 0.005 +strand -66 : -57 gACCCACTTC AC RSP00749 Mean Expected Number 0.003 +strand -169 : -158 ATTTTGTAATTA AC RSP00808 Mean Expected Number 0.009 +strand -83 : -77 GTTAGTT AC RSP01014 Mean Expected Number 0.005 -strand -188 : -197 CtAATGAAGA Totally 5 motifs of 5 different REs have been found Description of REs found 572. Group RE: Box II EE2 /AC: RSP00596//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: Box II EE2 /TF: unknown 628. Group RE: CT-B /AC: RSP00654//OS: Spinacia oleracea /GENE: PetH/RE: CT-B /TF: unknown 711. Group TF: GT-1 /AC: RSP00749//OS: Catharanthus roseus /GENE: STR/RE: BN /TF: GT-1 761. Group TF: Pti4 /AC: RSP00808//OS: Arabidopsis thaliana /GENE: PDF1.2/RE: Myb1 /TF: Pti4 ||Identical REs AC: RSP00810 RSP00812 RSP00813 939. Group TF: GAPF /AC: RSP01014//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 2 /TF: GAPF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G05575 |PROD: the same as GENE |complement(1661690..1662186) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +89 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.13 T - 0.31 C - 0.21 1 tgtataatat tcatacacaa aaaaaactca cgtctacttt gaccaggtca 51 aaatcaaagt ttaaatggaa atcttctaca tatgcgataa attaaattgt 101 ttacttgtgt ttcgtagctt cgaggtctct gcctctggtc aaataaggcc 151 atcttctctt ttcgatctct aTATAAACCa gcgactgtct gattagaaac 201 ATCAATCTCT AACTCATAGA TCTTAAGACA ACAACAACAA CAAAAAAGTC 251 A Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: RanBPM-related |LOCUS: AT1G06060 |PROD: the same as GENE |1832942..1835576 |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +128 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.42 G - 0.10 T - 0.32 C - 0.16 1 caaactataa gatttttttc ccttaatttt tacacctaat caagtaaaaa 51 ggaaaaaaat tagaaaaaga aaaagaaaag taatgttagt ttttactttt 101 tcctattttt ttttgtcaaa aatcgtcaaa ataaccaaaa aacattaaaa 151 aaaaatccaa attaaAATAA ATAaaagaac ttttgttttg ggctttccac 201 ATCGTAAACT ATAATCGGCG TCTCTCCGGA CTCACACCTC ATCGAAATTT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.004 -strand -100 : -111 AAAAAGTAAAAA AC RSP00847 Mean Expected Number 0.003 +strand +34 : +43 aCACCTCATC AC RSP00997 Mean Expected Number 0.003 -strand +43 : +34 GATGAGGTGT Totally 3 motifs of 3 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 789. Group RE: NON /AC: RSP00847//OS: Zea mays /GENE: H3C4/RE: NON /TF: unknown 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ADS1 |LOCUS: AT1G06080 |PROD: delta 9 desaturase (ADS1) |1843569..1846299 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +91 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.11 T - 0.31 C - 0.22 1 ttttattatt ttcacaccaa gttaatgaag tgataacgac tacgtcccaa 51 ctgcaacaat ttacagatag gataaaaaag aggtagcatg cattagagaa 101 taaattacgg cgtccgttag taagTCAATt cactctattc aattttttac 151 cctccatgct acTATAAATT acaacgatac tcactcacaa aacctaaacc 201 ACTATAACAC TCTTTATACA AACTTCAAAT CCACAAAGAG TCTTTTTTTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00022 Mean Expected Number 0.009 -strand -192 : -200 ATAATAAAA AC RSP00880 Mean Expected Number 0.004 +strand -153 : -144 CAACtGCAAC AC RSP01135 Mean Expected Number 0.001 +strand -136 : -124 AGATAGGATAAAA Totally 3 motifs of 3 different REs have been found Description of REs found 21. Group TF: PCF1 /AC: RSP00022//OS: Pisum sativum /GENE: petE/RE: A/T-rich BOX1 /TF: PCF1 816. Group TF: Dof family /AC: RSP00880//OS: Hordeum vulgare /GENE: Al21/RE: M1 /TF: Dof family 1053. Group RE: I-box-like sequence /AC: RSP01135//OS: Cucumis melo /GENE: Cucumisin/RE: I-box-like sequence /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G06135 |PROD: the same as GENE |1862196..1862741 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +110 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.13 T - 0.29 C - 0.18 1 gatcaattcc tacgcttgtt ttatcaaata tttgaaagcc atttgttttt 51 gtagtaaagt caaagtcaaa gatatatata catacatata caagctagtg 101 aggatgatcc caaagtcaag ccatgaggtg ttgaCCAATa actctacata 151 taTATATATA tatatatata tatagactta aaatgaaacc ccatgcaaac 201 AAAAAAAGGC CTACACTCTA CAACCAATTT TACGTGCCAA TACACACAGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00727 Mean Expected Number 0.006 -strand -80 : -86 GCTTGAC AC RSP01033 Mean Expected Number 0.008 -strand +9 : -1 CCTTTTTTTG Totally 2 motifs of 2 different REs have been found Description of REs found 690. Group RE: U-box /AC: RSP00727//OS: Nicotiana tabacum /GENE: Ubi.U4/RE: U-box /TF: unknown 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ATGPAT1/GPAT1 |LOCUS: AT1G06520 |PROD: |complement(1993977..1996111) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +45 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.14 T - 0.35 C - 0.21 1 attagataaa aactttatag acgttgtgtc gttgagttaa tgcgagagag 51 atgtgtgggt taaccaaaat taaaatagaa aagaagaagt taatttaaaa 101 gcaaattttt ttaaaaaggg tcaaccttca caccaccttt gcactcgcct 151 atcatcatca ctcacttaTA TAAACCtcct ctgttacttc tttgtcttct 201 CCAACACATT TACTTTTCTT CTTCTTCTCT CTCTACGCCA TAGCTATGGT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00773 Mean Expected Number 0.002 +strand -168 : -159 TGAGTTAATG AC RSP00864 Mean Expected Number 0.002 -strand +34 : +26 AGAGAGAGA AC RSP01104 Mean Expected Number 0.005 +strand -29 : -22 AAACCTCC Totally 3 motifs of 3 different REs have been found Description of REs found 729. Group RE: Box III /AC: RSP00773//OS: Brassica oleracea /GENE: SLR1/RE: Box III /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1022. Group RE: AC2 /AC: RSP01104//OS: Spinacia oleracea /GENE: rps22/RE: AC2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: glutaredoxin family protein |LOCUS: AT1G06830 |PROD: the same as GENE |2097150..2097654 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +38 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.16 T - 0.35 C - 0.21 1 catattattg gtccttacaa tcaaaagggt aaaggctgcc gaagaaaagg 51 ttcggtctcg tcgaatcatc ttgctcatat ataataaagt cggacttggg 101 aacattttca acgatcttct tgtgatctct gtatgtggat tcttattcag 151 ttattcttcc ctcctgtTAT AAATAgcctg agactctagc tactcctttc 201 AATCCATATA CTTCTTCTTC TTCACCTTAT GCAAGATAAT GGACAAAGTT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00035 Mean Expected Number 0.008 +strand -179 : -173 CAAAAGG AC RSP00254 Mean Expected Number 0.006 -strand -151 : -157 CCTTTTC AC RSP01621 Mean Expected Number 0.005 -strand -170 : -179 TACcCTTTTG Totally 3 motifs of 3 different REs have been found Description of REs found 34. Group RE: D1 /Group TF: Dof family /AC: RSP00035//OS: Hordeum vulgare /GENE: Al21/RE: D1 /TF: Dof family 247. Group RE: Py box /AC: RSP00254//OS: Hordeum vulgare /GENE: Amy pHV19/RE: Py box /TF: unknown ||Identical REs AC: RSP00676 1441. Group TF: GmDof4; GmDof22 /AC: RSP01621//OS: Glycine max /GENE: Synthetic OLIGO/RE: E4 /TF: GmDof4; GmDof22 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G07020 |PROD: the same as GENE |complement(2154900..2156007) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +124 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.25 G - 0.18 T - 0.37 C - 0.20 1 aaagctttga tgtttctgga atatcgcaac tccgtcaaat tcgtatattt 51 gatatctcac actcggataa tttgtgtctg tttcaagttc cagccgatgc 101 aactaaggtc ctgactttga ttcatgtttg ggcctcatat agtgggcatc 151 ttttaatatg ggctTATATA TAtatatata tggatctggt aatccgagtc 201 AACTCAGTCG TCTCAATCCG TGTAACAACT TCATCGTCTT TTTCAGTTCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00195 Mean Expected Number 0.001 +strand +17 : +27 TCCGTGTAaCA AC RSP00459 Mean Expected Number 0.005 -strand +2 : -8 TTGACTCGGA AC RSP00597 Mean Expected Number 0.003 +strand -135 : -124 GaTAATTTGTGT AC RSP00756 Mean Expected Number 0.003 +strand -145 : -138 CTCACACT AC RSP01597 Mean Expected Number 0.002 +strand -59 : -49 GTGGGCATCTT AC RSP01602 Mean Expected Number 0.006 +strand +11 : +18 TCTCAATC Totally 6 motifs of 6 different REs have been found Description of REs found 188. Group RE: Box II /AC: RSP00195//OS: Oryza sativa /GENE: Gt2/RE: Box II /TF: unknown 437. Group TF: O2 /AC: RSP00459//OS: coix /GENE: alpha-coixin/RE: O2u /TF: O2 573. Group RE: GT-1/16 JJ1 /AC: RSP00597//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: GT-1/16 JJ1 /TF: unknown 718. Group RE: submotif B /AC: RSP00756//OS: Solanum tuberosum /GENE: S2-RNase/RE: submotif B /TF: unknown 1418. Group RE: Box II* /AC: RSP01597//OS: Pisum sativum /GENE: rbcS-3.6/RE: Box II* /TF: unknown 1423. Group RE: Inr /AC: RSP01602//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: PCNA1 |LOCUS: AT1G07370 |PROD: proliferating cell nuclear antigen 1 (PCNA1) |2263140..2264549 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +62 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.14 T - 0.29 C - 0.22 1 tcgaaatgaa cttttcttct ttttattaat acaaattaac cctctaactt 51 ttataatgac caaaaatatc catccaattc ttaaaacgat tgaggccggc 101 actagcgcAT TGGcgggaac caaatagctt agaatggcga aatcccgcca 151 gaaaagaaaa agctTATAAA TCggactcct tgaccttata gtgtcaatcc 201 ACTTTCCAAA ATAGCCGCAA ACGATTCTCA TTGTGAACTC TGATAATATC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00299 Mean Expected Number 0.000 -strand -81 : -92 gTTCCCGCCAAT AC RSP00597 Mean Expected Number 0.004 -strand -161 : -172 GTTAATTTGTaT AC RSP01078 Mean Expected Number 0.002 +strand -135 : -124 ATAtCCATCCAA Totally 3 motifs of 3 different REs have been found Description of REs found 288. Group TF: E2F /AC: RSP00299//OS: Nicotiana benthamiana /GENE: PCNA/RE: E2F-2 /TF: E2F 573. Group RE: GT-1/16 JJ1 /AC: RSP00597//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: GT-1/16 JJ1 /TF: unknown 996. Group TF: DcMYB1 /AC: RSP01078//OS: Daucus carota /GENE: DcPAL1/RE: box-L0 /TF: DcMYB1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: protein phosphatase 2C, putative / PP2C, putative |LOCUS: AT1G07430 |PROD: the same as GENE |complement(2280832..2282825) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +172 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.23 T - 0.24 C - 0.12 1 ggtcaagatt gattctaatt tagacgaaag accaacacgt cacgtcgcta 51 gagtaaaaga ttttttgaag gcggagggag aaaaatcaaa agttaaaagt 101 aatttgaaaa cgaggaagag aaaaaggaat tttaaaatgt ttaatgaagc 151 ggtaggccgc atgggtaTAT AAATGggcac gctttgtaac gtgtaacgat 201 GATATTTATT CAACTGCGTG GTATAACCAA AAAAAAAAGA AACACTATTC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00629 Mean Expected Number 0.008 -strand -136 : -143 AAAAATCT AC RSP00889 Mean Expected Number 0.005 -strand +21 : +15 CCACGCA AC RSP01150 Mean Expected Number 0.009 -strand -181 : -191 AATTAgAATCA AC RSP01258 Mean Expected Number 0.002 -strand -159 : -166 TGACGTGT Totally 4 motifs of 4 different REs have been found Description of REs found 605. Group TF: CCA1 /AC: RSP00629//OS: Arabidopsis thaliana /GENE: Lhcb1*3/RE: CCA1 BS2 /TF: CCA1 821. Group RE: GC motif /Group TF: bZIP TF /AC: RSP00889//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: GC motif /TF: bZIP TF 1066. Group RE: C-DP BS2 /AC: RSP01150//OS: Cucumis sativus/GENE: POR/RE: C-DP BS2 /TF: unknown 1160. Group TF: GBF1 /AC: RSP01258//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS5 /TF: GBF1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: MT1C |LOCUS: AT1G07610 |PROD: metallothionein-like protein 1C (MT-1C) |2341539..2342120 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +61 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.46 G - 0.13 T - 0.27 C - 0.14 1 acaagaaagc tatatgtata tctcatatac aaaaactttg ctaaccctat 51 catatacgaa actaaaactt acaggaaaat ataaaatata tatagggagg 101 ttgacaaaag ataatatata tatataggaa atgtatggtg gatataaaac 151 cgatatttta tattcttcTA TATATActgg ccattccctt agttgaaatc 201 ACATAAAGCA TCAGAAGAAG AAAAAGAAAA CTACAAAATC AATCAAAGAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00093 Mean Expected Number 0.009 -strand -57 : -63 TATCCAC AC RSP00333 Mean Expected Number 0.001 -strand -63 : -71 CCATACATT Totally 2 motifs of 2 different REs have been found Description of REs found 91. Group RE: TATCCAC box /AC: RSP00093//OS: Hordeum vulgare /GENE: Amy pHV19/RE: TATCCAC box /TF: unknown ||Identical REs AC: RSP01050 319. Group TF: S2F /AC: RSP00333//OS: Spinacia oleracea /GENE: RPL21/RE: S2 /TF: S2F ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G07980 |PROD: the same as GENE |complement(2473162..2474924) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +17 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.19 T - 0.27 C - 0.18 1 aatgttttac gaggtgtatg cgaaacagtg aaagcatgtc caataattta 51 ttttgaagta gtcgtcatgc atcttcattc ctcaacatca ccatgtccat 101 tccttaaATT GAtcatatga taaatgggcc taaaaggctc aaacaaataa 151 gcccaTGTAA ATAtccatcg atttattcag gcgaaagggt gaaacatact 201 GTAGTTCTAA AAAATTAATG GTGTCGTCAA AGAAACCCAA GGAGAAGAAG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00698 Mean Expected Number 0.004 -strand -22 : -32 TGAATaAATCG AC RSP01470 Mean Expected Number 0.006 +strand -136 : -127 TCATGCATcT Totally 2 motifs of 2 different REs have been found Description of REs found 664. Group RE: Box III /AC: RSP00698//OS: Brassica oleracea /GENE: SLG13/RE: Box III /TF: unknown 1340. Group TF: Opaque-2 (O2) /AC: RSP01470//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z2 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: GPI-anchor transamidase, putative |LOCUS: AT1G08750 |PROD: the same as GENE |2801070..2804540 |SUPPORT | 10 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +216 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.12 T - 0.32 C - 0.17 1 gggataatta attggaattt tttacgaaat caaactgttg aaaaaaaaat 51 caaagagaaa ttctatattg aatttaagaa agtaaaaaac catttaataa 101 aattttaacg ataatttaat gtaaTCAATt tatccaataa ttcacaacaa 151 aatagacaaa gtaatcaTAT AAAAGgattt atttactccg tcgtttgctc 201 CCGTCTTCAC CGTTTCCTTC CACGCCTCCG CCGGCAAGCT AGTTTTCTGA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00057 Mean Expected Number 0.002 +strand +19 : +28 TCCACGcCTC AC RSP00838 Mean Expected Number 0.006 +strand -13 : -8 CCGTCG AC RSP01094 Mean Expected Number 0.005 -strand -61 : -72 TtATTGGATAAA Totally 3 motifs of 3 different REs have been found Description of REs found 56. Group TF: ABF /AC: RSP00057//OS: Zea mays /GENE: rab28/RE: ABRE B /TF: ABF 783. Group RE: CCGTCG motif /AC: RSP00838//OS: Arabidopsis thaliana /GENE: H4A748/RE: CCGTCG motif /TF: unknown 1012. Group TF: GT-1 /AC: RSP01094//OS: Pisum sativum /GENE: GS2/RE: GT-1 box /TF: GT-1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: histone H3 |LOCUS: AT1G09200 |PROD: the same as GENE |complement(2971595..2972201) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +67 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.12 T - 0.31 C - 0.24 1 aaatctgtcc gtagaattgt attaatctac ggttgctgtg atttcacgcg 51 gatcgtgata gaaacctctt atatccgttg attaaaaacc aatgaacgat 101 ccagatctaa tcccgctgaa aaagaaaagc gaaatatttt ccctcccact 151 tcttgtaatt tccagacGAT AAATAtcccc ttcctcaatc gaaacaaact 201 ATCCAGATCT CAACTTTCTC TCATCTTCAA ATTAAAATCA AACAGTTTCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00272 Mean Expected Number 0.001 +strand -157 : -147 TCACGCGGATC AC RSP00431 Mean Expected Number 0.006 +strand -176 : -165 ATCtACGGTTGC AC RSP00839 Mean Expected Number 0.001 +strand -154 : -147 CGCGGATC AC RSP01733 Mean Expected Number 0.009 -strand -150 : -155 CCGCGT Totally 4 motifs of 4 different REs have been found Description of REs found 264. Group RE: Type II element /AC: RSP00272//OS: Nicotiana tabacum /GENE: artifical construction/RE: Type II element /TF: unknown 411. Group TF: AtMYB77 /AC: RSP00431//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AtMYB77 BS /TF: AtMYB77 784. Group RE: OCT /AC: RSP00839//OS: Arabidopsis thaliana /GENE: H4A748/RE: OCT /TF: unknown ||Identical REs AC: RSP00845 1541. Group TF: CAMTA3 /AC: RSP01733//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM2 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: nicotianamine synthase, putative |LOCUS: AT1G09240 |PROD: the same as GENE |2984883..2986132 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +69 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.11 T - 0.27 C - 0.20 1 taaataaatc ttttacttca aaacctaaat ataaggatct attcttaatt 51 agttaaacaa aaaaagaaac aaaaacgcaa gtgtacgtta tatagtatat 101 ttgaataatg aaatgttaaa ataattagat tctttttcta gttgatgtag 151 atccccaacc ccacgccAAT AAATAtccat ccctccagtc caaacagttc 201 ACACCACCCG AGAACACACG ATTATTCTCC AAAGAGAAAG AGAAAAATCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00861 Mean Expected Number 0.002 +strand +35 : +43 AGAAAGAGA AC RSP00887 Mean Expected Number 0.001 -strand -67 : -75 AAGAATCTA AC RSP01092 Mean Expected Number 0.005 -strand -66 : -76 AaAGAATCTAA AC RSP01435 Mean Expected Number 0.004 +strand -49 : -40 TCCCCAACCc AC RSP01711 Mean Expected Number 0.007 -strand -60 : -69 CTAGAAAAAG Totally 5 motifs of 5 different REs have been found Description of REs found 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 819. Group TF: CCA1 /AC: RSP00887//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: CCA1 motif (1) /TF: CCA1 1010. Group RE: box 1* /AC: RSP01092//OS: Pisum sativum /GENE: GS2/RE: box 1* /TF: unknown 1308. Group TF: RNFG2 /AC: RSP01435//OS: Oryza sativa /GENE: RSs1/RE: BoxII /TF: RNFG2 1519. Group TF: RIN /AC: RSP01711//OS: Solanum lycopersicum /GENE: Synthetic OLIGO/RE: RIN BSC Others /TF: RIN ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G09380 |PROD: the same as GENE |complement(3026137..3029551) |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +227 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.13 T - 0.35 C - 0.16 1 agcaaggaga aaatttaaat aaattgccaa aaatatcaaa tgattcatat 51 cacctattgt ttcgtgttct tatgccctaa agagagtcca agtgttacaa 101 gcaaacttca ttctcgaacc gtttctcacc tttctgttta aaacatctct 151 ctctatatat atgtatgtaT ATAAATAaat atatgtatgt gcatgtatat 201 ATAAATGTGT GTATATATAC ATCTTTGGCT ATAAATATAA GGTCGAACCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00016 Mean Expected Number 0.004 -strand -6 : -12 CATGCAC AC RSP00103 Mean Expected Number 0.003 -strand -9 : -18 GCACATACaT AC RSP00864 Mean Expected Number 0.001 -strand -47 : -55 AGAGAGAGA AC RSP01237 Mean Expected Number 0.002 +strand -50 : -41 CTCTATATAT AC RSP01296 Mean Expected Number 0.010 +strand +29 : +37 CTATAAATA Totally 5 motifs of 5 different REs have been found Description of REs found 15. Group RE: RY /AC: RSP00016//OS: Glycine max /GENE: beta-conglycinin/RE: RY /TF: unknown 101. Group RE: Z element /AC: RSP00103//OS: Agrobacterium tumefaciens /GENE: nos/RE: Z element /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G10380 |PROD: the same as GENE |3400607..3402325 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +100 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.12 T - 0.33 C - 0.16 1 gtttggtttt gcacattatc taatgttgta atccgtcata tgatggtatg 51 tatagataat agacccaacc aaaagaatct aggatttaac aacaacaaaa 101 aaagtaaaaa actatatata aactaattta tattcttatA TTGAcaaaaa 151 taaacgccta tgttttgcaT ATAAATGtac attcacatat gcaatttagt 201 ATCCCGCTTA GCATTGCATC TATATTAGGT TACATTCACT CACACAATTC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00006 Mean Expected Number 0.004 -strand -72 : -85 AAATTAgTTTATAT AC RSP00021 Mean Expected Number 0.001 +strand -102 : -91 AAAAAGTAAAAA AC RSP00127 Mean Expected Number 0.007 -strand +8 : +3 AGCGGG AC RSP00716 Mean Expected Number 0.001 -strand -190 : -198 CAAAACCAA AC RSP00887 Mean Expected Number 0.004 +strand -128 : -120 AAGAATCTA Totally 5 motifs of 5 different REs have been found Description of REs found 6. Group RE: ATRE /AC: RSP00006//OS: Glycine max /GENE: GS15/RE: ATRE /TF: unknown 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 125. Group RE: BS1 /AC: RSP00127//OS: Eucalyptus gunnii /GENE: CCR/RE: BS1 /TF: unknown 681. Group RE: GT motif /AC: RSP00716//OS: Arabidopsis thaliana /GENE: Adh/RE: GT motif /TF: unknown 819. Group TF: CCA1 /AC: RSP00887//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: CCA1 motif (1) /TF: CCA1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ZFP5 |LOCUS: AT1G10480 |PROD: zinc finger (C2H2 type) family protein |3449692..3451227 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +43 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.07 T - 0.33 C - 0.21 1 tttattataa accctaaaat actataactt gatgctgttc atgactaata 51 taaaaaaccc ttcatacaat ataaaatttc tttagacata caatatatta 101 tactattaca gatGCAATgc atcattagtt acaaactatt aaactaaata 151 tcccccgtct ctctcttgct aTATAAAGAa gatcatttac acatctcctt 201 AAGCAAATTA AACCCATCGA TAAACACATA CGTTCACACA TATATGTCTA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00103 Mean Expected Number 0.003 +strand +24 : +33 aCACATACGT AC RSP00279 Mean Expected Number 0.007 -strand -184 : -192 TTAGGGTTT AC RSP00369 Mean Expected Number 0.007 +strand -192 : -184 AAACCCTAA AC RSP00864 Mean Expected Number 0.002 -strand -35 : -43 AGAGAGAGA AC RSP00934 Mean Expected Number 0.007 -strand -50 : -59 ATATTTAGTT AC RSP01233 Mean Expected Number 0.009 -strand -31 : -37 AGCAAGA AC RSP01303 Mean Expected Number 0.002 +strand -193 : -184 TAAACCCTAA AC RSP01304 Mean Expected Number 0.007 +strand -193 : -184 TaAACCCTAA AC RSP01499 Mean Expected Number 0.003 +strand -50 : -41 TcCCCCGTCT Totally 9 motifs of 9 different REs have been found Description of REs found 101. Group RE: Z element /AC: RSP00103//OS: Agrobacterium tumefaciens /GENE: nos/RE: Z element /TF: unknown 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 863. Group RE: AT-2b /AC: RSP00934//OS: Pinus sylvestris /GENE: GS1a/RE: AT-2b /TF: unknown 1138. Group RE: PLE-79 /AC: RSP01233//OS: Collettrichum lindemuthianum (bean pathogen) /GENE: CLPG2/RE: PLE-79 /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1197. Group RE: Telo box /AC: RSP01304//OS: Lycopersicon esculentum /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1360. Group RE: CS6 /AC: RSP01499//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS6 /TF: unknown ||Identical REs AC: RSP01500 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: DNA-binding protein-related |LOCUS: AT1G10590 |PROD: the same as GENE |complement(3502045..3503458) |SUPPORT | 3 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +424 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.22 T - 0.30 C - 0.14 1 cacggtccag tgaaattggt tttgataacc gattcggaga atagagggtg 51 taatcagtat tagtcaaagt tataaggtca atcttaaata tataaaaaaa 101 tataagggta gttttaatga agatgtttca gaaacatgac acgtgttgag 151 gtcacggatc tacggtgagT ATTAATAtct gagttctaga gttataaaga 201 AGACCGCCGC GTCTTTGTGT ATATCGCCTC CACAGATCTA ATCGCTAAAG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00097 Mean Expected Number 0.001 +strand -199 : -192 ACGGTCCA AC RSP00142 Mean Expected Number 0.001 +strand +5 : +11 CGCCGCG AC RSP00524 Mean Expected Number 0.008 +strand -62 : -56 ACACGTG AC RSP00524 Mean Expected Number 0.007 -strand -55 : -61 ACACGTG AC RSP00716 Mean Expected Number 0.002 -strand -177 : -185 CAAAACCAA AC RSP00836 Mean Expected Number 0.001 +strand -48 : -41 CACGGATC AC RSP00892 Mean Expected Number 0.003 +strand -29 : -21 TTAATATCT AC RSP00940 Mean Expected Number 0.005 +strand -43 : -34 aTCTACGGTG AC RSP01016 Mean Expected Number 0.010 +strand -71 : -64 AGAAACAT AC RSP01035 Mean Expected Number 0.008 -strand -57 : -63 ACGTGTC AC RSP01256 Mean Expected Number 0.002 +strand -62 : -55 ACACGTGT AC RSP01256 Mean Expected Number 0.002 -strand -55 : -62 ACACGTGT AC RSP01463 Mean Expected Number 0.003 -strand -104 : -116 tTTTATATATTTA AC RSP01507 Mean Expected Number 0.001 -strand -41 : -48 GATCCGTG Totally 14 motifs of 12 different REs have been found Description of REs found 95. Group RE: 9-mer box /AC: RSP00097//OS: Zea mays /GENE: GapC4/RE: 9-mer box /TF: unknown 138. Group RE: GC-rich motif /AC: RSP00142//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: GC-rich motif /TF: unknown 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 681. Group RE: GT motif /AC: RSP00716//OS: Arabidopsis thaliana /GENE: Adh/RE: GT motif /TF: unknown 781. Group RE: dOCT /AC: RSP00836//OS: Arabidopsis thaliana /GENE: H4A748/RE: dOCT /TF: unknown ||Identical REs AC: RSP00852 824. Group TF: Dof family /AC: RSP00892//OS: Solanum melongena /GENE: SmCP/RE: EE 2 /TF: Dof family 869. Group TF: GBF /AC: RSP00940//OS: Lycopersicon esculentum /GENE: RbcS-3.6/RE: box II* /TF: GBF 941. Group TF: AEF /AC: RSP01016//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 1 /TF: AEF 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1159. Group TF: GBF1 /AC: RSP01256//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS3 /TF: GBF1 1333. Group RE: AT-rich ELS /AC: RSP01463//OS: Glycine max /GENE: BiP6/RE: AT-rich ELS /TF: unknown 1363. Group RE: Oct-p /AC: RSP01507//OS: Triticum aestivum /GENE: H1 (TH315)/RE: Oct-p /TF: unknown ||Identical REs AC: RSP01508 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G10650 |PROD: the same as GENE |complement(3524019..3526336) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +1017 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.12 T - 0.31 C - 0.25 1 gcgtaatgaa agagaaatac acaactcacg aaagaaaaga cgagaaagca 51 ccaccaacgg ttcttgtttg gtgtttacat ttactatcaa ccattttttg 101 tttcttttct caaagttttt ttttgttttg aatgattcaa aaaaaaaaaa 151 cgTATTAATA atttcatatc gaaaatcgcc aacccaactt cccccacttc 201 TTCCACCACT GTCCCGCTCC ATCGCACCCG CTTTGCTTAC CACATCCATC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01017 Mean Expected Number 0.006 -strand -96 : -103 AGAAACAA AC RSP01702 Mean Expected Number 0.008 +strand -54 : -45 AAaACGTATT Totally 2 motifs of 2 different REs have been found Description of REs found 942. Group TF: AEF /AC: RSP01017//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 2 /TF: AEF 1511. Group RE: ACGT1 /AC: RSP01702//OS: Arabidopsis thaliana /GENE: XERO2/RE: ACGT1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ACLA-1 |LOCUS: AT1G10670 |PROD: expressed protein |3535512..3538282 |SUPPORT | 12 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +276 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.15 T - 0.31 C - 0.12 1 taatccaaat tctaatgcaa ttatttgcta aatcctacaa aagtatatac 51 tataaagatt tgagaaagaa ataaacatta aattatgtgc atatgtaaaa 101 tgattgttgg ttataatact aaataataaa gtttataACA ATattttaca 151 aatttggaag ttgcaacTAT AAATGgtaaa ttcggtcctt aagattagaa 201 GACAAAGAAG AGTCGTGTTG GTGAGCTAAC TACCCAACCT GTGAAGCTAC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00158 Mean Expected Number 0.009 +strand -179 : -169 TATTTGCTaAA AC RSP00950 Mean Expected Number 0.000 -strand +25 : +15 CTCACCAACaC AC RSP00998 Mean Expected Number 0.001 -strand -67 : -80 AAACTTTATtATTT Totally 3 motifs of 3 different REs have been found Description of REs found 153. Group RE: D3 /AC: RSP00158//OS: Glycine max /GENE: GmAux28/RE: D3 /TF: unknown 879. Group RE: CTCACCAACCC motif /AC: RSP00950//OS: Petroselinum crispum /GENE: 4CL-1/RE: CTCACCAACCC motif /TF: unknown 919. Group TF: 3AF5 /AC: RSP00998//OS: Nicotiana tabacum /GENE: rbcS-3A/RE: 5'-III element /TF: 3AF5 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G10770 |PROD: the same as GENE |complement(3591634..3592412) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +49 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.46 G - 0.11 T - 0.26 C - 0.17 1 gagtatactt atgtatcaaa gaagtattgt cctatgctta aaaaagataa 51 aagaagataa tctccttaaa acaagataaa cctcagattg cattacatta 101 aaataaaacg agaaaacgca aaacgcgcac caccaACAAT ttcaaaacca 151 aaaaaacttg tcTATATATA acgtgattaa ctcctgcatt gaaaaatgac 201 CTGGTGATAA TTTCTTCTCA ATTCAAATAC ATAAATAAAT ATCAATAAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00734 Mean Expected Number 0.006 +strand -82 : -75 CAAAACGC AC RSP01210 Mean Expected Number 0.003 -strand -155 : -164 CTTTTTTAAG AC RSP01559 Mean Expected Number 0.007 +strand -78 : -73 ACGCGC AC RSP01699 Mean Expected Number 0.007 +strand -30 : -24 ACGTGAT Totally 4 motifs of 4 different REs have been found Description of REs found 697. Group TF: DET1; CDA-1 /AC: RSP00734//OS: Arabidopsis thaliana /GENE: cab2/RE: CDA-1 BS /TF: DET1; CDA-1 1120. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01210//OS: Lepidium africanum /GENE: LaCRC/RE: EM2 /TF: MADS box TFs 1396. Group TF: AtCAMTA1; AtCAMTA5 /AC: RSP01559//OS: Arabidopsis thaliana /GENE: AVP1/RE: AtCAMTA1/AtCAMTA5 BS /TF: AtCAMTA1; AtCAMTA5 1510. Group RE: CARE B1 /AC: RSP01699//OS: Arabidopsis thaliana /GENE: At2g21640/UPOX/RE: CARE B1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G11380 |PROD: the same as GENE |3832623..3834189 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +72 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.15 T - 0.25 C - 0.17 1 gagcatattg gataagaata aacatcaatc actctttcca ctagacgaat 51 atcttacgtg gcaacagctg taccgttaat aatgacagtt tttagctgtg 101 tttatgaata attaattacc cgccaaatca ctaacgcttt aaaaaaaaca 151 acaactttaa gaaaacaAAT AAATAaataa aagagtatca aaaggcgttc 201 ACCAAAAAAG GTACAAAGTC CTTTGGGAGA AGATATCATC AAAGAGAAAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00043 Mean Expected Number 0.001 +strand -146 : -139 TACGTGGC AC RSP00247 Mean Expected Number 0.001 -strand -139 : -148 GCCACGTAAG AC RSP00248 Mean Expected Number 0.001 -strand -139 : -148 GCCACGTaAG AC RSP00858 Mean Expected Number 0.008 -strand -81 : -88 GGTAATTA AC RSP00877 Mean Expected Number 0.000 +strand -82 : -74 CCCGCCAAA AC RSP01033 Mean Expected Number 0.001 -strand +11 : +2 CCTTTTTTGG AC RSP01034 Mean Expected Number 0.003 +strand -145 : -139 ACGTGGC AC RSP01214 Mean Expected Number 0.005 -strand +11 : +2 CCTTTTTTGG Totally 8 motifs of 8 different REs have been found Description of REs found 42. Group TF: TAF-1 /AC: RSP00043//OS: Oryza sativa /GENE: rab16A-D/RE: Motif I core /TF: TAF-1 240. Group TF: REB /AC: RSP00247//OS: Oryza sativa /GENE: alpha-globulin/RE: REB1 /TF: REB ||Identical REs AC: RSP00738 241. Group TF: REB /AC: RSP00248//OS: Oryza sativa /GENE: alpha-globulin/RE: REB2 /TF: REB 794. Group TF: DF1 /AC: RSP00858//OS: Pisum sativum /GENE: pra2/RE: GT2 /TF: DF1 813. Group TF: AtE2F /AC: RSP00877//OS: Arabidopsis thaliana /GENE: MCM3/RE: Site 2 E2F (D2) /TF: AtE2F 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1122. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01214//OS: Brassica oleracea /GENE: BoCRC/RE: EM1 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G11850 |PROD: the same as GENE |3999201..3999875 |SUPPORT | 1 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +35 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.14 T - 0.31 C - 0.18 1 tacatatcgt ttgacattgt actctttgaa aagagactaa cactaatatg 51 ttagtaagac taatttatat ttagctacat tgtactcaag gtcctatatc 101 caaagtttta tctgcatttA TTGCacactt acattacgta tgtgtgtgta 151 tacataacag ccTATATATA tggtcttgta acacagctca gggattcacc 201 ATAAACAAAA AGAATTTGAA CCAACAAAGC AAAACATGAA AGGCACATTC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00103 Mean Expected Number 0.003 -strand -56 : -65 aCACATACGT AC RSP00447 Mean Expected Number 0.008 +strand +23 : +32 AaCAAAGCAA AC RSP00642 Mean Expected Number 0.008 -strand -81 : -88 TAAATGCA AC RSP01600 Mean Expected Number 0.009 -strand -170 : -177 TTTCAAAG Totally 4 motifs of 4 different REs have been found Description of REs found 101. Group RE: Z element /AC: RSP00103//OS: Agrobacterium tumefaciens /GENE: nos/RE: Z element /TF: unknown 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 617. Group RE: L1-box /AC: RSP00642//OS: Arabidopsis thaliana /GENE: PDF1/RE: L1-box /TF: unknown 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: SEC22 |LOCUS: AT1G11890 |PROD: vesicle transport protein SEC22, putative |4010778..4013122 |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +730 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.16 T - 0.26 C - 0.19 1 cgctaagatg aatgtagcgt ttgtgaagct aattaaacga gccacgtcat 51 caagacatgt caacaaaacg cgtcataagc ccaatcacgt gagggctggt 101 aATTGGtaat cgcaaaacgt agatcgccat aaattaaatt tcgaacagac 151 aaaaaaagaa aagaaaatcA ATAAATAatc atttagtccc tttgtttgat 201 AAACCCTTTA ATTGAAAAAA AAAACAAATT ACTTCTCTTT CCTTCGATCA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00113 Mean Expected Number 0.000 -strand -152 : -160 TGACGTGGC AC RSP00214 Mean Expected Number 0.002 -strand -152 : -159 TGACGTGG AC RSP00215 Mean Expected Number 0.002 +strand -159 : -152 CCACGTCA AC RSP00248 Mean Expected Number 0.002 +strand -160 : -151 GCCACGTCAt AC RSP00460 Mean Expected Number 0.004 +strand -147 : -138 GACATGTCAa AC RSP00653 Mean Expected Number 0.001 +strand +33 : +43 TTCTCTtTCCT AC RSP00734 Mean Expected Number 0.006 +strand -137 : -130 CAAAACGC AC RSP00819 Mean Expected Number 0.001 +strand -160 : -151 GCCACGTCaT AC RSP00821 Mean Expected Number 0.001 +strand -160 : -151 GCCACGTCaT AC RSP00847 Mean Expected Number 0.004 +strand -159 : -150 CCACgTCATC AC RSP00913 Mean Expected Number 0.002 -strand -150 : -159 GATGACGTGG AC RSP00915 Mean Expected Number 0.004 -strand -150 : -159 GATGACGTGG AC RSP00916 Mean Expected Number 0.002 -strand -150 : -159 GATGACGTGG AC RSP00997 Mean Expected Number 0.004 -strand -150 : -159 GATGACGTGG AC RSP01034 Mean Expected Number 0.004 -strand -154 : -160 ACGTGGC AC RSP01275 Mean Expected Number 0.003 +strand -160 : -151 gCCACGTCAT AC RSP01280 Mean Expected Number 0.000 -strand -150 : -160 GaTGACGTGGC AC RSP01692 Mean Expected Number 0.004 +strand +43 : +50 TTCGATCA Totally 18 motifs of 18 different REs have been found Description of REs found 111. Group RE: TGA2 /AC: RSP00113//OS: Glycine max /GENE: GH3/RE: TGA2 /TF: unknown 207. Group TF: TGA1; GBF1 /AC: RSP00214//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: TGA1; GBF1 ||Identical REs AC: RSP01257 RSP01474 208. Group TF: HBP-11(17); HBP-1b(c38) /AC: RSP00215//OS: Triticum aestivum /GENE: H3/RE: Hex /TF: HBP-11(17); HBP-1b(c38) 241. Group TF: REB /AC: RSP00248//OS: Oryza sativa /GENE: alpha-globulin/RE: REB2 /TF: REB 438. Group TF: O2 /AC: RSP00460//OS: coix /GENE: alpha-coixin/RE: O2d /TF: O2 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 697. Group TF: DET1; CDA-1 /AC: RSP00734//OS: Arabidopsis thaliana /GENE: cab2/RE: CDA-1 BS /TF: DET1; CDA-1 765. Group TF: ACE-binding TF /AC: RSP00819//OS: Arabidopsis thaliana /GENE: F3H/RE: ACE-core (AtF3H) /TF: ACE-binding TF 767. Group TF: ACE-binding TF /AC: RSP00821//OS: Arabidopsis thaliana /GENE: FLS/RE: ACE-core (AtFLS) /TF: ACE-binding TF 789. Group RE: NON /AC: RSP00847//OS: Zea mays /GENE: H3C4/RE: NON /TF: unknown 844. Group TF: Opaque-2 /AC: RSP00913//OS: Zea mays /GENE: b-32/RE: B1 /TF: Opaque-2 846. Group TF: Opaque-2 /AC: RSP00915//OS: Zea mays /GENE: b-32/RE: B3 /TF: Opaque-2 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1174. Group RE: ACE 2 /AC: RSP01275//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 2 /TF: unknown 1179. Group TF: OBF4; OBF5 /AC: RSP01280//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: OBF4; OBF5 1509. Group RE: CARE J /AC: RSP01692//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE J /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G12080 |PROD: the same as GENE |4084203..4085041 |SUPPORT | 2 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +84 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.08 T - 0.43 C - 0.18 1 tctaaatcta tgtggcatga ggtgtaaaat tgtacattat ttttttatat 51 aagcaaaaaa ggttctttca tgtgcaatac tcatcatcat ggttctttat 101 agaaattaat ttttttttta atttatattt agtaaaACAA Tttttttatt 151 gtaaaccatt tgcttctacT ATAAATAccc ctcctcttga tcaaatctct 201 TCACTCATCA AAACATCACA TACACTATTT TTCTCCTCTC CTTATTGTCT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00115 Mean Expected Number 0.006 +strand -102 : -92 ATAGAAATtAA AC RSP00596 Mean Expected Number 0.005 -strand -185 : -190 GCCACA AC RSP00621 Mean Expected Number 0.000 +strand -23 : -15 CCCCTCCTC AC RSP00870 Mean Expected Number 0.005 +strand -178 : -169 TGTAAAAtTG AC RSP01296 Mean Expected Number 0.009 +strand -32 : -24 CTATAAATA AC RSP01301 Mean Expected Number 0.002 +strand -32 : -23 CTATAAATAC AC RSP01520 Mean Expected Number 0.008 -strand -178 : -183 ACCTCA Totally 7 motifs of 7 different REs have been found Description of REs found 113. Group TF: ATBP-1 /AC: RSP00115//OS: Pisum sativum /GENE: GS2/RE: BOX 1 /TF: ATBP-1 572. Group RE: Box II EE2 /AC: RSP00596//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: Box II EE2 /TF: unknown 597. Group RE: C-rich Q /AC: RSP00621//OS: Lycopersicon esculentum /GENE: rbcS2/RE: C-rich Q /TF: unknown 806. Group RE: EM2 /AC: RSP00870//OS: Triticum aestivum /GENE: LMWG-1D1/RE: EM2 /TF: unknown 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 1371. Group TF: HBP-1a /AC: RSP01520//OS: Triticum aestivum /GENE: H2B (TH 123)/RE: Hex123-a /TF: HBP-1a ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: histone H3, putative |LOCUS: AT1G13370 |PROD: the same as GENE |complement(4587777..4588610) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +91 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.10 T - 0.28 C - 0.26 1 tcaacaaact caacaagaaa atggaccaat aagaatcgaa agcgcagatc 51 gccacatatg cataatctta atcaaaatca aatatggacc gtcgaacatg 101 cctttaatcg cacgtctatc aactcctctc cccaaaatta accgacctaa 151 ttctcacacc tcgtcacTAT AAAATtcact aatctttttt acttttctct 201 ACATCAAAAC ACAACATTAA AAGCTTTGGC GATTTTTCTC TCTGATTCAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.002 -strand -4 : -15 gAAAAGTAAAAA AC RSP00097 Mean Expected Number 0.000 -strand -109 : -116 ACGGTCCA AC RSP00234 Mean Expected Number 0.005 -strand +24 : +15 GCTTTTAATG AC RSP00879 Mean Expected Number 0.007 +strand -164 : -158 CGAAAGC AC RSP01527 Mean Expected Number 0.005 +strand -200 : -189 TCAACAAACTCA Totally 5 motifs of 5 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 95. Group RE: 9-mer box /AC: RSP00097//OS: Zea mays /GENE: GapC4/RE: 9-mer box /TF: unknown 227. Group RE: CArG Box 2 /AC: RSP00234//OS: Arabidopsis thaliana /GENE: AGAMAOUS (AG)/RE: CArG Box 2 /TF: unknown 815. Group RE: D2 /Group TF: Dof family /AC: RSP00879//OS: Hordeum vulgare /GENE: Al21/RE: D2 /TF: Dof family 1375. Group RE: Box II /AC: RSP01527//OS: Pisum sativum /GENE: PsCHS2/RE: Box II /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: sulfotransferase family protein |LOCUS: AT1G13420 |PROD: the same as GENE |4604838..4606050 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +30 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.15 T - 0.28 C - 0.18 1 tttaacaatc ttatattacg ggttgaaaaa aataaatcaa ccaccacgtt 51 atttcatgaa cgttataaag gatctctcaa gatatgaaag atcacatgtt 101 ttgtacacat cagctttcaa cgtgtgtaac gtgagtgttt gatcaactac 151 tacgttaaca tccaacacTA TAAATAgtaa ttttgcgatt gcaataagtc 201 ACAACACTCG ACACAAAAGC AAAAACAAAA ATGGGTGAGA AAGATATTCC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00144 Mean Expected Number 0.009 -strand +37 : +32 CACCCA AC RSP00188 Mean Expected Number 0.002 +strand -84 : -75 TCAACGTGTg AC RSP00354 Mean Expected Number 0.004 -strand -44 : -51 TAACGTAG AC RSP01072 Mean Expected Number 0.008 +strand -186 : -177 ATTACGgGTT AC RSP01296 Mean Expected Number 0.009 +strand -33 : -25 CTATAAATA AC RSP01469 Mean Expected Number 0.006 +strand -109 : -100 TCACATGTtT AC RSP01755 Mean Expected Number 0.003 +strand -163 : -156 CAACCACC Totally 7 motifs of 7 different REs have been found Description of REs found 140. Group TF: SEF3 /AC: RSP00144//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: SEF3 BS 1 /TF: SEF3 182. Group TF: ABI5 /AC: RSP00188//OS: Arabidopsis thaliana /GENE: AtEm1/RE: ABRE/1.2 /TF: ABI5 339. Group RE: GARE1 /AC: RSP00354//OS: Oryza sativa /GENE: Rep-1/RE: GARE1 /TF: unknown 990. Group TF: PvAlf /AC: RSP01072//OS: Arachis hypogea; Phaseolus vulgaris /GENE: Em/RE: Em1d /TF: PvAlf ||Identical REs AC: RSP01154 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) 1560. Group TF: C1 /AC: RSP01755//OS: Glycine max /GENE: a2/RE: C1BS1 /TF: C1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: tobamovirus multiplication protein 3 |LOCUS: AT1G14530 |PROD: the same as GENE |complement(4970853..4973717) |SUPPORT | 12 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +125 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.19 T - 0.25 C - 0.21 1 cacgtggaac tatgataaca acgttgcgtg tcggtcacca gaacatctcc 51 acacggagag aaccaccggc tatatccggt tactttttca atctcctctt 101 cagtttcttc cacgtcattc taagtattcc ctgtcacggc cggtctcaaa 151 tcttatttcg ggtaatacTA TAAATAcctt aaaacaaaaa aaaatggaag 201 AAAAATAAAA TAAAAATCTA GGAAGGAGAA GGAGAGAGGA GAAGTGATTC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00214 Mean Expected Number 0.003 -strand -84 : -91 TGACGTGG AC RSP00215 Mean Expected Number 0.003 +strand -91 : -84 CCACGTCA AC RSP00653 Mean Expected Number 0.004 -strand +40 : +30 TcCTCTCTCCT AC RSP00888 Mean Expected Number 0.006 +strand +12 : +20 AAAAATCTA AC RSP00941 Mean Expected Number 0.005 +strand -115 : -108 TTTCAATC AC RSP01032 Mean Expected Number 0.003 -strand -40 : -49 CCGAAATAAG AC RSP01275 Mean Expected Number 0.004 +strand -92 : -83 TCCACGTCAT AC RSP01296 Mean Expected Number 0.004 +strand -33 : -25 CTATAAATA AC RSP01301 Mean Expected Number 0.001 +strand -33 : -24 CTATAAATAC AC RSP01594 Mean Expected Number 0.005 -strand -108 : -115 GATTGAAA AC RSP01734 Mean Expected Number 0.010 +strand -92 : -86 TCCACGT Totally 11 motifs of 11 different REs have been found Description of REs found 207. Group TF: TGA1; GBF1 /AC: RSP00214//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: TGA1; GBF1 ||Identical REs AC: RSP01257 RSP01474 208. Group TF: HBP-11(17); HBP-1b(c38) /AC: RSP00215//OS: Triticum aestivum /GENE: H3/RE: Hex /TF: HBP-11(17); HBP-1b(c38) 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 820. Group TF: CCA1 /AC: RSP00888//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: CCA1 motif (2) /TF: CCA1 870. Group TF: GBF /AC: RSP00941//OS: Lycopersicon esculentum /GENE: RbcS-3.6/RE: box I /TF: GBF 957. Group TF: FLC /AC: RSP01032//OS: Arabidopsis thaliana /GENE: SOC1/RE: CArG box /TF: FLC 1174. Group RE: ACE 2 /AC: RSP01275//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 2 /TF: unknown 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 1416. Group RE: Box I /AC: RSP01594//OS: Pisum sativum /GENE: rbcS-3.6/RE: Box I /TF: unknown 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G15010 |PROD: the same as GENE |5171202..5171737 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +8 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.18 T - 0.26 C - 0.19 1 ttggccgtgt cgacaaattt gtaaaagacg tgtaaagctg aaattgagaa 51 gaaacaaaag tgaaattgta aggaaacgtg atcgatggtg accccatcaa 101 tattacgata aggtaacgcg ctaaagcagc cttagccgtt tttattaaat 151 attatccaaa tataactTAT AAATAatccc accaattgtg tctcctaagc 201 AACAGAAAAT GGAAATGATA CTGATCTCGT CATCGACACT CAGGTTCCAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00039 Mean Expected Number 0.007 +strand -162 : -152 TGAAATTGaGA AC RSP00039 Mean Expected Number 0.007 +strand -140 : -130 TGAAATTGTaA AC RSP00916 Mean Expected Number 0.002 -strand +34 : +25 GATGACGAGA Totally 3 motifs of 2 different REs have been found Description of REs found 38. Group TF: GT-1 related TFs /AC: RSP00039//OS: Lycopersicon esculentum /GENE: LAT56; LAT59;/RE: 56/59 box /TF: GT-1 related TFs 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein, ESTs gb|AA650895 |LOCUS: AT1G15270 |PROD: the same as GENE |complement(5250653..5252097) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +82 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.17 T - 0.33 C - 0.21 1 ttaattaatc gattttattt tgttatttcg cgcattaaat ataacgactg 51 tgacctaggt tgacccaaat aaaggtattt aacgggccca aaaagaaatt 101 tgtaggcctt ttaatgggcc atacactttc agagcccatt taataggttg 151 cgttgttact acgaactcat TATAAATAtg aaccgtagcc ccaatcagag 201 AGATTCGATA CCGTCTGCAA CTCTCAGCTA CTTTTTCCCC AATTTTGAGC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00681 Mean Expected Number 0.005 +strand -199 : -191 TAATTAATC AC RSP00698 Mean Expected Number 0.004 +strand -200 : -190 TtAATTAATCG AC RSP01209 Mean Expected Number 0.006 -strand -127 : -136 CTTTATTTGG AC RSP01215 Mean Expected Number 0.001 -strand -126 : -136 CCTTTATTTGG Totally 4 motifs of 4 different REs have been found Description of REs found 650. Group RE: Box 4 /AC: RSP00681//OS: Pisum sativum /GENE: PSPAL2/RE: Box 4 /TF: unknown 664. Group RE: Box III /AC: RSP00698//OS: Brassica oleracea /GENE: SLG13/RE: Box III /TF: unknown 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs 1123. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01215//OS: Brassica oleracea /GENE: BoCRC/RE: EM2 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G15360 |PROD: the same as GENE |5283536..5284668 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +68 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.07 T - 0.30 C - 0.25 1 gtttaccttt ataataacca tccttcacat tagcaatcaa tctacaccaa 51 caactacaac taaattctat ctctctctct ataataaact agcgagcgag 101 gacgtcaaat gtaataagag taagaacaag tacacctttt catccaccaa 151 aatttaacct atgtaTATAA ATAtacaaca ttaccattta ccaaacatcc 201 ATCTTACATA TATTACTCAT CATCAAGTTC CTACTTTCTC TCTGACAAAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00071 Mean Expected Number 0.008 +strand -100 : -95 GACGTC AC RSP00071 Mean Expected Number 0.008 -strand -95 : -100 GACGTC AC RSP00864 Mean Expected Number 0.002 -strand -121 : -129 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 -strand -123 : -131 AGAGAGAGA Totally 4 motifs of 2 different REs have been found Description of REs found 70. Group RE: C-box /Group TF: RITA-1 /AC: RSP00071//OS: Oryza sativa /GENE: rifa-7-P-glucuronidase transgene/RE: C-box /TF: RITA-1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G15380 |PROD: the same as GENE |5290740..5292529 |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +210 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.12 T - 0.35 C - 0.16 1 aacttataaa gactaaacct attacaagaa ataagatctt ataggccgaa 51 tttgtttggt acgttgatga tccaaatata aataatagtt tttctttttc 101 tttttaatta tgaaaggtta aaaattcata aaaaaaatta cccatatttg 151 cttaagacgc tagcttttcT ATAAATAcag catagccatg tgtaattgat 201 CATCAGATAA GTTCCGTGGT TATCCCATTA ACCTTCTTTC TACACAACAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00158 Mean Expected Number 0.000 +strand -56 : -46 TATTTGCTTAA AC RSP00741 Mean Expected Number 0.003 +strand -89 : -78 gAAAGGTTAAAA AC RSP01301 Mean Expected Number 0.002 +strand -32 : -23 CTATAAATAC Totally 3 motifs of 3 different REs have been found Description of REs found 153. Group RE: D3 /AC: RSP00158//OS: Glycine max /GENE: GmAux28/RE: D3 /TF: unknown 703. Group RE: box 1 /Group TF: GT-1 /AC: RSP00741//OS: Nicotiana plumbaginifolia /GENE: Cab-E/RE: box 1 /TF: GT-1 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: CCR1 |LOCUS: AT1G15950 |PROD: cinnamoyl-CoA reductase, putative |5478748..5482159 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +101 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.11 T - 0.41 C - 0.16 1 taaggtgtgt agttctaaat gtttcttctt cttccaccaa cccctctttc 51 tatatgtatg ttcttttttc taaaataatt gtttgttctt ttttagatat 101 atcaaattaa atataaaaaa tattgacaaa acttatttac cATTGTtagg 151 tgaacttggc aagtgtgtaa aTATAAAGAt aacattcctt ttcgttcttt 201 ATATATACGA AACGTACCAC AAATTTCTAA CTAAAGCATT CATAGTCTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00078 Mean Expected Number 0.000 +strand -167 : -156 CCACCAACCCCt AC RSP01008 Mean Expected Number 0.007 -strand -50 : -56 ACCTAAC AC RSP01454 Mean Expected Number 0.006 +strand -165 : -159 ACCAACC Totally 3 motifs of 3 different REs have been found Description of REs found 77. Group RE: AC-II /AC: RSP00078//OS: Phaseolus vulgaris /GENE: PAL2/RE: AC-II /TF: unknown 933. Group TF: PtMYB1; PtMYB4 /AC: RSP01008//OS: Pinus sylvestris /GENE: PsGS1b/RE: GS1b AC box 3 (AC-III) /TF: PtMYB1; PtMYB4 ||Identical REs AC: RSP01455 1325. Group RE: AC-II /Group TF: PtMYB4 /AC: RSP01454//OS: Pinus taeda /GENE: Synthetic OLIGO/RE: AC-II /TF: PtMYB4 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: MYB52 |LOCUS: AT1G17950 |PROD: myb family transcription factor (MYB52) |6177610..6179282 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +147 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.13 T - 0.35 C - 0.22 1 aaataaaaaa gggtagatta cttaaaagga gtgtgtttgg ttagggaaga 51 cgttggcatc aatcgccggt gaaaacctct ctccaaactt tccctcactc 101 tctaacgaat cttattatat tcattacttT CAATtcttta tataatatct 151 aaataaatat acttaTATAA ATAcatgtat gtatggtgct gttgctcttc 201 AGCTTTCTTC TTGTTCCTAC ATACCCATCT TCCCTCACCT ACATCAAACC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00157 Mean Expected Number 0.009 +strand -40 : -29 AcTTATATAAAT AC RSP00157 Mean Expected Number 0.009 -strand -29 : -40 ATTTATATAAgT AC RSP00259 Mean Expected Number 0.007 +strand -163 : -157 TGGTTAG AC RSP00593 Mean Expected Number 0.003 +strand -94 : -86 GAATCTTAT AC RSP00999 Mean Expected Number 0.009 +strand -106 : -96 TCACTcTCTAA Totally 5 motifs of 4 different REs have been found Description of REs found 152. Group RE: D2 /AC: RSP00157//OS: Glycine max /GENE: GmAux28/RE: D2 /TF: unknown 252. Group TF: ATMyb2 /AC: RSP00259//OS: Arabidopsis thaliana /GENE: rd22/RE: ATMyb2 BS /TF: ATMyb2 569. Group RE: GATA/2 B /AC: RSP00593//OS: Lycopersicon esculentum /GENE: rbcS1/RE: GATA/2 B /TF: unknown 920. Group TF: 3AF3 /AC: RSP00999//OS: Nicotiana tabacum /GENE: rbcS-3A/RE: 3'-III element /TF: 3AF3 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G18280 |PROD: the same as GENE |6294333..6295356 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +63 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.13 T - 0.28 C - 0.18 1 aaattggcaa ctcctgtaat aataaatgta acgattttct aattaatcca 51 gagcttagtc ttcgtttcca atgcataatg ataggatcag aaactgatta 101 tctcgaaaaa tcaggctggt gagctggatt aaattcaaaa accaaaaatt 151 ataaccacct tgtgtacata TATAAACCac acgcatgttt tacaactttc 201 ACATCTTCAC AACCAACTAA AGATAGAAAG AACATAATAC AAAGAGATAT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00615 Mean Expected Number 0.008 -strand -78 : -83 CTCACC AC RSP00681 Mean Expected Number 0.007 +strand -161 : -153 TAATTAATC AC RSP01221 Mean Expected Number 0.005 +strand -49 : -42 TAACCACC Totally 3 motifs of 3 different REs have been found Description of REs found 591. Group RE: C-rich GG1 /AC: RSP00615//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: C-rich GG1 /TF: unknown 650. Group RE: Box 4 /AC: RSP00681//OS: Pisum sativum /GENE: PSPAL2/RE: Box 4 /TF: unknown 1128. Group RE: GARE /AC: RSP01221//OS: Oryza sativa /GENE: Amy3E (Amy8)/RE: GARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: 60S ribosomal protein L6 (RPL6A) |LOCUS: AT1G18540 |PROD: the same as GENE |complement(6377314..6378571) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +30 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.14 T - 0.29 C - 0.22 1 atttttatca aaaaaacact tttacttacc tgccaaatag taagtacaaa 51 aatacttcat ttaaagccca atattttgca ataacacact tttgcactag 101 acccccatat gaagcccata ttaaagtatt ctagaccata agggcccatt 151 aggtttttac tttctgctaT ATAAAAGctc aatctagggt ttatgtctct 201 GATAGATTTT ACACCACCGA AGCCGAAAAA ATGCCGGCGG CGAAGAGGAC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.002 -strand -36 : -47 AgAAAGTAAAAA AC RSP00438 Mean Expected Number 0.005 +strand +36 : +41 GGCGGC AC RSP00750 Mean Expected Number 0.005 -strand -117 : -128 TTATTGcAAAAT AC RSP00807 Mean Expected Number 0.005 -strand +41 : +36 GCCGCC AC RSP00961 Mean Expected Number 0.004 -strand -105 : -112 TGCAAAAG AC RSP01621 Mean Expected Number 0.008 +strand -116 : -107 cACACTTTTG AC RSP01640 Mean Expected Number 0.005 +strand -10 : -1 tTATGTCTCT Totally 7 motifs of 7 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 418. Group RE: PR-box /AC: RSP00438//OS: Arabidopsis thaliana /GENE: PR-1/RE: PR-box /TF: unknown 712. Group TF: GT-1 /AC: RSP00750//OS: Catharanthus roseus /GENE: STR/RE: BN rev /TF: GT-1 760. Group RE: GCC box /Group TF: Pti4 /AC: RSP00807//OS: Arabidopsis thaliana /GENE: PDF1.2/RE: GCC box /TF: Pti4 ||Identical REs AC: RSP00809 RSP00811 RSP00814 RSP00921 RSP01328 886. Group TF: BPBF /AC: RSP00961//OS: Hordeum vulgare /GENE: ITR1/RE: PB1 /TF: BPBF 1441. Group TF: GmDof4; GmDof22 /AC: RSP01621//OS: Glycine max /GENE: Synthetic OLIGO/RE: E4 /TF: GmDof4; GmDof22 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G18660 |PROD: the same as GENE |6421109..6425872 |SUPPORT | 18 exon(s) |Alternative mRNAs: 4 | -200:+51 from mRNA start|,5"-UTR: +316 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.16 T - 0.31 C - 0.10 1 ttttttttaa tttagccaaa aactaaactg aaaagtacat atgaatattt 51 gcttactttt tttctattag aaaaattgaa gtaaatatat aaacaaaagt 101 gaaaatgcca cctggtaagt aagattaaga atatacattt tactaaaaat 151 taagaagttg ttaaatgtaa AATAAATAta gcgaagaatt ctggtgagct 201 GAATTTGTGT GTTCCGACCG AAAAATCAGG AAGAAGAAGA AGAAGATTGA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00109 Mean Expected Number 0.005 +strand -92 : -87 CACCTG AC RSP00158 Mean Expected Number 0.009 +strand -155 : -145 TATTTGCTTAc AC RSP00187 Mean Expected Number 0.009 +strand -93 : -89 CCACC AC RSP00878 Mean Expected Number 0.000 -strand -86 : -93 CCAGGTGG Totally 4 motifs of 4 different REs have been found Description of REs found 107. Group RE: E-site /AC: RSP00109//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: E-site /TF: unknown ||Identical REs AC: RSP00309 RSP01147 153. Group RE: D3 /AC: RSP00158//OS: Glycine max /GENE: GmAux28/RE: D3 /TF: unknown 181. Group RE: CCACC box /AC: RSP00187//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: CCACC box /TF: unknown 814. Group TF: RPCF-1 /AC: RSP00878//OS: Arabidopsis thaliana /GENE: PCNA/RE: Site I /TF: RPCF-1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: myb family transcription factor |LOCUS: AT1G19000 |PROD: the same as GENE |complement(6560783..6562777) |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +97 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.18 T - 0.23 C - 0.18 1 ccaaagaaaa taactcatta attaataaat ccaaatggaa gaaatgataa 51 atatagagag acaagcaggt cacagaggaa acgagtgacg aacaaatcat 101 aaataaacac gtgtcatgtt atcgtaataa cacacaacag agtaagtaat 151 gccacgtggc ttatcgagtt ttTATAAAGA caagacagaa gaagtagctc 201 AGATCCACTC ACACCTCGTC TCCTAATCTG TACGGTTCTT ATTTCGAAAG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00054 Mean Expected Number 0.007 +strand -42 : -36 GCTTATC AC RSP00063 Mean Expected Number 0.001 +strand -50 : -41 GCCaCGTGGC AC RSP00063 Mean Expected Number 0.001 -strand -41 : -50 GCCaCGTGGC AC RSP00073 Mean Expected Number 0.001 +strand -50 : -41 GCCACGTGGC AC RSP00073 Mean Expected Number 0.001 -strand -41 : -50 GCCACGTGGC AC RSP00153 Mean Expected Number 0.001 +strand -49 : -40 CCACGTGGCt AC RSP00153 Mean Expected Number 0.001 -strand -42 : -51 CCACGTGGCa AC RSP00175 Mean Expected Number 0.001 +strand -48 : -41 CACGTGGC AC RSP00175 Mean Expected Number 0.001 -strand -43 : -50 CACGTGGC AC RSP00204 Mean Expected Number 0.001 +strand -50 : -41 GcCACGTGGC AC RSP00204 Mean Expected Number 0.001 -strand -41 : -50 GcCACGTGGC AC RSP00524 Mean Expected Number 0.006 -strand -87 : -93 ACACGTG AC RSP00682 Mean Expected Number 0.001 +strand -50 : -41 GCCACGTGGc AC RSP00682 Mean Expected Number 0.001 -strand -41 : -50 GCCACGTGGc AC RSP00718 Mean Expected Number 0.001 +strand -49 : -42 CCACGTGG AC RSP00718 Mean Expected Number 0.001 -strand -42 : -49 CCACGTGG AC RSP01034 Mean Expected Number 0.004 +strand -47 : -41 ACGTGGC AC RSP01034 Mean Expected Number 0.005 -strand -44 : -50 ACGTGGC AC RSP01035 Mean Expected Number 0.006 +strand -92 : -86 ACGTGTC AC RSP01256 Mean Expected Number 0.002 +strand -94 : -87 ACACGTGT AC RSP01256 Mean Expected Number 0.002 -strand -87 : -94 ACACGTGT AC RSP01726 Mean Expected Number 0.000 +strand -51 : -40 TGCCACGTGGcT Totally 22 motifs of 13 different REs have been found Description of REs found 53. Group RE: C2a-BS /AC: RSP00054//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: C2a-BS /TF: unknown 62. Group RE: Motif III /AC: RSP00063//OS: Oryza sativa /GENE: rab16B/RE: Motif III /TF: unknown 72. Group TF: TAF-1 /AC: RSP00073//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: PA /TF: TAF-1 ||Identical REs AC: RSP00274 149. Group RE: Box II /AC: RSP00153//OS: Petroselinum crispum /GENE: CHS/RE: Box II /TF: CPRF-1; CPRF-2; CPRF-3; ||Identical REs AC: RSP00154 169. Group RE: ABRE /Group TF: ABF /AC: RSP00175//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: ABRE /TF: ABF ||Identical REs AC: RSP00723 RSP01570 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 651. Group TF: GBF3 /AC: RSP00682//OS: Arabidopsis thaliana /GENE: Adh/RE: -214 G-box (core) /TF: GBF3 683. Group TF: GBF /AC: RSP00718//OS: Arabidopsis thaliana /GENE: Adh/RE: G-box-1 /TF: GBF ||Identical REs AC: RSP01254 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1159. Group TF: GBF1 /AC: RSP01256//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS3 /TF: GBF1 1534. Group TF: STF1/HY5 /AC: RSP01726//OS: Arabidopsis thaliana /GENE: SAUR-AC1-like (At3g60690)/RE: G-box (1) /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: glycosyl transferase family 8 protein |LOCUS: AT1G19300 |PROD: the same as GENE |complement(6671128..6672644) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +147 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.09 T - 0.35 C - 0.17 1 tacaataaat tcccacattt ctgcattcga taaaacaaca catttaagtc 51 gaaaaattca gtaaataatt tgaccatttt tttgttacct gacgcaataa 101 tatgattttc agttttcaag atttaaattt aaaaatcatg aaaagggctt 151 ggaatctaat caataTATAA ATAtttttta atgagagaaa cccaaaatct 201 AAGCAAAACC ATTTTTTTAA TTTTCCTCTC TCTTACACAC ACACATGATA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00254 Mean Expected Number 0.005 -strand -55 : -61 CCTTTTC AC RSP00863 Mean Expected Number 0.001 -strand +31 : +23 AGAGAGGAA AC RSP01093 Mean Expected Number 0.003 +strand -3 : +8 TCTAAGCAAAa Totally 3 motifs of 3 different REs have been found Description of REs found 247. Group RE: Py box /AC: RSP00254//OS: Hordeum vulgare /GENE: Amy pHV19/RE: Py box /TF: unknown ||Identical REs AC: RSP00676 799. Group TF: BPC1 /AC: RSP00863//OS: Arabidopsis thaliana /GENE: STK/RE: GA-4 /TF: BPC1 1011. Group RE: box 2 /AC: RSP01093//OS: Pisum sativum /GENE: GS2/RE: box 2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G19530 |PROD: the same as GENE |6763906..6764944 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +61 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.16 T - 0.29 C - 0.15 1 ctattaccgg agttttccaa agccaaatca tgggatttag ttttctcaag 51 ttatacgaac ttggaccgaa tagccaagta aatatataat attaataaac 101 taaacacaaa tttaatatct ttgggggata agaattatct agatgacttg 151 catactttgc atggagcacT ATATATAgaa gaatgttaac acatgatcct 201 ACCGACATTA ATGTTTACTA ATCAGAAAAT CAAAAGGACA ATTGGAAAAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00107 Mean Expected Number 0.010 -strand -38 : -44 CATGCAA AC RSP00301 Mean Expected Number 0.009 -strand -40 : -46 TGCAAAG AC RSP00892 Mean Expected Number 0.005 +strand -89 : -81 TTAATATCT AC RSP01009 Mean Expected Number 0.001 +strand -1 : +8 TACCGACAT AC RSP01010 Mean Expected Number 0.001 +strand -1 : +8 TACCGACAT AC RSP01639 Mean Expected Number 0.002 -strand +43 : +34 AATTGTCCTT Totally 6 motifs of 6 different REs have been found Description of REs found 105. Group RE: RY2 /AC: RSP00107//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY2 /TF: unknown 289. Group RE: PROL box /AC: RSP00301//OS: Oryza sativa /GENE: GluB-1/RE: PROL box /TF: unknown ||Identical REs AC: RSP00882 824. Group TF: Dof family /AC: RSP00892//OS: Solanum melongena /GENE: SmCP/RE: EE 2 /TF: Dof family 934. Group TF: DREB1A; DREB2A /AC: RSP01009//OS: Arabidopsis thaliana /GENE: rd29A/RE: DREB1A/DREB2A BS /TF: DREB1A; DREB2A ||Identical REs AC: RSP01610 RSP01763 RSP01771 RSP01779 935. Group TF: DREB2A /AC: RSP01010//OS: Arabidopsis thaliana /GENE: rd29A/RE: DREB2A BS /TF: DREB2A 1459. Group RE: ARE /AC: RSP01639//OS: Nicotiana tabacum /GENE: PR-Q; ACS2/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ATCLH1 |LOCUS: AT1G19670 |PROD: |complement(6803602..6804965) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +51 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.12 T - 0.31 C - 0.19 1 caactaactt gtaataattt gaatcaacac atgctctttt gtttacgcag 51 cccatgcatt tatcgttttc gaaagtattt aattcatttt gttataacta 101 cgatgagaag ccgagagaac cacagaatta taatgaatcg gataagaaaa 151 atcaacattc tcccccTATA AATAcaaaac aactagctaa agttcgaagg 201 ATTCATACAT AAATCTTCAA CACAACTCTT TAATTATCTA GTTTAATACA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00642 Mean Expected Number 0.007 -strand -139 : -146 TAAATGCA AC RSP01301 Mean Expected Number 0.002 +strand -35 : -26 CTATAAATAC AC RSP01776 Mean Expected Number 0.007 -strand +37 : +27 AtAATTAAAGA Totally 3 motifs of 3 different REs have been found Description of REs found 617. Group RE: L1-box /AC: RSP00642//OS: Arabidopsis thaliana /GENE: PDF1/RE: L1-box /TF: unknown 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 1575. Group TF: SIP1 /AC: RSP01776//OS: Lotus japonicus /GENE: AT-rich motif/RE: 39-bp element /TF: SIP1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G20100 |PROD: the same as GENE |complement(6969098..6970947) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +257 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.18 T - 0.31 C - 0.22 1 aaggataaaa agggtatttc agatgacgta gcaaactcgg accgagcttc 51 acggagatga taacgactaa ttgacggaat agcccttaca aattagggtt 101 ttcacattat tctttccaaa aacgtaagta tagcccgagt cggcggatct 151 gagtgtttca cgcgtcTTTA AATAgaacct tacccttcac cattattttc 201 TCAACCGCAA TTGGTTTTTT TCTTCTTTCT CTCTCTCTCA TCGATTAACA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.001 +strand -108 : -100 TTAGGGTTT AC RSP00369 Mean Expected Number 0.001 -strand -100 : -108 AAACCCTAA AC RSP00864 Mean Expected Number 0.002 -strand +38 : +30 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 -strand +36 : +28 AGAGAGAGA AC RSP01201 Mean Expected Number 0.003 -strand -150 : -157 TGAAGCTC AC RSP01283 Mean Expected Number 0.000 -strand +39 : +23 GAGAGAGAGAGAaAGAA AC RSP01303 Mean Expected Number 0.003 -strand -99 : -108 aAAACCCTAA Totally 7 motifs of 6 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1112. Group TF: NIT2 /AC: RSP01201//OS: Chlorella vulgaris /GENE: NR/RE: NIT2 BS II /TF: NIT2 1180. Group RE: GAGA element /AC: RSP01283//OS: OS: Glycine max /GENE: gsa1/RE: GAGA element /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G21010 |PROD: the same as GENE |7346145..7346957 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +83 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.12 T - 0.29 C - 0.27 1 gaaggtttaa ctaaggaaac attatatatg tccttttact atgcgtgaca 51 aaaatctact aatggacaga caacaaacaa aaactacatg ttaacaaccg 101 gttcaaaaca ttaaaccgta accggttatc taattTCAAT ttaatcaccc 151 ggttttatca cccgtcttcT ATATATAacc ccaccatgac cgactctctc 201 GACGCGTCGT ATCAACATTC GTGAATCTTC TCCACTCCCT CTCTCTCTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00038 Mean Expected Number 0.004 -strand -18 : -29 TGgGGTTATATA AC RSP00864 Mean Expected Number 0.003 -strand +50 : +42 AGAGAGAGA AC RSP00864 Mean Expected Number 0.003 -strand +48 : +40 AGAGAGAGA AC RSP00888 Mean Expected Number 0.006 +strand -151 : -143 AAAAATCTA Totally 4 motifs of 3 different REs have been found Description of REs found 37. Group TF: GT-1 related TFs /AC: RSP00038//OS: Lycopersicon esculentum /GENE: LAT52; LAT56;/RE: 52/56 box /TF: GT-1 related TFs 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 820. Group TF: CCA1 /AC: RSP00888//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: CCA1 motif (2) /TF: CCA1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: O-methyltransferase, putative |LOCUS: AT1G21130 |PROD: the same as GENE |complement(7399051..7400593) |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +134 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.13 T - 0.26 C - 0.21 1 cttaaatatc gtctttactt caaacagaat tttagcagcc acctcttact 51 tttctacggt acattacata gagactattc agcaaccaag ctggaccggc 101 aacgctagcc ACAATgattt atgtgaaaat tttataaaga aaaggaagaa 151 atatctaagc tttagcTATA AAAGgagaaa caaggatata catcaaaaac 201 ATACTAAATC ATCAACACTA CAAAGAAGAA ACACACTATC TCTCTCTCTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00132 Mean Expected Number 0.001 +strand -163 : -156 GCCACCTC AC RSP00864 Mean Expected Number 0.001 -strand +51 : +43 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand +49 : +41 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand +47 : +39 AGAGAGAGA AC RSP00940 Mean Expected Number 0.002 +strand -149 : -140 TTCTACGGTa Totally 5 motifs of 3 different REs have been found Description of REs found 130. Group TF: ROM1; ROM2 /AC: RSP00132//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: vicilin box /TF: ROM1; ROM2 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 869. Group TF: GBF /AC: RSP00940//OS: Lycopersicon esculentum /GENE: RbcS-3.6/RE: box II* /TF: GBF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: nodulin MtN3 family protein |LOCUS: AT1G21460 |PROD: the same as GENE |complement(7511850..7513347) |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +77 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.10 T - 0.37 C - 0.17 1 cataactttt ttttcaaatt ttattcatac tacaaaaatt aataacagaa 51 ccatgtattt ttaaaattta atatttaata ccattatttc ataatttatt 101 atacttttat taattttgta attATTGGtg ttccacagtg aagcggttaa 151 cacacgctga atctcgaTAT ATATAcgctt gccgatagaa aacacttagc 201 TCATATTCTC TCACTTTCTC TCTCAGCTTA CGAACAAGAA AAAAAGAAGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00355 Mean Expected Number 0.009 +strand -158 : -151 TAACAGAA AC RSP00749 Mean Expected Number 0.008 +strand -88 : -77 ATTTTGTAATTA Totally 2 motifs of 2 different REs have been found Description of REs found 340. Group RE: GARE2 /AC: RSP00355//OS: Oryza sativa /GENE: Rep-1/RE: GARE2 /TF: unknown 711. Group TF: GT-1 /AC: RSP00749//OS: Catharanthus roseus /GENE: STR/RE: BN /TF: GT-1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: OGG1 |LOCUS: AT1G21710 |PROD: 8-oxoguanine-DNA glycosylase (OGG1) |7624385..7626105 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +43 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.20 T - 0.34 C - 0.16 1 tcgacaaaca agagggttct gatttcgaaa ttcaagcttc gttgaccaat 51 ccaaattttg gtttaacttc ggttaaagtc aactttactt cggttttatt 101 ttTCAATttt gaatgagaaa aaccgaatca attatttagt tcggttctta 151 aagttcaaat tggttaaacc ggTTTAAATT gatacattag tcgaccgtcg 201 CGCATTAATA CTGGTGTGGT GGTTCCGTTA ACGAGCAACG GCGATGAAGA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00894 Mean Expected Number 0.007 +strand -172 : -165 AATTCAAG AC RSP00918 Mean Expected Number 0.004 -strand -118 : -127 GTTGACTTTA Totally 2 motifs of 2 different REs have been found Description of REs found 825. Group TF: Dof family /AC: RSP00894//OS: Solanum melongena /GENE: SmCP/RE: ERE 2 /TF: Dof family 849. Group TF: Opaque-2 /AC: RSP00918//OS: Zea mays /GENE: O2/RE: B5-like motif /TF: Opaque-2 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G21910 |PROD: the same as GENE |7696525..7697688 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +119 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.06 T - 0.27 C - 0.27 1 gctaggataa aggaaaaatt agaagaaaaa cacctgtcat gcaccacaat 51 gtcacattca tacacaagaa accatactat atttcatttg accctatttt 101 agatttataT CAATaaataa tatttcatct cttcctctcc catacccctc 151 ccaaatcaat ccatctcTAT ATATAatctt ctcagctcac actaatcctc 201 ATCAAAAAAT CTCTATCCAT CCACAACAAC AACAAAAACT CAAGAACAAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00304 Mean Expected Number 0.004 -strand -162 : -169 TGACAGGT AC RSP00383 Mean Expected Number 0.009 -strand -108 : -114 GGTCAAA AC RSP01015 Mean Expected Number 0.005 -strand -111 : -120 CAAATGAAAt AC RSP01237 Mean Expected Number 0.002 +strand -36 : -27 CTCTATATAT Totally 4 motifs of 4 different REs have been found Description of REs found 291. Group TF: KN1/KIP /AC: RSP00304//OS: Zea mays /GENE: Synthetic OLIGO/RE: KN1/KIP BS /TF: KN1/KIP 368. Group TF: WRKY1 /AC: RSP00383//OS: Petroselinum crispum /GENE: WRKY1/RE: WA /TF: WRKY1 940. Group TF: GAPF /AC: RSP01015//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 3 /TF: GAPF 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G21920 |PROD: the same as GENE |complement(7704244..7706129) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +274 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.22 G - 0.09 T - 0.38 C - 0.31 1 taaaaaaccg ttcatgtttg gatccgtcga ccaatatatt cccgtcatca 51 ccggtgaccc ctctcttcct ctccatccaa cggctctcct tcttctcttc 101 acttaatcaa ccgtcagatt ttaatccaac ggtctttatt aaatctaatt 151 ttatctcttt ctctcTTTAA ATTaaaccca aacccggtct aatttctctt 201 CTCCTATTTC TCTCTTCTCT CTCTCTTTAA GTGAGCTTCG CCGTTAAACT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00249 Mean Expected Number 0.000 -strand -66 : -74 AGACCGTTG AC RSP00263 Mean Expected Number 0.001 +strand -127 : -119 CATCCAACG AC RSP01231 Mean Expected Number 0.009 -strand -69 : -74 CCGTTG AC RSP01231 Mean Expected Number 0.009 -strand -118 : -123 CCGTTG AC RSP01497 Mean Expected Number 0.001 -strand -117 : -126 GCCGTtGGAT Totally 5 motifs of 4 different REs have been found Description of REs found 242. Group RE: MSA /AC: RSP00249//OS: Catharanthus roseus /GENE: CYM/RE: MSA /TF: unknown 255. Group RE: Non /AC: RSP00263//OS: Triticum aestivum /GENE: H3/RE: Non /TF: unknown ||Identical REs AC: RSP01563 1136. Group RE: A-box (2) /AC: RSP01231//OS: Arabidopsis thaliana /GENE: C4H/RE: A-box (2) /TF: unknown 1359. Group RE: CS5 /AC: RSP01497//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS5 /TF: unknown ||Identical REs AC: RSP01498 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: EMB2204 |LOCUS: AT1G22090 |PROD: expressed protein |7795697..7797414 |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +13 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.22 T - 0.21 C - 0.21 1 tcagtaaatg taaaagccct tacctaaagc gatggcgttt taagggtacg 51 gtgaaaaaac aataaaaatt gaacatgtgc gttgcaacat cgtcaagatt 101 gACAATtgaa gtcccaaatg aagcccatga atgaaacctt cgccgccttc 151 gccagacaaa acctaaaacT ATAAAAGcag cagtcgctaa tttttggaag 201 GAGAAGGAGA AAGATGAGTC GCCGGGTGGA ATACACGTTA GCTCCTCCGC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00018 Mean Expected Number 0.008 +strand -11 : -5 ATTTTTG AC RSP00029 Mean Expected Number 0.009 +strand -192 : -185 TGTAAAAG AC RSP01115 Mean Expected Number 0.008 -strand -5 : -11 CAAAAAT Totally 3 motifs of 3 different REs have been found Description of REs found 17. Group TF: SEF4 /AC: RSP00018//OS: Glycine max /GENE: beta-conglycinin/RE: SEF4 /TF: SEF4 28. Group RE: P-box 1 /AC: RSP00029//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 1 /TF: unknown 1034. Group RE: CCAAT box-like motif 2 /AC: RSP01115//OS: Agrobacterium tumefaciens /GENE: ags/RE: CCAAT box-like motif 2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: AP2 domain-containing transcription factor |LOCUS: AT1G22810 |PROD: the same as GENE |complement(8074040..8075026) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +68 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.10 T - 0.39 C - 0.20 1 gtcaggcaca tgtcaaattg gtaccactaa aaaaatgggt catactttga 51 ccagttgatt ttttcctcga gaattaacta gttttataat tggtcaactt 101 cattctcatt cttgattcat attaaaaaat attatataat attttgactt 151 tcactaaact tcaacgTATA AATAgtcttt gtatcttcat attcaaacat 201 AAACAACACT CAAAAGTCTC TTCTTCTTCT TCTTCTTCTT CACATCGATC 251 A Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G23205 |PROD: the same as GENE |complement(8233986..8234882) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +42 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.13 T - 0.29 C - 0.20 1 aaaaacgtct gatacaattt ttttatgcca tgatattaac gagatctctt 51 aaatttgatt tcgccatacg tataaagcat tattatttat acacaatatt 101 caggcccaga tcggcccatt aaaATTGTtg gctgcttgga ttaatcctag 151 ctaatgatca acagTATAAA TAtaaacttg aggtcacaaa aaccaaaatc 201 ATCCATAACC CAAAAAGAGT CACTTCCGTG TCACAAGAAA CCATGAAACT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00331 Mean Expected Number 0.006 +strand +37 : +45 GAAACCATG AC RSP00850 Mean Expected Number 0.010 -strand -69 : -74 GCCAAC Totally 2 motifs of 2 different REs have been found Description of REs found 317. Group TF: S1F /AC: RSP00331//OS: Spinacia oleracea; Pisum sativum; Arabidopsis thaliana; /GENE: prs 1 and RPL21 (spinach), rbcS-3a (pea, tomato, Arabidopsis),/RE: S1, consensus /TF: S1F 790. Group RE: CAT /AC: RSP00850//OS: Zea mays /GENE: H4C7/RE: CAT /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: RPL27A |LOCUS: AT1G23290 |PROD: 60S ribosomal protein L27A (RPL27aB) |8262973..8263576 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +23 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.16 T - 0.27 C - 0.20 1 agtgaagtgg ttaactaaac ctgatattag ggattcatat aatgggcctc 51 atagcccaat ttaataacat aaataacctg tggtataatt gggccaaatt 101 attaaaaagc ccaaaagACA ATacactatc tctgtttctc cgaaaaccct 151 agctgctaaa tcctctctaT ATAAAAAccc tttaagatca tttctggttc 201 AAAACCCTAG ATCTGATACT AAAATGGCGA CGGCGTTGAA GAAGAACAGA 251 A Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: kelch repeat-containing F-box family protein |LOCUS: AT1G23390 |PROD: the same as GENE |complement(8309101..8310638) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +16 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.13 T - 0.28 C - 0.19 1 gaatgcttaa gaataccatc caaatctaat ttagtcccaa tctcaagtta 51 ctaacaataa taattactgt atatgaatgt cacatattaa cctacaagaa 101 aataaaataa tattaattcc atgtGCAATa ataagagtcg atcaccaact 151 tcgctgtgtc actctctcta taTATAAAGA ctttccctcc tttagacttt 201 GTGCATTATC CAAAAAATGG AGAAGAAGAA GAACAACAAC AATGGAGGAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00654 Mean Expected Number 0.005 +strand -58 : -49 CACCaACTTC AC RSP01013 Mean Expected Number 0.007 +strand +14 : +23 aAAATGGAGA AC RSP01162 Mean Expected Number 0.001 +strand -28 : -16 TATAAAGAcTTTC AC RSP01237 Mean Expected Number 0.001 +strand -35 : -26 CTCTATATAT Totally 4 motifs of 4 different REs have been found Description of REs found 628. Group RE: CT-B /AC: RSP00654//OS: Spinacia oleracea /GENE: PetH/RE: CT-B /TF: unknown 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 1074. Group RE: TATA/dyad motif /AC: RSP01162//OS: Glycine max /GENE: Gmhspl7.5-E Heat Shock Promoter/RE: TATA/dyad motif /TF: unknown 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ubiquitin extension protein |LOCUS: AT1G23410 |PROD: the same as GENE |8314913..8315520 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +16 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.18 T - 0.31 C - 0.20 1 gatgctacaa tcgccattga tactcagaga agaagaagat gagagtttta 51 gtagttttca aactttatcc tgtagacgac atcgtttaat cattacgggc 101 tttacttatt aaATTGGgcc ctaaggccag gcccataatc tatggacttg 151 taaccctaat ttccttgaTA TAAAAGctat tgttttcact ctctgcgttt 201 TTTCTCAAAC AAGAAAATGC AGATCTTCGT GAAAACCCTA ACGGGGAAGA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.002 -strand +41 : +33 TTAGGGTTT AC RSP00369 Mean Expected Number 0.002 +strand +33 : +41 AAACCCTAA AC RSP00297 Mean Expected Number 0.000 +strand -71 : +40 GGCCCA-- ** bp --ACCCTAA AC RSP01303 Mean Expected Number 0.004 +strand +32 : +41 aAAACCCTAA Totally 4 motifs of 4 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 925. Group TF: At-TCP20 /AC: RSP00297//OS: Arabidopsis thaliana /GENE: PCNA/RE: Box II/telo-box (motifs 2 & 3) /TF: At-TCP20 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G23710 |PROD: the same as GENE |8385240..8386415 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +112 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.14 T - 0.29 C - 0.23 1 aggcgacaat cacagaagca gcccacccac tatttcctca gcccatcacg 51 cgcttttact tgtaaagtta ataacaacaa aaagagaagt gatgtgattg 101 gcCCAATtaa aataaaataa aacgtactgt tcacacttga tgacttatct 151 tcatgaagca ccaaccaTAT AAATTtggtc aggtctttat taaacaaatc 201 AAATTATCTT CCTCACTCGT TGTTTCATTT CTTAGAGCCG TCGTTTCAGA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00231 Mean Expected Number 0.006 -strand -100 : -106 CCAATCA AC RSP00442 Mean Expected Number 0.007 -strand -131 : -140 TAACTTTaCA AC RSP00495 Mean Expected Number 0.005 +strand -140 : -133 TGTAAAGT Totally 3 motifs of 3 different REs have been found Description of REs found 224. Group RE: CCAAT box 1 /AC: RSP00231//OS: Arabidopsis thaliana /GENE: AGAMAOUS (AG)/RE: CCAAT box 1 /TF: unknown 422. Group TF: Dof1 /AC: RSP00442//OS: Zea mays /GENE: cyPPDK1/RE: box b /TF: Dof1 471. Group RE: P-box 2 /AC: RSP00495//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 2 /TF: unknown ||Identical REs AC: RSP00686 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: Bet v I allergen family protein |LOCUS: AT1G24020 |PROD: the same as GENE |complement(8500466..8501504) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +57 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.16 T - 0.33 C - 0.14 1 tattgattca tccacctctt tgagtgggtg agatagcaat gaagaatggc 51 aaatgtataa gctttaggtt aattttaaaa aggacccata ggatgaaaaa 101 ttagttggat gagttgctcc acatagttaa tGCAATttat catatcacta 151 aaggctttaa aacctctcTA TATATAgaca cgttcattga caagttatac 201 AAACAAATCA TTCAAAGACA TACAAAATAA TTGAGTTTTT TTTTTAATTA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00188 Mean Expected Number 0.002 -strand -15 : -24 TgAACGTGTC AC RSP01035 Mean Expected Number 0.005 -strand -18 : -24 ACGTGTC AC RSP01237 Mean Expected Number 0.001 +strand -35 : -26 CTCTATATAT Totally 3 motifs of 3 different REs have been found Description of REs found 182. Group TF: ABI5 /AC: RSP00188//OS: Arabidopsis thaliana /GENE: AtEm1/RE: ABRE/1.2 /TF: ABI5 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: BCP1 |LOCUS: AT1G24520 |PROD: anther-specific protein agp1 |8688617..8689251 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +70 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.11 T - 0.34 C - 0.20 1 ttgaacgaat ggtttcatat tcattcgcat gttcaccaat caaaatctat 51 atctgaacaa gtccattttt aggtactcca gtagatttac attggattgt 101 aaggtaatcc tacatcttag ttcaaacgtt ttctatttta tttttggtct 151 tgatcacaaa acacaacTAT ATATAcatat caaactcatc ttcggaaatc 201 ATCACAATCA ATAAACCTCA AACCCTAAAA TAAATTAAAC GAGTTCTACG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.003 -strand +28 : +20 TTAGGGTTT AC RSP00369 Mean Expected Number 0.003 +strand +20 : +28 AAACCCTAA AC RSP01103 Mean Expected Number 0.010 +strand +13 : +20 AAACCTCA AC RSP01303 Mean Expected Number 0.008 +strand +19 : +28 cAAACCCTAA Totally 4 motifs of 4 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 1021. Group RE: AC1 /AC: RSP01103//OS: Spinacia oleracea /GENE: rps22/RE: AC1 /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G24575 |PROD: the same as GENE |complement(8711023..8711515) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +51 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.14 T - 0.26 C - 0.20 1 tccttaccta tatcattagt ccaaatctct agacatgtgc atagaatata 51 ttaaaatcgg ccaaacctga agtagtagta tatttgctcg gaaaagacat 101 aaagaaaaca gggaatcaga ttcacgccca tctttcatgt ggactacaac 151 ctcataacat gtagtattaT ATAAAGAtac ctacgatagt tttcaaaaat 201 ATCCCTAATA AAACAACACT CCGATCCAAA CAAGAAAGAG CTAGTTTAAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00450 Mean Expected Number 0.003 +strand -8 : +4 TCAAAAATATcC AC RSP01015 Mean Expected Number 0.004 -strand -60 : -69 CAcATGAAAG AC RSP01711 Mean Expected Number 0.007 +strand +41 : +50 CTAGTTTAAG Totally 3 motifs of 3 different REs have been found Description of REs found 429. Group RE: AIV /AC: RSP00450//OS: Phaseolus vulgaris /GENE: CHS/RE: AIV /TF: unknown 940. Group TF: GAPF /AC: RSP01015//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 3 /TF: GAPF 1519. Group TF: RIN /AC: RSP01711//OS: Solanum lycopersicum /GENE: Synthetic OLIGO/RE: RIN BSC Others /TF: RIN ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G24600 |PROD: the same as GENE |8720295..8720707 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +66 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.13 T - 0.29 C - 0.23 1 tagataacat caccattaca aattcgtctt aattatcgta tatatattat 51 tgacacacaa agagagagat atgtgtaaga gactaatttg gcgttgccca 101 ccaacctaac ttcccttcta cttcatcaac aactcgtgtc cactttctca 151 tactaacctt ggttcaagat TATAATTAta aacacgcctc ccgcgtgaat 201 AGACAACGCA AACATCATAA AAACATCATA AGAAGAAGAA CTCTTTGGCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00079 Mean Expected Number 0.009 +strand -104 : -95 CCCACCaACC AC RSP00864 Mean Expected Number 0.000 +strand -140 : -132 AGAGAGAGA AC RSP01150 Mean Expected Number 0.008 -strand -24 : -34 AATTATAATCt Totally 3 motifs of 3 different REs have been found Description of REs found 78. Group RE: AC-I /AC: RSP00079//OS: Phaseolus vulgaris /GENE: PAL2/RE: AC-I /TF: unknown ||Identical REs AC: RSP00420 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1066. Group RE: C-DP BS2 /AC: RSP01150//OS: Cucumis sativus/GENE: POR/RE: C-DP BS2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G25275 |PROD: the same as GENE |8860659..8861349 |SUPPORT | 3 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +47 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.47 G - 0.18 T - 0.20 C - 0.14 1 taatattagt cacaaaaaaa aaaattatta gtccaccgtc gaaggaaaaa 51 aacaaaaagc agtagacaat tcttgaagta aaattaaagg gatagacaga 101 taacgtttac gagaggaatc atgacacgtg aacatggagt atcggtcaaa 151 cctggcaact gggacatttc TTTAAATAcc cacaaaatat cacttttgaa 201 GAAGTAGGAA AAAACAAAAC CAAAGAAGAT CTAAAGAGAT AAAGAGAATG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00340 Mean Expected Number 0.005 -strand -69 : -78 TtCACGTGTC AC RSP00524 Mean Expected Number 0.008 +strand -77 : -71 ACACGTG AC RSP00716 Mean Expected Number 0.008 +strand +15 : +23 CAAAACCAA AC RSP00838 Mean Expected Number 0.005 +strand -165 : -160 CCGTCG AC RSP00940 Mean Expected Number 0.009 -strand -158 : -167 TTCgACGGTG AC RSP01035 Mean Expected Number 0.008 -strand -72 : -78 ACGTGTC Totally 6 motifs of 6 different REs have been found Description of REs found 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 681. Group RE: GT motif /AC: RSP00716//OS: Arabidopsis thaliana /GENE: Adh/RE: GT motif /TF: unknown 783. Group RE: CCGTCG motif /AC: RSP00838//OS: Arabidopsis thaliana /GENE: H4A748/RE: CCGTCG motif /TF: unknown 869. Group TF: GBF /AC: RSP00940//OS: Lycopersicon esculentum /GENE: RbcS-3.6/RE: box II* /TF: GBF 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: basic helix-loop-helix (bHLH) family protein |LOCUS: AT1G25330 |PROD: the same as GENE |complement(8879863..8882085) |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +80 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.10 T - 0.28 C - 0.22 1 aatctactgc acagtgataa atggaaacct agctacgagt gtctctttgg 51 tctcacacgc ttctttctca ttctcaccaa aagtcacaca atacatgagc 101 aaataaccaa atcatttaaa aacttaactt attaaatatt tcaccccatc 151 ttagacattt ctatctaTAT AAACAatcac aactcaattg caagttttat 201 AACTGTCTTA GAGAAAGAAA AAAAACAAAA CTAGCTCACA AAAAGGAAAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00860 Mean Expected Number 0.004 +strand +12 : +20 AGAAAGAAA AC RSP01458 Mean Expected Number 0.005 +strand -87 : -75 ATTTAAAAAcTTA Totally 2 motifs of 2 different REs have been found Description of REs found 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 1328. Group RE: AT-rich ELS /AC: RSP01458//OS: Glycine max /GENE: BiP9/RE: AT-rich ELS /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G25370 |PROD: the same as GENE |complement(8897744..8899089) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +168 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.14 T - 0.24 C - 0.23 1 agactaaagc aatccaacgg ctattgattc accgacttac ttgaaaatgg 51 aaaatgttaa tgaacccggg aaaatgtaaa ccccaaacac atgcgcattt 101 tagctaccat ctaatgaaat taccgaactt accctccgat gcaacattaa 151 tttcctaaaa aatttctggT ATATATAcac gaagctttgt atatcacagc 201 AAAAAACGCA CAACGAGAAA ATAAAAAACG CACCGCCGGT AACAATTTTC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00509 Mean Expected Number 0.000 -strand -24 : -35 TATAtATACCAG AC RSP00566 Mean Expected Number 0.007 +strand -16 : -7 CtTTGTATAT AC RSP01046 Mean Expected Number 0.004 +strand -191 : -183 CAATCCAAC AC RSP01497 Mean Expected Number 0.003 -strand -180 : -189 GCCGTtGGAT Totally 4 motifs of 4 different REs have been found Description of REs found 485. Group RE: TATA box /AC: RSP00509//OS: Avena fatua /GENE: alpha-Amy2/A/RE: TATA box /TF: unknown 542. Group RE: TATA P /AC: RSP00566//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: TATA P /TF: unknown 970. Group RE: NON /AC: RSP01046//OS: Nicotiana tabacum /GENE: histone genes (oligo)/RE: NON /TF: unknown 1359. Group RE: CS5 /AC: RSP01497//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS5 /TF: unknown ||Identical REs AC: RSP01498 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: CAL |LOCUS: AT1G26310 |PROD: MADS-box protein, putative |complement(9100145..9103590) |SUPPORT | 8 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +93 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.12 T - 0.30 C - 0.22 1 ttattgaaaa ttatatacga gaaaacatag actcgacatt aggcaatgga 51 agtctaatca gaccaatgag aagtcgacaa cacatcctag aaaccaactc 101 tggtttattt ccttccCCAA Taccaagtta tagctttctt tcaaaccgct 151 atttccaaaa tatctcttcT TTAAATAaag agtgaaagaa gcactctttc 201 ACATTACCAT CATTAGAAAA CTTTCCTAAT TAGATCAAGA TCGTCGTTAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00085 Mean Expected Number 0.005 +strand +4 : +19 TTACCATcATTAGAAA AC RSP00085 Mean Expected Number 0.005 -strand +19 : +4 TTTCTAATgATGGTAA Totally 2 motifs of 1 different REs have been found Description of REs found 83. Group TF: AGL3 /AC: RSP00085//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AGL3-BE /TF: AGL3 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: glycosyl hydrolase family 1 protein |LOCUS: AT1G26560 |PROD: the same as GENE |9178365..9181821 |SUPPORT | 11 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +135 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.22 G - 0.10 T - 0.47 C - 0.20 1 aattgaattt acttttcata tttgtttttg tctagcttca tgtatgcatc 51 tcaatattaa caacagtggt tatcatatta ttatttcttt tgtctaaaaa 101 aacaaaaaat ttgtcacttt tttctttggc tcggatcaga agattttagg 151 tctctctttc ctttccTATA TATAgtagta ccccttacat agctttttcc 201 ACTTGCACTC CTCTTTTTCT TTCTTTCTTT CTTGTTGGTC TCTCTTACTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00444 Mean Expected Number 0.005 -strand +33 : +20 AAGAAAGAAAGAAA AC RSP00444 Mean Expected Number 0.005 -strand +29 : +16 AAGAAAGAAAGAAA AC RSP00842 Mean Expected Number 0.001 +strand -71 : -64 CTCGGATC Totally 3 motifs of 2 different REs have been found Description of REs found 424. Group TF: Dof1 /AC: RSP00444//OS: Zea mays /GENE: cyPPDK1/RE: box d /TF: Dof1 787. Group RE: dOCT /AC: RSP00842//OS: Zea mays /GENE: H3C4/RE: dOCT /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: UDP-glucose 6-dehydrogenase, putative |LOCUS: AT1G26570 |PROD: the same as GENE |9182191..9184380 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +597 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.17 T - 0.31 C - 0.16 1 atcccaaaaa ggtccaaatt aatctcttca taatctttag ctagtaaatt 51 ttgtaacgaa atgattatgg aagcataata attgaaccaa aaagaaaaaa 101 aagcgtgtgg gatttATTGG gagcaataaa taaaaagttg aaatgtgtaa 151 gtcaagtggg tgcgagtgta ttTATAAAAC tttcagaaga catcttctct 201 GCAAATTCCA TCATCGTCGC CGCAACAATA TCTTTTGCTT TCTCTCTCAT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00522 Mean Expected Number 0.007 -strand -42 : -48 CCACTTG AC RSP00653 Mean Expected Number 0.001 +strand +40 : +50 TTCTCTCTCaT AC RSP00654 Mean Expected Number 0.003 -strand -39 : -48 CACCCACTTg AC RSP00953 Mean Expected Number 0.007 -strand -117 : -125 CAATTATTA AC RSP01033 Mean Expected Number 0.007 -strand -189 : -198 CCTTTTTGGG AC RSP01214 Mean Expected Number 0.003 -strand -189 : -198 CCTTTTTGGG Totally 6 motifs of 6 different REs have been found Description of REs found 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 628. Group RE: CT-B /AC: RSP00654//OS: Spinacia oleracea /GENE: PetH/RE: CT-B /TF: unknown 880. Group TF: ATHB6 /AC: RSP00953//OS: Arabidopsis thaliana /GENE: ATHB6/RE: ATHB6 BS /TF: ATHB6 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1122. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01214//OS: Brassica oleracea /GENE: BoCRC/RE: EM1 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ATEXPA10 |LOCUS: AT1G26770 |PROD: expansin, putative (EXP10) |9259592..9261300 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +200 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.10 T - 0.33 C - 0.20 1 ctcatttaat aaacaacaaa aatgtttgtt gaaaaaaaaa aagtttttat 51 ttatcttgac cttatttctt tgaagaaaat aaagcttggt tattaaagaa 101 gtccaagtta gttgccacca tcagtggcat aacggtaaat taaagccaac 151 ttcctctaac taaagttttc TATAAATTca accactcacc tcccactcta 201 AAACCCAACA ACATAATTTC ACATATCTCT CTTTCTTTCT CTTGAAGGAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00040 Mean Expected Number 0.009 -strand -171 : -177 AACAAAC AC RSP00840 Mean Expected Number 0.006 -strand -73 : -78 GCCACT AC RSP00860 Mean Expected Number 0.004 -strand +40 : +32 AGAAAGAAA AC RSP00861 Mean Expected Number 0.002 -strand +36 : +28 AGAAAGAGA AC RSP00960 Mean Expected Number 0.001 -strand -87 : -94 CAACTAAC Totally 5 motifs of 5 different REs have been found Description of REs found 39. Group RE: AACA box (D) /AC: RSP00040//OS: Oryza sativa /GENE: GluB-1/RE: AACA box (D) /TF: unknown 785. Group RE: CAT /AC: RSP00840//OS: Arabidopsis thaliana /GENE: H4A748/RE: CAT /TF: unknown 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 885. Group TF: HvGAMYB /AC: RSP00960//OS: Hordeum vulgare /GENE: ITR1/RE: MYB BS /TF: HvGAMYB ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: self-incompatibility protein-related |LOCUS: AT1G26795 |PROD: the same as GENE |9276368..9276941 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +38 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.09 T - 0.37 C - 0.14 1 taaatttgac catttttgtt gccaaagaat aatgatatag aaaccattaa 51 atatatattt tatttagtat gcttgtaatt gtattttacg ttacaaacta 101 aagatttata cgtatatccc agaagataat ttgcattaaa aataataaca 151 catttaatgt attttcatcT ATAAATTctt gcttctgaaa cagaacaaat 201 ATTATTATCT CACAAATTCT TAAAAGTAAA ACACACTCAT GGCTTTCTCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00319 Mean Expected Number 0.001 +strand -81 : -73 CAGAAGATA AC RSP00383 Mean Expected Number 0.009 -strand -190 : -196 GGTCAAA AC RSP01086 Mean Expected Number 0.007 +strand -116 : -107 TTTACGTTaC AC RSP01195 Mean Expected Number 0.003 -strand +3 : -10 AATATTTgTTCTG AC RSP01233 Mean Expected Number 0.009 -strand -18 : -24 AGCAAGA Totally 5 motifs of 5 different REs have been found Description of REs found 305. Group TF: R-GATA /AC: RSP00319//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: GATA motif /TF: R-GATA 368. Group TF: WRKY1 /AC: RSP00383//OS: Petroselinum crispum /GENE: WRKY1/RE: WA /TF: WRKY1 1004. Group TF: bZIP TF /AC: RSP01086//OS: Helianthus annuus /GENE: sHSP/RE: bZIP BS /TF: bZIP TF 1106. Group RE: Region II /AC: RSP01195//OS: Zea mays /GENE: cab-ml/RE: Region II /TF: unknown 1138. Group RE: PLE-79 /AC: RSP01233//OS: Collettrichum lindemuthianum (bean pathogen) /GENE: CLPG2/RE: PLE-79 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein, Location of EST 228A16T7A |LOCUS: AT1G26920 |PROD: the same as GENE |9329499..9330385 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +72 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.07 T - 0.38 C - 0.21 1 gatttctttc cgtgtaatgc gataatttga ataaagcatt cacatgtttc 51 ttcctcctga catgcacgaa gcaatttaaa ataatactaa atcacattat 101 tattttaata ctatACAATa taaatagcta ttttgaccaa ataatctctc 151 tatataaTAT ATATAtatat atatatatac atttcactct ctatgactct 201 ATCTCGCTTA TCACCCTCAC AATTTCTCTC TCTAACGTTT CTAAAACATC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00016 Mean Expected Number 0.007 +strand -140 : -134 CATGCAC AC RSP00802 Mean Expected Number 0.000 -strand -33 : -52 ATATATATATATTATATAga AC RSP00864 Mean Expected Number 0.004 -strand +33 : +25 AGAGAGAGA AC RSP01016 Mean Expected Number 0.010 -strand -150 : -157 AGAAACAT AC RSP01469 Mean Expected Number 0.006 +strand -161 : -152 TCACATGTtT AC RSP01470 Mean Expected Number 0.005 -strand -132 : -141 TCgTGCATGT Totally 6 motifs of 6 different REs have been found Description of REs found 15. Group RE: RY /AC: RSP00016//OS: Glycine max /GENE: beta-conglycinin/RE: RY /TF: unknown 755. Group TF: BABF /AC: RSP00802//OS: Solanum tuberosum /GENE: patatin 21/RE: Box A-1 /TF: BABF 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 941. Group TF: AEF /AC: RSP01016//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 1 /TF: AEF 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) 1340. Group TF: Opaque-2 (O2) /AC: RSP01470//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z2 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: U2 snRNP auxiliary factor small subunit, putative |LOCUS: AT1G27650 |PROD: the same as GENE |9614562..9616344 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +577 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.13 T - 0.31 C - 0.25 1 tcatcatatg atcaagctta taccgatcgg ataagtaatt aaccggttca 51 attaactaca cctagcttat accgatcgta taaaccggtc aagaaccaaa 101 accgcttggt ttccattcta gaccaaaccg gattctagtt tccattatta 151 ttatcttttt tatcggatta aaaaTATAAA TCcttatgtc aggagatccc 201 ATTCTCTGTC TCTCTGTCTT TCTCCCCCAA CTCGCGAACA AAGCAAACCC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00447 Mean Expected Number 0.004 +strand +37 : +46 AACAAAGCAA AC RSP00751 Mean Expected Number 0.001 -strand -32 : -43 AAtCCGATAAAA AC RSP01463 Mean Expected Number 0.002 -strand -20 : -32 ATTTATATtTTTA AC RSP01640 Mean Expected Number 0.007 +strand +4 : +13 CTcTGTCTCT Totally 4 motifs of 4 different REs have been found Description of REs found 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 713. Group TF: GT-1 /AC: RSP00751//OS: Catharanthus roseus /GENE: STR/RE: BN-2 /TF: GT-1 1333. Group RE: AT-rich ELS /AC: RSP01463//OS: Glycine max /GENE: BiP6/RE: AT-rich ELS /TF: unknown 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: basic helix-loop-helix (bHLH) family protein |LOCUS: AT1G27740 |PROD: the same as GENE |9654675..9656068 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +65 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.11 T - 0.31 C - 0.22 1 atcgtgttca tcatcatgca tggcttcgtt tcacttattt aattaacgac 51 ttgttcacga cacaaatgat tgtaccagtt taagaatctc ttgatctctc 101 ttcatcatca ccaaatcttc cttgagaaat attctctcca tcatcaagtg 151 tctccaaccT ATATATAtat atatatagtt gcacaagttc aagaattatc 201 ATAACAACAA ACTAACAAAC AACAACAACA ACAACAAGAA AGGCAAGAGT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00108 Mean Expected Number 0.002 +strand -186 : -179 CATGCATG AC RSP00108 Mean Expected Number 0.002 -strand -179 : -186 CATGCATG AC RSP01076 Mean Expected Number 0.001 +strand -186 : -177 CATGCaTGGC AC RSP01237 Mean Expected Number 0.010 -strand -23 : -32 CTaTATATAT AC RSP01470 Mean Expected Number 0.006 +strand -187 : -178 TCATGCATGg AC RSP01642 Mean Expected Number 0.006 +strand -55 : -46 AAgTGTCTCC Totally 6 motifs of 5 different REs have been found Description of REs found 106. Group RE: RY4 /AC: RSP00108//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY4 /TF: unknown ||Identical REs AC: RSP01169 RSP01452 994. Group TF: CpbZIP1; CpbZIP2 (short) /AC: RSP01076//OS: Craterostigma plantagineum (Scrophulariaceae) /GENE: CpC2/RE: ABRE III /TF: CpbZIP1; CpbZIP2 (short) 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1340. Group TF: Opaque-2 (O2) /AC: RSP01470//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z2 /TF: Opaque-2 (O2) 1462. Group RE: ARE /AC: RSP01642//OS: Nicotiana tabacum /GENE: WIPK/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: lipid transfer protein-related |LOCUS: AT1G27950 |PROD: the same as GENE |9740691..9742146 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +36 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.13 T - 0.26 C - 0.21 1 tgatgtttga tttcattcac tatcccgtca ataaaatcac acgcaaacaa 51 aagtaaggtc aacacttata tcagcatcgt taatgttaat atgtataggt 101 gtctaagctc ccaactacac accacATTGC atttaatacg cacaacacac 151 acacctcaaa gtcattttgc tTTTAAATAc aaacaagatc ttcaacaagc 201 AAAAGAGTAA TTGAACAAAA GAAAGAAAAA CTGATAATGA AGGGTCTTCA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00642 Mean Expected Number 0.005 -strand -66 : -73 TAAATGCA AC RSP00860 Mean Expected Number 0.007 +strand +20 : +28 AGAAAGAAA AC RSP00918 Mean Expected Number 0.009 -strand -138 : -147 GTTGACCTTA Totally 3 motifs of 3 different REs have been found Description of REs found 617. Group RE: L1-box /AC: RSP00642//OS: Arabidopsis thaliana /GENE: PDF1/RE: L1-box /TF: unknown 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 849. Group TF: Opaque-2 /AC: RSP00918//OS: Zea mays /GENE: O2/RE: B5-like motif /TF: Opaque-2 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ATERF11/ERF11 |LOCUS: AT1G28370 |PROD: ERF domain protein 11 (ERF11) |complement(9955955..9956926) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +89 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.10 T - 0.31 C - 0.23 1 aaatagataa aatgtctttt agtaataaga aaaaaaaaaa aaaaaaagct 51 tcttcactct cactttcctc tttcgtggag acaaaaaaaa gaagccacgt 101 aatatggatt taattaccaa aactgccact cggccgcccc tttgttgact 151 tatatttgtc gtctcctcct TATAAATGat gtcctcacaa acttcttcac 201 ATAACAAACT CATCAAACTT CCTCAGCGTT TCTTTTTCTT ACATAAACAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00043 Mean Expected Number 0.001 -strand -100 : -107 TACGTGGC AC RSP00063 Mean Expected Number 0.000 -strand -67 : -76 GCCGaGTGGC AC RSP00064 Mean Expected Number 0.003 -strand -98 : -107 AtTACGTGGC AC RSP00247 Mean Expected Number 0.002 +strand -107 : -98 GCCACGTAAt AC RSP00438 Mean Expected Number 0.007 -strand -63 : -68 GGCGGC AC RSP00807 Mean Expected Number 0.007 +strand -68 : -63 GCCGCC AC RSP01034 Mean Expected Number 0.003 -strand -101 : -107 ACGTGGC Totally 7 motifs of 7 different REs have been found Description of REs found 42. Group TF: TAF-1 /AC: RSP00043//OS: Oryza sativa /GENE: rab16A-D/RE: Motif I core /TF: TAF-1 62. Group RE: Motif III /AC: RSP00063//OS: Oryza sativa /GENE: rab16B/RE: Motif III /TF: unknown 63. Group RE: Motif I /AC: RSP00064//OS: Oryza sativa /GENE: rab16B/RE: Motif I /TF: unknown 240. Group TF: REB /AC: RSP00247//OS: Oryza sativa /GENE: alpha-globulin/RE: REB1 /TF: REB ||Identical REs AC: RSP00738 418. Group RE: PR-box /AC: RSP00438//OS: Arabidopsis thaliana /GENE: PR-1/RE: PR-box /TF: unknown 760. Group RE: GCC box /Group TF: Pti4 /AC: RSP00807//OS: Arabidopsis thaliana /GENE: PDF1.2/RE: GCC box /TF: Pti4 ||Identical REs AC: RSP00809 RSP00811 RSP00814 RSP00921 RSP01328 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: transferase family protein |LOCUS: AT1G28680 |PROD: the same as GENE |10078175..10080015 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +33 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.22 T - 0.31 C - 0.16 1 cagtgaagac aagtatgaag tatggtatga ataacaaaaa gactaaaatg 51 attttgtttg aaactgttgt aggtgagaaa tttggacatg ggacttgacc 101 gtttggtagt tggtgaagcc tactctcgtg agctgtgtcc cctcaaggca 151 ttgattttgc ttctctTATA AATAtggacc ccaaaactta ttttggaagt 201 AACAAAGACC CATACCATTC TTATTATTAA GGTATGGCGA CACTTGAAAT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00114 Mean Expected Number 0.006 -strand -188 : -197 CTTGTCtTCA AC RSP00286 Mean Expected Number 0.002 -strand -123 : -133 TCTCACCTACa AC RSP01032 Mean Expected Number 0.009 -strand -5 : -14 CCAAAATAAG AC RSP01184 Mean Expected Number 0.002 -strand -123 : -134 TCTCACCTACaA AC RSP01209 Mean Expected Number 0.007 +strand -14 : -5 CTTATTTTGG Totally 5 motifs of 5 different REs have been found Description of REs found 112. Group RE: B2 /AC: RSP00114//OS: Glycine max /GENE: GmAux28/RE: B2 /TF: unknown 277. Group RE: Box L /AC: RSP00286//OS: Petroselinum crispum /GENE: PAL-1/RE: Box L /TF: unknown ||Identical REs AC: RSP01754 957. Group TF: FLC /AC: RSP01032//OS: Arabidopsis thaliana /GENE: SOC1/RE: CArG box /TF: FLC 1096. Group RE: box 1 /AC: RSP01184//OS: Various plants /GENE: chsA/RE: box 1 /TF: unknown 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: auxin-responsive protein, putative |LOCUS: AT1G29450 |PROD: the same as GENE |complement(10305937..10306485) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +93 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.15 T - 0.33 C - 0.20 1 attcatactc acatggtcat gtcttctcag ttctcaccat gtatgtttta 51 atccacaagt tgatttgaaa taagattgat tgctaacttg ggacccttat 101 gatcactaac aagaaacctg gcatgtgttt ctgtctggct tggttgctct 151 aaaacaataa tagtttctcc tTATATATAa tgaaacaagc ctgtgggaat 201 CTTCACCAAT CATAACTTGC ATTCAAAGAG TTCTACAACA CAAGTTAAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00996 Mean Expected Number 0.003 +strand -142 : -133 GTTGATTTGA AC RSP01191 Mean Expected Number 0.001 -strand -5 : -12 CCACAGGC AC RSP01597 Mean Expected Number 0.001 +strand -8 : +3 GTGGGaATCTT Totally 3 motifs of 3 different REs have been found Description of REs found 917. Group TF: Opaque-2 (O2) /AC: RSP00996//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-1 /TF: Opaque-2 (O2) 1102. Group RE: A-box /Group TF: A factor /AC: RSP01191//OS: Nicotiana tabacum /GENE: Adhl/RE: A-box /TF: A factor 1418. Group RE: Box II* /AC: RSP01597//OS: Pisum sativum /GENE: rbcS-3.6/RE: Box II* /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: auxin-responsive protein, putative |LOCUS: AT1G29460 |PROD: the same as GENE |complement(10307493..10308129) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +88 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.12 T - 0.38 C - 0.20 1 tcatgtttct tctcaccatg ttaatggttt ctaatccaca aattgattta 51 gcagatatga ttgattacta gtttgggacc tctttagaca agaactacaa 101 gagcatgtgt ttctgtcttc tttggttgct cttaattata tctaaaactc 151 taatactttc tctttataTA TAAAATgcaa caaagcttag agcattcttc 201 ATCATTCACC ACTTTCATTA CTTCAGAGAT TTATACTACA ACACAACTTA 251 C Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: auxin-responsive family protein |LOCUS: AT1G29490 |PROD: the same as GENE |10319730..10320388 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +91 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.15 T - 0.33 C - 0.20 1 atcacgcctt ttccacagaa gtttcaatcc acaagttgat gagcagcatg 51 gttggttagt ggttactaac tttggaaccc tttttaatca catacaacaa 101 agacaaaagc atgtgttatg tctggtttag gtgctCCAAT tttatctaac 151 ttaaaatagt ttttcctTAT ATATAatgca acaagcctat tggattcttc 201 ATCAACCATA ACTTGCATTC AAAGAGTTAT ACAAGACAAC TTACAAGCCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00259 Mean Expected Number 0.009 +strand -148 : -142 TGGTTAG AC RSP01454 Mean Expected Number 0.004 -strand -145 : -151 ACCAACC Totally 2 motifs of 2 different REs have been found Description of REs found 252. Group TF: ATMyb2 /AC: RSP00259//OS: Arabidopsis thaliana /GENE: rd22/RE: ATMyb2 BS /TF: ATMyb2 1325. Group RE: AC-II /Group TF: PtMYB4 /AC: RSP01454//OS: Pinus taeda /GENE: Synthetic OLIGO/RE: AC-II /TF: PtMYB4 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: GDSL-motif lipase/hydrolase family protein |LOCUS: AT1G29670 |PROD: the same as GENE |10375753..10378144 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +76 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.10 T - 0.35 C - 0.20 1 ttagttgtcg gcacatatac cttttaaatt atcgaatata aagccattga 51 taaatcttga ttctgatgtt gaatgagaaa aaactggtca cattatattg 101 gacccaCCAA Tcttaaagtg actaggccta caaaaattaa atctatcaaa 151 aacacaaatg tctctcTATA TATAgttaca caacttcttt ggacttcttc 201 ACATTCACTC ATATCACTAC ACTTTCCATT AATTACCAAT ATATTTTTAC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00359 Mean Expected Number 0.003 -strand -189 : -194 GCCGAC AC RSP00874 Mean Expected Number 0.005 +strand -90 : -80 TCTTAAAGTGa AC RSP01237 Mean Expected Number 0.002 +strand -37 : -28 CTCTATATAT AC RSP01642 Mean Expected Number 0.006 +strand -45 : -36 AAATGTCTCt Totally 4 motifs of 4 different REs have been found Description of REs found 344. Group TF: HvCBF1 /AC: RSP00359//OS: Hordeum vulgare /GENE: HVA1s/RE: GCCGAC motif /TF: HvCBF1 ||Identical REs AC: RSP00952 810. Group TF: Dof3 /AC: RSP00874//OS: Zea mays /GENE: Synthetic oligonucleotids/RE: Dof3 BSopt /TF: Dof3 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1462. Group RE: ARE /AC: RSP01642//OS: Nicotiana tabacum /GENE: WIPK/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: diadenosine 5',5'''-P1,P4-tetraphosphate hydrolase |LOCUS: AT1G30110 |PROD: the same as GENE |10582076..10584052 |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +608 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.20 T - 0.31 C - 0.18 1 gtttgtctcg acattatatt atacacgtgg caactggatt tatgttaaaa 51 taagtcgtcg gtgggcccgg cccaatacaa acagttagaa taagatgcca 101 aatagtcaga gctgatatta cgaaacgtca tcgttctaga ccgaatccaa 151 ttctgTATAT ATAttaatgt aaaagattta tacgtgtgct ttgtgtttga 201 AAGAAAACAC ACACACACAC ACATGTTCTT CGTTGCTGCT TCGTTGGGTT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00002 Mean Expected Number 0.000 +strand -178 : -170 ACACGTGGC AC RSP00029 Mean Expected Number 0.008 +strand -33 : -26 TGTAAAAG AC RSP00095 Mean Expected Number 0.000 +strand -140 : -132 GTGGGCCCG AC RSP00175 Mean Expected Number 0.001 +strand -177 : -170 CACGTGGC AC RSP00204 Mean Expected Number 0.002 +strand -179 : -170 tACACGTGGC AC RSP00524 Mean Expected Number 0.009 +strand -178 : -172 ACACGTG AC RSP00682 Mean Expected Number 0.002 -strand -170 : -179 GCCACGTGtA AC RSP00783 Mean Expected Number 0.000 +strand -179 : -170 TACACGTGGC AC RSP00868 Mean Expected Number 0.005 +strand -189 : -178 cATTATATTATA AC RSP00997 Mean Expected Number 0.003 -strand -69 : -78 GATGACGTTT AC RSP01034 Mean Expected Number 0.006 +strand -176 : -170 ACGTGGC AC RSP01134 Mean Expected Number 0.003 +strand -68 : -59 GTTCtAGACC AC RSP01237 Mean Expected Number 0.009 +strand -48 : -39 CTgTATATAT AC RSP01255 Mean Expected Number 0.002 +strand -178 : -171 ACACGTGG AC RSP01288 Mean Expected Number 0.005 +strand -21 : -14 ATACGTGT AC RSP01593 Mean Expected Number 0.000 +strand -179 : -168 TACACGTGGCAa AC RSP01654 Mean Expected Number 0.007 -strand -69 : -78 GATGACGTTT Totally 17 motifs of 17 different REs have been found Description of REs found 2. Group RE: ABRE-3 /AC: RSP00002//OS: Brassica napus /GENE: Oleosin/RE: ABRE-3 /TF: unknown 28. Group RE: P-box 1 /AC: RSP00029//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 1 /TF: unknown 93. Group TF: GCBP-2 /AC: RSP00095//OS: Zea mays /GENE: GapC4/RE: GCBP-2 BS /TF: GCBP-2 169. Group RE: ABRE /Group TF: ABF /AC: RSP00175//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: ABRE /TF: ABF ||Identical REs AC: RSP00723 RSP01570 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 651. Group TF: GBF3 /AC: RSP00682//OS: Arabidopsis thaliana /GENE: Adh/RE: -214 G-box (core) /TF: GBF3 738. Group TF: G-box binding TF /AC: RSP00783//OS: Nicotiana tabacum /GENE: OLIGO-GUS/RE: G-box 7 /TF: G-box binding TF 804. Group RE: TA-rich motif /AC: RSP00868//OS: Nicotiana tabacum /GENE: NiPMT1a/RE: TA-rich motif /TF: unknown 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1052. Group TF: CTF2 /AC: RSP01134//OS: Nectria haematococca /GENE: Cutinase/RE: CTF2 BS /TF: CTF2 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1158. Group TF: GBF1 /AC: RSP01255//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS2 /TF: GBF1 1185. Group RE: Z-DNA-motif /AC: RSP01288//OS: Arabidopsis thaliana /GENE: cab1/RE: Z-DNA-motif /TF: unknown 1415. Group TF: GBF /AC: RSP01593//OS: Pisum sativum /GENE: rbcS-3.6/RE: G box /TF: GBF 1472. Group TF: STF1/HY5 /AC: RSP01654//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: STF1/HY5 BS (cons) /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G30130 |PROD: the same as GENE |10587587..10589730 |SUPPORT | 6 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +63 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.42 G - 0.13 T - 0.29 C - 0.16 1 acacaacaca ataatatact gtcactgaag ataacaatgg cctctatgag 51 acaaattcta aattaatact aacttatagc attttaaaac ggcattatta 101 gattcaaaaa taataaaagt aaattactcg ttaaattaat acttatcgtt 151 aaacgtggca ttaaatCATA AATAtaccaa acctctgcat ttgaagggtc 201 ATCAATGTCA ATCTCTGATT TTTGAAAAAG ATCAGATAGA GATAGAGAGA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00735 Mean Expected Number 0.009 -strand +23 : +16 AAAAATCA AC RSP00773 Mean Expected Number 0.005 -strand -33 : -42 TGATTTAATG AC RSP01013 Mean Expected Number 0.003 -strand -8 : -17 CAAATGcAGA AC RSP01014 Mean Expected Number 0.005 -strand -8 : -17 CAAATGcAGA AC RSP01034 Mean Expected Number 0.002 +strand -48 : -42 ACGTGGC Totally 5 motifs of 5 different REs have been found Description of REs found 698. Group TF: DET1; CCA1 /AC: RSP00735//OS: Arabidopsis thaliana /GENE: CAB2/RE: CCA1 BS /TF: DET1; CCA1 729. Group RE: Box III /AC: RSP00773//OS: Brassica oleracea /GENE: SLR1/RE: Box III /TF: unknown 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 939. Group TF: GAPF /AC: RSP01014//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 2 /TF: GAPF 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: WRKY14 |LOCUS: AT1G30650 |PROD: WRKY family transcription factor |10868285..10871279 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +309 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.11 T - 0.33 C - 0.18 1 aatcaagaaa ccaatattat attagaactt cacaaactca agtaaactca 51 aaaagataat ctaaactaaa aagtacaaag acttggccat cgattggatt 101 atctatagga ttaataaata gagtatctca cttactttaa cttatatttc 151 catccatact ttaaTATTAA TAtccgttga tattatactt actactgaaa 201 TCTCTCTCTC TCTCTCATAT CAACATGTAG AAGGGGAAGA AGATGTTCTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00307 Mean Expected Number 0.010 -strand -114 : -119 GCCAAG AC RSP00864 Mean Expected Number 0.001 -strand +15 : +7 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand +13 : +5 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand +11 : +3 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand +9 : +1 AGAGAGAGA AC RSP00996 Mean Expected Number 0.007 -strand +24 : +15 GTTGATATGA AC RSP01231 Mean Expected Number 0.010 +strand -27 : -22 CCGTTG AC RSP01283 Mean Expected Number 0.000 -strand +16 : -1 GAGAGAGAGAGAGAGAt AC RSP01499 Mean Expected Number 0.001 -strand +38 : +29 TTCCCCtTCT Totally 9 motifs of 6 different REs have been found Description of REs found 294. Group RE: GCCAAG motif /AC: RSP00307//OS: Hordeum vulgare /GENE: Chi26/RE: GCCAAG motif /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 917. Group TF: Opaque-2 (O2) /AC: RSP00996//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-1 /TF: Opaque-2 (O2) 1136. Group RE: A-box (2) /AC: RSP01231//OS: Arabidopsis thaliana /GENE: C4H/RE: A-box (2) /TF: unknown 1180. Group RE: GAGA element /AC: RSP01283//OS: OS: Glycine max /GENE: gsa1/RE: GAGA element /TF: unknown 1360. Group RE: CS6 /AC: RSP01499//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS6 /TF: unknown ||Identical REs AC: RSP01500 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: cationic peroxidase, putative |LOCUS: AT1G30870 |PROD: the same as GENE |10991466..10993004 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +50 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.44 G - 0.09 T - 0.28 C - 0.18 1 aaaggttttt taaaattata ctattaatat atatcatttg atcaaaaaaa 51 aattatatat cataaacatt atatacgaca tgcaggcaag tcactcgaat 101 attcaaatct taaagttgtg cctcccacgt aaaagcatca cattagtttc 151 caaacccaat tgtataTATA AATTactaca caacacacct ctcatcaaac 201 AAATTCATCA AAGCCAATCA AATTGAGAGA GATATCAAGA AAGCAAAATA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00122 Mean Expected Number 0.006 +strand -79 : -73 CTCCCAC AC RSP00874 Mean Expected Number 0.004 +strand -93 : -83 TCTTAAAGTtG Totally 2 motifs of 2 different REs have been found Description of REs found 120. Group RE: Box C /AC: RSP00122//OS: Pisum sativum /GENE: AS1/RE: Box C /TF: unknown 810. Group TF: Dof3 /AC: RSP00874//OS: Zea mays /GENE: Synthetic oligonucleotids/RE: Dof3 BSopt /TF: Dof3 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G31335 |PROD: the same as GENE |complement(11216895..11217374) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +64 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.44 G - 0.18 T - 0.21 C - 0.17 1 gagacatgac taatgtgatt ataaaaacta gaagaaatcg tatggatggg 51 ccgaccaaaa aaaaagatga ccgttgagat ttaaacgtta agctttaaag 101 ctttacaaga cataaacgtt gcggacagaa tcggatcctt ccagagcctc 151 ccacaaactc atacaTATAA ATAcatgtga agtagaatca aagcaagaac 201 AAGAGTCCAA GAATAAAAAT CAATCAGAAA GAAGATTGAA CATAGATCTC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00122 Mean Expected Number 0.003 +strand -53 : -47 CTCCCAC AC RSP00233 Mean Expected Number 0.006 -strand -15 : -24 TCTACtTCAC AC RSP01632 Mean Expected Number 0.001 +strand -108 : -98 CTTTAAAGCTT AC RSP01632 Mean Expected Number 0.001 -strand -101 : -111 CTTTAAAGCTT AC RSP01637 Mean Expected Number 0.001 +strand -108 : -98 CTTTAAAGCTT AC RSP01637 Mean Expected Number 0.001 -strand -101 : -111 CTTTAAAGCTT Totally 6 motifs of 4 different REs have been found Description of REs found 120. Group RE: Box C /AC: RSP00122//OS: Pisum sativum /GENE: AS1/RE: Box C /TF: unknown 226. Group RE: LS5 /Group TF: TGA2 & NPR1/NIM1 /AC: RSP00233//OS: Arabidopsis thaliana /GENE: PR-1/RE: LS5 /TF: TGA2 & NPR1/NIM1 1452. Group RE: TERE /AC: RSP01632//OS: Arabidopsis thaliana /GENE: At5g51890/RE: TERE /TF: unknown 1457. Group RE: TERE /AC: RSP01637//OS: Arabidopsis thaliana /GENE: XSP1/RE: TERE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: pinoresinol-lariciresinol reductase, putative |LOCUS: AT1G32100 |PROD: the same as GENE |complement(11546318..11547974) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +41 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.17 T - 0.32 C - 0.12 1 tttgtcataa gtattcattg aaaaaggata tggtgagaaa agtattaata 51 gaaaatacgt attttctttc ataggcatca tatcaaatgt cgatatcttt 101 acttataatg catACAATta tcggttaggt gtacacatat atatgtaaat 151 gtatatgttt cgattcatTA TATATAtaca caatcaagag aggctctttc 201 AACCAAAACA TTGATCTATA GAGAGAGAGA GAGAACAAAA AATGGGAGAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00864 Mean Expected Number 0.002 +strand +20 : +28 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 +strand +22 : +30 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 +strand +24 : +32 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 +strand +26 : +34 AGAGAGAGA AC RSP01283 Mean Expected Number 0.000 +strand +19 : +35 tAGAGAGAGAGAGAGAA AC RSP01702 Mean Expected Number 0.008 +strand -147 : -138 AAtACGTATT AC RSP01702 Mean Expected Number 0.008 -strand -138 : -147 AAtACGTATT Totally 7 motifs of 3 different REs have been found Description of REs found 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1180. Group RE: GAGA element /AC: RSP01283//OS: OS: Glycine max /GENE: gsa1/RE: GAGA element /TF: unknown 1511. Group RE: ACGT1 /AC: RSP01702//OS: Arabidopsis thaliana /GENE: XERO2/RE: ACGT1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: alternative oxidase, putative |LOCUS: AT1G32350 |PROD: the same as GENE |complement(11666957..11668670) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +121 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.08 T - 0.33 C - 0.22 1 taataatata atatgatggt gacaaacaca atccttaagt aatttcacat 51 gttcttttac ttttccacaa acataaaatg taacaaaacg tgtcaaacat 101 ttcctccatt cttattcatc ctccaagaaa ctttgaactt gaccgagatt 151 agtaataatc actcgtgtaT ATAAATTcat ctcttcataa tttatctgcc 201 ACATATGAAC ATAACCCAAT CTGAAGATCA ATCATAACCT TAAACCATCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00421 Mean Expected Number 0.004 +strand -59 : -53 ACCGAGA AC RSP01030 Mean Expected Number 0.009 +strand -75 : -68 AGAAACTT AC RSP01035 Mean Expected Number 0.003 +strand -113 : -107 ACGTGTC Totally 3 motifs of 3 different REs have been found Description of REs found 402. Group RE: DRE1 /AC: RSP00421//OS: Zea mays /GENE: rab17/RE: DRE1 /TF: unknown 955. Group TF: AEF /AC: RSP01030//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 1 /TF: AEF 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: dienelactone hydrolase family protein |LOCUS: AT1G35420 |PROD: the same as GENE |13026292..13027645 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +6 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.09 T - 0.38 C - 0.22 1 catagacttt accatttttc agattttcat tgttaacaac ccctaaaagt 51 atattattat gatctcaatt tcttccactt cctttttttt ttcggtttta 101 ccaatttctc cacttaactg ttACAATtca atattttatt aacaaatatc 151 caaaacaaTA TAAAGAaaaa cttctggacc atattgattc tagaaagata 201 CTTACAATGG CTGCATCGTT AGCCTCTCTT TCCTCCTTAG CTAAAGCCGG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00288 Mean Expected Number 0.009 -strand -20 : -25 TGGTCC AC RSP00751 Mean Expected Number 0.002 -strand -103 : -114 AAACCGAaAAAA AC RSP01678 Mean Expected Number 0.008 -strand -60 : -71 tAATAAAATATT AC RSP01687 Mean Expected Number 0.003 -strand +49 : +43 CGGCTTT Totally 4 motifs of 4 different REs have been found Description of REs found 279. Group RE: Motif VI /AC: RSP00288//OS: Pisum sativum /GENE: PSPAL2/RE: Motif VI /TF: unknown 713. Group TF: GT-1 /AC: RSP00751//OS: Catharanthus roseus /GENE: STR/RE: BN-2 /TF: GT-1 1496. Group TF: AT-Hook TFs /AC: RSP01678//OS: Catharanthus roseus /GENE: ORSA3/RE: JRE (Quant. Seq.) /TF: AT-Hook TFs 1505. Group RE: CARE E /AC: RSP01687//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE E /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G35430 |PROD: the same as GENE |complement(13030531..13031130) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +121 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.12 T - 0.31 C - 0.20 1 tttttgtact cgttagctta tctgtcttca gaaatgttct tgtactttcc 51 gactctttgt atttcataat aactttcctc caaactggtc ttgctcatat 101 aacaaacaga tttatcaaat tttgtaaata agtaaaaaac agtcacatga 151 caaaaaccaa acacaagtaT ATAAAAAagt caaataaaaa gaacaaagtc 201 ATGTGCCAAA GAAGCTTCTC CATGATCCCA CTCATTTACC AAAGTCGTGT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.007 +strand -74 : -63 AAtAAGTAAAAA AC RSP00129 Mean Expected Number 0.008 -strand +49 : +44 CACGAC AC RSP00749 Mean Expected Number 0.004 +strand -82 : -71 ATTTTGTAAaTA Totally 3 motifs of 3 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 127. Group RE: R-motif /AC: RSP00129//OS: Zea mays /GENE: Bronze2/RE: R-motif /TF: unknown 711. Group TF: GT-1 /AC: RSP00749//OS: Catharanthus roseus /GENE: STR/RE: BN /TF: GT-1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: trehalose-6-phosphate phosphatase, putative |LOCUS: AT1G35910 |PROD: the same as GENE |complement(13364219..13366270) |SUPPORT | 8 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +93 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.12 T - 0.30 C - 0.19 1 gtcaaatatt tactaattaa tggaccaaaa tcctctaact tgcaaatttg 51 tatctacatc aacttaaaaa ttaggaatat gcgacccaaa aaaaaaaaaa 101 ctaggaataa taataaaaaa atggaatgat gtggaggaag ctctttactc 151 tttgagagga agttTATAAA TTgaccacac atttagtcta ttatcatcac 201 ATGTATTAAG ACTTGACAAC TTGTCTTTCT CACACCAAAC CCCTCTCCTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00200 Mean Expected Number 0.001 -strand -179 : -188 CATTAATTAG AC RSP00467 Mean Expected Number 0.004 -strand -24 : -33 TGGTCAATTt AC RSP01469 Mean Expected Number 0.006 +strand -4 : +6 TCACATGTaT Totally 3 motifs of 3 different REs have been found Description of REs found 193. Group TF: GmHdl56; GmHdl57 /AC: RSP00200//OS: Glycine max /GENE: vspB/RE: PRD motif 1 /TF: GmHdl56; GmHdl57 445. Group RE: ERE1 /AC: RSP00467//OS: Dianthus caryophyylus /GENE: hcbt2/RE: ERE1 /TF: unknown 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: 60S ribosomal protein L35a (RPL35aB) |LOCUS: AT1G41880 |PROD: the same as GENE |complement(15653564..15654932) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +64 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.21 T - 0.30 C - 0.16 1 attcttaagc aaagccatat tgattaagaa aataaataat cattttctta 51 tgcaaagcca tatttgggcc aagccgtatt aaagtttggg ccaacttgtt 101 tgagatagcc acatataagc CCAATagagt tttgttgctg agcttattta 151 tgaatccaTA TAAAGTcttg acctaatagc gaaaactagg gtttttctct 201 GTGAATTCGC TCGGCGGCAT AAAAGAGAGT AAGAAGAGGA AGACGAGAGT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00158 Mean Expected Number 0.009 -strand -167 : -177 TATTTtCTTAA AC RSP00447 Mean Expected Number 0.008 +strand -193 : -184 AGCAAAGCcA AC RSP01757 Mean Expected Number 0.002 -strand -29 : -36 GTCAAGAC Totally 3 motifs of 3 different REs have been found Description of REs found 153. Group RE: D3 /AC: RSP00158//OS: Glycine max /GENE: GmAux28/RE: D3 /TF: unknown 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 1562. Group TF: B /AC: RSP01757//OS: Glycine max /GENE: a2/RE: BBS /TF: B ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ALDH3H1 |LOCUS: AT1G44170 |PROD: aldehyde dehydrogenase, putative (ALDH) |complement(16798399..16802761) |SUPPORT | 11 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +290 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.10 T - 0.39 C - 0.10 1 tttaatatgt atgtacaaac tttaaattac aactaatatg aaactgaaga 51 aatatataga aataaaatat tttattctta ctttgttgta atcaaattat 101 ttgttttgtt aaaaattatc aaaaaaaaaa tctttcttga tattctcttt 151 ttgacgtttc ttcatctcTA TAAATAttgt aacgcatgct tttttttatt 201 ATCAATTTCG AGGAATAAAA GTAAGAAACA TTGCGACAAA AAAAAAAAAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00613 Mean Expected Number 0.009 -strand -60 : -67 ATCAAGAA AC RSP00669 Mean Expected Number 0.004 -strand +4 : -10 TGATAATAaAAAAA AC RSP01086 Mean Expected Number 0.006 +strand -50 : -41 TTgACGTTTC Totally 3 motifs of 3 different REs have been found Description of REs found 589. Group RE: UN Z1 /AC: RSP00613//OS: Lycopersicon esculentum /GENE: rbcS2/RE: UN Z1 /TF: unknown 640. Group RE: B-box /AC: RSP00669//OS: Lycopersicon esculentum /GENE: PG/RE: B-box /TF: unknown 1004. Group TF: bZIP TF /AC: RSP01086//OS: Helianthus annuus /GENE: sHSP/RE: bZIP BS /TF: bZIP TF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: nodulin MtN21 family protein |LOCUS: AT1G44800 |PROD: the same as GENE |complement(16916449..16919436) |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +138 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.12 T - 0.35 C - 0.18 1 tgcatatgta aaagtaaata actatgtaag acatattttt ctgttaactt 51 attcatatct ctaaagtgta aacactagtt cattaaaata ttccaaaaga 101 tacgtagacg tattATTGAg ttaacaaaat aatgagtgta ttttttttat 151 tctaactttt gctcgacTAT AAAAAggagt catctcccat taggttttgc 201 CTGCCTCAAA CAAATAGAGC TTATCTCATC ACTCACCAAA CAACTCTCAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00029 Mean Expected Number 0.006 +strand -194 : -187 TGTAAAAG AC RSP00068 Mean Expected Number 0.003 +strand -102 : -93 GAtACGTAGA AC RSP00355 Mean Expected Number 0.009 -strand -155 : -162 TAACAGAA AC RSP00870 Mean Expected Number 0.009 +strand -194 : -185 TGTAAAAGTa AC RSP00871 Mean Expected Number 0.006 -strand +37 : +28 GGTGAGTgAT AC RSP01274 Mean Expected Number 0.001 -strand -93 : -102 TCtACGTATC AC RSP01621 Mean Expected Number 0.008 -strand -131 : -140 TACACTTTAG Totally 7 motifs of 7 different REs have been found Description of REs found 28. Group RE: P-box 1 /AC: RSP00029//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 1 /TF: unknown 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 340. Group RE: GARE2 /AC: RSP00355//OS: Oryza sativa /GENE: Rep-1/RE: GARE2 /TF: unknown 806. Group RE: EM2 /AC: RSP00870//OS: Triticum aestivum /GENE: LMWG-1D1/RE: EM2 /TF: unknown 807. Group RE: GLM1 /AC: RSP00871//OS: Triticum aestivum /GENE: LMWG-1D1/RE: GLM1 /TF: unknown 1173. Group RE: ACE 1 /AC: RSP01274//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 1 /TF: unknown 1441. Group TF: GmDof4; GmDof22 /AC: RSP01621//OS: Glycine max /GENE: Synthetic OLIGO/RE: E4 /TF: GmDof4; GmDof22 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: peroxidase, putative |LOCUS: AT1G44970 |PROD: the same as GENE |17004652..17006124 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +25 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.16 T - 0.32 C - 0.19 1 catgtgaagt taggcacatg gattcgttct tggagttggt acaaggactt 51 ctaaaagaca acaatgaggt ataataagga caagttgact atgtctctct 101 cttttatctt aacattctaa attaggattt ggtaaactga gagcagttag 151 cttcttgaat ctctaaagTA TAAAAAccct caccgtttta ctactatctc 201 ATCTTAAAAC TCCCAAGTAA CAAAAATGGC TATCTCAAAG CTTATTCCTA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00195 Mean Expected Number 0.001 -strand -154 : -164 TCCtTGTACCA AC RSP00331 Mean Expected Number 0.007 -strand -176 : -184 GAATCCATG AC RSP00792 Mean Expected Number 0.007 +strand +13 : +22 CCAAGtAACA AC RSP00864 Mean Expected Number 0.001 -strand -99 : -107 AGAGAGAGA AC RSP00949 Mean Expected Number 0.004 -strand -110 : -117 TAGTCAAC AC RSP00985 Mean Expected Number 0.007 +strand -56 : -47 AGTTAGcTTC AC RSP01640 Mean Expected Number 0.005 +strand -112 : -103 CTATGTCTCT Totally 7 motifs of 7 different REs have been found Description of REs found 188. Group RE: Box II /AC: RSP00195//OS: Oryza sativa /GENE: Gt2/RE: Box II /TF: unknown 317. Group TF: S1F /AC: RSP00331//OS: Spinacia oleracea; Pisum sativum; Arabidopsis thaliana; /GENE: prs 1 and RPL21 (spinach), rbcS-3a (pea, tomato, Arabidopsis),/RE: S1, consensus /TF: S1F 745. Group RE: DAE /AC: RSP00792//OS: Hordeum vulgare /GENE: Amy32b/RE: DAE /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 878. Group RE: TAGTCAAC motif /AC: RSP00949//OS: Petroselinum crispum /GENE: 4CL-1/RE: TAGTCAAC motif /TF: unknown 906. Group TF: PBP (Myb305) /AC: RSP00985//OS: Antirrhinum majus /GENE: gPAL2/RE: P-box /TF: PBP (Myb305) 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G47280 |PROD: the same as GENE |complement(17334499..17336846) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +96 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.47 G - 0.09 T - 0.30 C - 0.14 1 taaaaaaaac aagaaaatga aagatataaa atcactgaaa acatacatac 51 atttcaaatg aaatcaaaaa tatcatcaac aataaaactg tgttattatt 101 attaaaaaaa aaaaaaaaaa aATTGTgttc cgatcgtttt gccgtttaag 151 tcgctcttat tactcTATAA ATAgtacact tcttttgtca tatagaagac 201 AAATCAATCA AGCAAAATTT TGTCTTAAAA CAAAAATCTT TAATCAATAG 251 T Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G47485 |PROD: the same as GENE |17424888..17425506 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +116 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.10 T - 0.33 C - 0.19 1 aatacagagc agacatggaa agttggaaac atatggaagt atgaatcacc 51 tggattacat aatatactca gacatcataa aacatcatca ttccattttt 101 gaagtaaaaa atttccccac attttagatt ttatttaaga caaatgctct 151 tctcttgtat tttctaTATA AATAtcgaaa atcacattct tctagtttcc 201 ACACCTTATG TTCTCCAATC CAACACATAT ATTTTCTTTC ACAAAAAAAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00871 Mean Expected Number 0.007 -strand -151 : -160 GGTGAtTCAT AC RSP01046 Mean Expected Number 0.002 +strand +16 : +24 CAATCCAAC Totally 2 motifs of 2 different REs have been found Description of REs found 807. Group RE: GLM1 /AC: RSP00871//OS: Triticum aestivum /GENE: LMWG-1D1/RE: GLM1 /TF: unknown 970. Group RE: NON /AC: RSP01046//OS: Nicotiana tabacum /GENE: histone genes (oligo)/RE: NON /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G47980 |PROD: the same as GENE |complement(17695503..17697530) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +43 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.15 T - 0.22 C - 0.24 1 atcctaagat gtgtcctaag aatagtaact gaaagcgtca aatatccaca 51 tggaactcat ctaccagtga aaaagccacg tggcactatc cacgaaatcc 101 tctccggagt aaataagccg gcaaaagagg agacttcttt tgctattcac 151 tgaagtccta aacccTATAA ATAaatcacc ttcaaaccca aaacaaaatc 201 AGATCATAAA GAACCAAAAA TAAAAGCCAA AACGTTTTTA GACATGGCAC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00063 Mean Expected Number 0.001 +strand -126 : -117 GCCaCGTGGC AC RSP00063 Mean Expected Number 0.001 -strand -117 : -126 GCCaCGTGGC AC RSP00073 Mean Expected Number 0.001 +strand -126 : -117 GCCACGTGGC AC RSP00073 Mean Expected Number 0.001 -strand -117 : -126 GCCACGTGGC AC RSP00153 Mean Expected Number 0.002 +strand -125 : -116 CCACGTGGCa AC RSP00153 Mean Expected Number 0.001 -strand -118 : -127 CCACGTGGCt AC RSP00175 Mean Expected Number 0.001 +strand -124 : -117 CACGTGGC AC RSP00175 Mean Expected Number 0.001 -strand -119 : -126 CACGTGGC AC RSP00204 Mean Expected Number 0.001 +strand -126 : -117 GcCACGTGGC AC RSP00204 Mean Expected Number 0.001 -strand -117 : -126 GcCACGTGGC AC RSP00313 Mean Expected Number 0.002 +strand -154 : -144 CACATGGaACT AC RSP00313 Mean Expected Number 0.002 +strand -124 : -114 CACgTGGCACT AC RSP00313 Mean Expected Number 0.002 +strand +41 : +51 gACATGGCACT AC RSP00682 Mean Expected Number 0.001 +strand -126 : -117 GCCACGTGGc AC RSP00682 Mean Expected Number 0.001 -strand -117 : -126 GCCACGTGGc AC RSP00718 Mean Expected Number 0.001 +strand -125 : -118 CCACGTGG AC RSP00718 Mean Expected Number 0.001 -strand -118 : -125 CCACGTGG AC RSP01034 Mean Expected Number 0.004 +strand -123 : -117 ACGTGGC AC RSP01034 Mean Expected Number 0.006 -strand -120 : -126 ACGTGGC AC RSP01184 Mean Expected Number 0.003 +strand -146 : -135 ACTCAtCTACCA AC RSP01296 Mean Expected Number 0.006 +strand -36 : -28 CTATAAATA AC RSP01591 Mean Expected Number 0.000 +strand -126 : -114 gCCACGTGGCACT AC RSP01726 Mean Expected Number 0.000 -strand -116 : -127 TGCCACGTGGcT Totally 23 motifs of 13 different REs have been found Description of REs found 62. Group RE: Motif III /AC: RSP00063//OS: Oryza sativa /GENE: rab16B/RE: Motif III /TF: unknown 72. Group TF: TAF-1 /AC: RSP00073//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: PA /TF: TAF-1 ||Identical REs AC: RSP00274 149. Group RE: Box II /AC: RSP00153//OS: Petroselinum crispum /GENE: CHS/RE: Box II /TF: CPRF-1; CPRF-2; CPRF-3; ||Identical REs AC: RSP00154 169. Group RE: ABRE /Group TF: ABF /AC: RSP00175//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: ABRE /TF: ABF ||Identical REs AC: RSP00723 RSP01570 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 299. Group RE: G-box /Group TF: GBF (CG-1) /AC: RSP00313//OS: Pisum sativum /GENE: rbcS-3A/RE: G-box /TF: GBF (CG-1) 651. Group TF: GBF3 /AC: RSP00682//OS: Arabidopsis thaliana /GENE: Adh/RE: -214 G-box (core) /TF: GBF3 683. Group TF: GBF /AC: RSP00718//OS: Arabidopsis thaliana /GENE: Adh/RE: G-box-1 /TF: GBF ||Identical REs AC: RSP01254 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1096. Group RE: box 1 /AC: RSP01184//OS: Various plants /GENE: chsA/RE: box 1 /TF: unknown 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1414. Group TF: GBF /AC: RSP01591//OS: Glycine max /GENE: SRS-4/RE: G box /TF: GBF 1534. Group TF: STF1/HY5 /AC: RSP01726//OS: Arabidopsis thaliana /GENE: SAUR-AC1-like (At3g60690)/RE: G-box (1) /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: AT hook motif-containing protein |LOCUS: AT1G48610 |PROD: the same as GENE |complement(17974346..17976971) |SUPPORT | 4 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +505 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.14 T - 0.34 C - 0.13 1 aagtagtgta tttttcgatt ttggttttat aaatcaactt ttttttttga 51 aaaagttaaa aagaaatcac caccacattt gcatgttata ctataatacc 101 aaaaaattaa tattcgtgat ttattttaaa aatctgtgaa ttaaaaagaa 151 aaatgaaatg ttGATAAATA aaaataaaaa caaggagtaa aggtggaccc 201 ATATCGGTTG ACGCAACTGA TTCTGAACCT CTCGGTCGTT CGTTTCTACT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00421 Mean Expected Number 0.004 -strand +36 : +30 ACCGAGA AC RSP00741 Mean Expected Number 0.006 +strand -151 : -140 AAAAaGTTAAAA Totally 2 motifs of 2 different REs have been found Description of REs found 402. Group RE: DRE1 /AC: RSP00421//OS: Zea mays /GENE: rab17/RE: DRE1 /TF: unknown 703. Group RE: box 1 /Group TF: GT-1 /AC: RSP00741//OS: Nicotiana plumbaginifolia /GENE: Cab-E/RE: box 1 /TF: GT-1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G48630 |PROD: the same as GENE |complement(17985448..17986995) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +59 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.14 T - 0.27 C - 0.26 1 gctataccaa ttctggttaa gcgttccaaa cagaaagata taaatctcgg 51 ttccataatt gtcccaacat gaaaccaagt tgggtagaat accgggcctt 101 aatgctggcc caaatgaaga gacccaaact ATTGAcaaat gaaaacaaag 151 aaccctaatt atctctaacT ATAAATActc tcggtttctc gttacctcca 201 TTTTGCCCTC TCCCATTTTT GTCGCCGAAA CCCTAAATCT CGACCTCAAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.004 -strand +36 : +28 TTAGGGTTT AC RSP00369 Mean Expected Number 0.004 +strand +28 : +36 AAACCCTAA AC RSP00421 Mean Expected Number 0.007 -strand -16 : -22 ACCGAGA AC RSP00421 Mean Expected Number 0.007 -strand -150 : -156 ACCGAGA AC RSP00297 Mean Expected Number 0.000 +strand -94 : +35 GGCCCA-- ** bp --ACCCTAA AC RSP01013 Mean Expected Number 0.004 +strand -90 : -81 CAAATGaAGA AC RSP01014 Mean Expected Number 0.008 +strand -90 : -81 CAAATGAAGA AC RSP01014 Mean Expected Number 0.008 +strand -65 : -56 CAAATGAAaA AC RSP01015 Mean Expected Number 0.008 +strand -65 : -56 CAAATGAAAa AC RSP01296 Mean Expected Number 0.005 +strand -32 : -24 CTATAAATA AC RSP01301 Mean Expected Number 0.001 +strand -32 : -23 CTATAAATAC AC RSP01303 Mean Expected Number 0.009 +strand +27 : +36 gAAACCCTAA AC RSP01304 Mean Expected Number 0.006 +strand -52 : -43 aGAACCCTAA Totally 13 motifs of 11 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 402. Group RE: DRE1 /AC: RSP00421//OS: Zea mays /GENE: rab17/RE: DRE1 /TF: unknown 925. Group TF: At-TCP20 /AC: RSP00297//OS: Arabidopsis thaliana /GENE: PCNA/RE: Box II/telo-box (motifs 2 & 3) /TF: At-TCP20 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 939. Group TF: GAPF /AC: RSP01014//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 2 /TF: GAPF 940. Group TF: GAPF /AC: RSP01015//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 3 /TF: GAPF 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1197. Group RE: Telo box /AC: RSP01304//OS: Lycopersicon esculentum /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ACT8 |LOCUS: AT1G49240 |PROD: actin 8 (ACT8) |18219578..18221966 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +629 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.14 T - 0.35 C - 0.21 1 tttcacaaac ttttcaaaaa agtataaata aaagaggctg tctgacagcc 51 atgtcacgtt atactttttc cgtatgatcg aaatgattcg tctttgtcga 101 atttaattat ttccaaaATT GAtgactcta aagaaaaaaa aatagttttt 151 cagataaacc cgcctaTATA AATAgttcaa cactcggttt atttcttctc 201 CCCTCTTTGA ATTGCCTCGT CGTCTTCAGC TTCATCGGCC GTTGCATTTC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.002 +strand -184 : -173 AAAAAGTAtAAA AC RSP00933 Mean Expected Number 0.002 -strand -173 : -185 TTTATAcTTTTTT AC RSP01692 Mean Expected Number 0.003 -strand -119 : -126 TTCGATCA Totally 3 motifs of 3 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 862. Group RE: AT-2a /AC: RSP00933//OS: Pinus sylvestris /GENE: GS1a/RE: AT-2a /TF: unknown 1509. Group RE: CARE J /AC: RSP01692//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE J /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G49500 |PROD: the same as GENE |complement(18325476..18325952) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +105 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.18 T - 0.25 C - 0.20 1 tataaagaaa cgccccctac gtattattgg cccttcgcat aaaccaagag 51 ccaacgaagc aagcatcttc caaagaaaaa acgttgccaa taattgcttc 101 caagtttcaa gccacgtagt attttgatcg gtccactcaa ataaaataat 151 aatatggata tttgcaTATA TATAagtcta ggtattgcat gtaagacttc 201 ACAACGTAGA GCAAGATATC TGGATACGCG GAAAATAGAG AGAAGAAATC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00043 Mean Expected Number 0.002 -strand -83 : -90 TACGTGGC AC RSP00064 Mean Expected Number 0.003 -strand -81 : -90 AcTACGTGGC AC RSP00107 Mean Expected Number 0.008 -strand -10 : -16 CATGCAA AC RSP01034 Mean Expected Number 0.005 -strand -84 : -90 ACGTGGC AC RSP01060 Mean Expected Number 0.004 +strand -113 : -105 CAATAATTG AC RSP01060 Mean Expected Number 0.004 -strand -105 : -113 CAATTATTG AC RSP01077 Mean Expected Number 0.003 +strand -113 : -105 CAATAATTG AC RSP01259 Mean Expected Number 0.002 -strand -82 : -89 CTACGTGG Totally 8 motifs of 7 different REs have been found Description of REs found 42. Group TF: TAF-1 /AC: RSP00043//OS: Oryza sativa /GENE: rab16A-D/RE: Motif I core /TF: TAF-1 63. Group RE: Motif I /AC: RSP00064//OS: Oryza sativa /GENE: rab16B/RE: Motif I /TF: unknown 105. Group RE: RY2 /AC: RSP00107//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY2 /TF: unknown 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 980. Group TF: Hahb-4 /AC: RSP01060//OS: Helianthus annuus /GENE: OLIGOs/RE: Hahb-4 BS /TF: Hahb-4 995. Group TF: CpbZIP1; CpbZIP2 (short) /AC: RSP01077//OS: Craterostigma plantagineum (Scrophulariaceae) /GENE: CpC2/RE: HDZIP BS /TF: CpbZIP1; CpbZIP2 (short) 1161. Group TF: GBF1 /AC: RSP01259//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS6 /TF: GBF1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G50900 |PROD: the same as GENE |18869874..18870872 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +66 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.22 T - 0.31 C - 0.11 1 gttggggtct tgagagagtg gagaccacgt ctttgccatg tcatgcttcg 51 ttgttgtttt ttaagaaaaa atgaaaaaat agattcttcg tggttgtcac 101 aaaagaaaaa ggaaataaaa tcagtatctg aaatctaacg gtgaaaatta 151 atcgataaAA TAAATAaaaa gatttatagt cttttttaga tagaagggag 201 AAAATGAGTG GATAATACAA CCACTGAATC TGTTTTGCTT TAGTTGGAAG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00423 Mean Expected Number 0.007 -strand -170 : -175 GACGTG AC RSP00424 Mean Expected Number 0.007 +strand -175 : -170 CACGTC AC RSP00460 Mean Expected Number 0.004 +strand -166 : -157 GcCATGTCAT AC RSP00819 Mean Expected Number 0.001 +strand -177 : -168 aCCACGTCTT AC RSP00887 Mean Expected Number 0.002 -strand -113 : -121 AAGAATCTA AC RSP01136 Mean Expected Number 0.008 +strand -106 : -100 TGTCACA AC RSP01723 Mean Expected Number 0.000 +strand -178 : -167 GaCCACGTCTTT Totally 7 motifs of 7 different REs have been found Description of REs found 404. Group RE: ABRE1 /AC: RSP00423//OS: Zea mays /GENE: rab17/RE: ABRE1 /TF: unknown ||Identical REs AC: RSP01547 405. Group RE: ABRE2 /AC: RSP00424//OS: Zea mays /GENE: rab17/RE: ABRE2 /TF: unknown ||Identical REs AC: RSP01549 438. Group TF: O2 /AC: RSP00460//OS: coix /GENE: alpha-coixin/RE: O2d /TF: O2 765. Group TF: ACE-binding TF /AC: RSP00819//OS: Arabidopsis thaliana /GENE: F3H/RE: ACE-core (AtF3H) /TF: ACE-binding TF 819. Group TF: CCA1 /AC: RSP00887//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: CCA1 motif (1) /TF: CCA1 1054. Group RE: TGTCACA motif /AC: RSP01136//OS: Cucumis melo /GENE: Cucumisin/RE: TGTCACA motif /TF: unknown 1531. Group TF: STF1/HY5 /AC: RSP01723//OS: Arabidopsis thaliana /GENE: NAC1 (At1g56010)/RE: C/G-box /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: photosystem II 5 kD protein |LOCUS: AT1G51400 |PROD: the same as GENE |complement(19055730..19056250) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +90 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.19 T - 0.26 C - 0.19 1 gctttcgaag aagtgaattg ggcttttgac cttttttgcc caagaatcaa 51 gaatggacct agttcttccg gacactacaa gaaagaaagc ttctagtgtt 101 cattttgttt ggaaaataag gatagcacag agacacgtgg caaaaaccca 151 tttgcTATAA ATTcatattt tggataagga actggatcat ccccaacttt 201 TAAAACACAA TCCATCACCA AGTCATCAGA TAAACAAGAA ACAGAGAGAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00002 Mean Expected Number 0.000 +strand -68 : -60 ACACGTGGC AC RSP00056 Mean Expected Number 0.005 -strand -60 : -69 GCCACgTGTC AC RSP00073 Mean Expected Number 0.001 +strand -69 : -60 GaCACGTGGC AC RSP00073 Mean Expected Number 0.001 -strand -60 : -69 GCCACGTGtC AC RSP00175 Mean Expected Number 0.001 +strand -67 : -60 CACGTGGC AC RSP00204 Mean Expected Number 0.002 +strand -69 : -60 GACACGTGGC AC RSP00219 Mean Expected Number 0.000 +strand -70 : -59 aGACACGTGGCA AC RSP00340 Mean Expected Number 0.005 -strand -60 : -69 gCCACGTGTC AC RSP00741 Mean Expected Number 0.001 -strand -166 : -177 AAAAGGTcAAAA AC RSP00860 Mean Expected Number 0.007 +strand -121 : -113 AGAAAGAAA AC RSP00864 Mean Expected Number 0.002 +strand +43 : +51 AGAGAGAGA AC RSP00879 Mean Expected Number 0.005 -strand -194 : -200 CGAAAGC AC RSP00913 Mean Expected Number 0.002 -strand +27 : +18 GATGACTTGG AC RSP00936 Mean Expected Number 0.000 -strand -59 : -70 TGCCACGTGTCt AC RSP01032 Mean Expected Number 0.004 -strand -28 : -37 CCAAAATATG AC RSP01034 Mean Expected Number 0.006 +strand -66 : -60 ACGTGGC AC RSP01255 Mean Expected Number 0.002 +strand -68 : -61 ACACGTGG Totally 17 motifs of 16 different REs have been found Description of REs found 2. Group RE: ABRE-3 /AC: RSP00002//OS: Brassica napus /GENE: Oleosin/RE: ABRE-3 /TF: unknown 55. Group TF: ABI3 /AC: RSP00056//OS: Brassica napus /GENE: napA/RE: ABRE Bd /TF: ABI3 72. Group TF: TAF-1 /AC: RSP00073//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: PA /TF: TAF-1 ||Identical REs AC: RSP00274 169. Group RE: ABRE /Group TF: ABF /AC: RSP00175//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: ABRE /TF: ABF ||Identical REs AC: RSP00723 RSP01570 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 212. Group TF: HY5 /AC: RSP00219//OS: Arabidopsis thaliana /GENE: RBCS-1A/RE: G box-1 /TF: HY5 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 703. Group RE: box 1 /Group TF: GT-1 /AC: RSP00741//OS: Nicotiana plumbaginifolia /GENE: Cab-E/RE: box 1 /TF: GT-1 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 815. Group RE: D2 /Group TF: Dof family /AC: RSP00879//OS: Hordeum vulgare /GENE: Al21/RE: D2 /TF: Dof family 844. Group TF: Opaque-2 /AC: RSP00913//OS: Zea mays /GENE: b-32/RE: B1 /TF: Opaque-2 865. Group TF: GBF /AC: RSP00936//OS: Lycopersicon esculentum /GENE: RbcS-3A/RE: G box /TF: GBF 957. Group TF: FLC /AC: RSP01032//OS: Arabidopsis thaliana /GENE: SOC1/RE: CArG box /TF: FLC 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1158. Group TF: GBF1 /AC: RSP01255//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS2 /TF: GBF1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: RNA-binding protein, putative |LOCUS: AT1G51510 |PROD: the same as GENE |complement(19106475..19108518) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +97 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.47 G - 0.19 T - 0.16 C - 0.18 1 tgaagcgtga aagaataaat aaaaaaagta agagcccaaa ataagcccac 51 taacattgac gagaggagtt taatcaaagc ctgtttaaaa gggaaaagga 101 aaaactagcg tgagaaagaa atacaagcgt aaaagcccaa aataagccca 151 cttaaggtcc aatatattcc TATAAACAac actggcagag aaatatcttg 201 ATAGAAGAAA GAGCTCCGTC CCCAAAAACA AAGGAAACAA AAAATCAGTC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00284 Mean Expected Number 0.007 +strand +16 : +21 CCGTCC AC RSP00755 Mean Expected Number 0.003 -strand -30 : -36 AGGAATA AC RSP01032 Mean Expected Number 0.003 +strand -165 : -156 CCAAAATAAG AC RSP01032 Mean Expected Number 0.003 +strand -64 : -55 CCAAAATAAG Totally 4 motifs of 3 different REs have been found Description of REs found 275. Group RE: Box A /AC: RSP00284//OS: Petroselinum crispum /GENE: PAL-1/RE: Box A /TF: unknown ||Identical REs AC: RSP00849 RSP00856 717. Group RE: submotif A /AC: RSP00755//OS: Solanum tuberosum /GENE: S2-RNase/RE: submotif A /TF: unknown 957. Group TF: FLC /AC: RSP01032//OS: Arabidopsis thaliana /GENE: SOC1/RE: CArG box /TF: FLC ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: IAA18 |LOCUS: AT1G51950 |PROD: |19308984..19311179 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +355 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.14 T - 0.33 C - 0.19 1 gcagagagag agataaaaag attgattgcg tgtgtttcac accaataaat 51 ccctttattt ttattttttg gtctccaaat ttactaactt ctaataattt 101 CCAATtttac cccttatttt tcttcctttg gttttaacct attcactgca 151 tttccttggT ATAAAATcca acttcttctc cttcaagaat ctagagatag 201 AGAGAGAGAG AGAACACAAA GTGGGAAAAA AGATAAGAAC CCACCATAAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00155 Mean Expected Number 0.000 +strand -183 : -171 AAGATTGATTGcG AC RSP00227 Mean Expected Number 0.002 +strand +30 : +38 AAGATAAGA AC RSP00741 Mean Expected Number 0.004 -strand -58 : -69 AAtAGGTTAAAA AC RSP00864 Mean Expected Number 0.000 +strand -198 : -190 AGAGAGAGA AC RSP00864 Mean Expected Number 0.000 +strand -196 : -188 AGAGAGAGA AC RSP00864 Mean Expected Number 0.000 +strand -2 : +7 AGAGAGAGA AC RSP00864 Mean Expected Number 0.000 +strand +1 : +9 AGAGAGAGA AC RSP00864 Mean Expected Number 0.000 +strand +3 : +11 AGAGAGAGA AC RSP00864 Mean Expected Number 0.000 +strand +5 : +13 AGAGAGAGA AC RSP00887 Mean Expected Number 0.003 +strand -16 : -8 AAGAATCTA AC RSP01283 Mean Expected Number 0.000 +strand -3 : +14 tAGAGAGAGAGAGAGAA Totally 11 motifs of 6 different REs have been found Description of REs found 150. Group RE: 13 bp CytRE /AC: RSP00155//OS: Cucumis sativus /GENE: hpr-A/RE: 13 bp CytRE /TF: unknown 220. Group TF: GT-1 /AC: RSP00227//OS: Pisum sativum /GENE: rbcS-3A/RE: BOX III* /TF: GT-1 703. Group RE: box 1 /Group TF: GT-1 /AC: RSP00741//OS: Nicotiana plumbaginifolia /GENE: Cab-E/RE: box 1 /TF: GT-1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 819. Group TF: CCA1 /AC: RSP00887//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: CCA1 motif (1) /TF: CCA1 1180. Group RE: GAGA element /AC: RSP01283//OS: OS: Glycine max /GENE: gsa1/RE: GAGA element /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G52200 |PROD: the same as GENE |complement(19445744..19447094) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +18 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.11 T - 0.35 C - 0.21 1 tcaaaactta aatgtgaact acgtcattca aaatttcttc tttcttttca 51 gcatagaagt ttattcgtta aatcaaaaga aaaactcaat ttttctattg 101 aatattattt gattaatttc atggcttaag gaaatataga atccttctcc 151 ttctcaaatt ctccTATAAA TCaacccttc acgtcaaaac tagcttgcta 201 CACTTAACAT ATCAACCAAT GGGTCGTGTC ACTACTCCAT CCGAGGAGGA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00129 Mean Expected Number 0.008 -strand +28 : +23 CACGAC AC RSP00158 Mean Expected Number 0.010 -strand -65 : -75 TATTTcCTTAA Totally 2 motifs of 2 different REs have been found Description of REs found 127. Group RE: R-motif /AC: RSP00129//OS: Zea mays /GENE: Bronze2/RE: R-motif /TF: unknown 153. Group RE: D3 /AC: RSP00158//OS: Glycine max /GENE: GmAux28/RE: D3 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: protein kinase, putative |LOCUS: AT1G52540 |PROD: the same as GENE |complement(19573727..19575873) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +320 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.16 T - 0.36 C - 0.12 1 tatttgaact tttgtatgta ttaaaaattg caagattttg taagtacaga 51 ttcaccaagg tgaggtgtgt gattaggaaa ctttgattag ttgtcatgtg 101 tcatcaacag gccatgaaaa ggaaatcttt gaaattcaaa aaACAATacc 151 ttttgatgaa attattacta TATAAATAct atatgtgact atgtgtggat 201 ATGCACAATC ATTCCCACTA ATAGTTTAAT AAAGTGTATA ATTTTTTTCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00035 Mean Expected Number 0.009 -strand -46 : -52 CAAAAGG Totally 1 motifs of 1 different REs have been found Description of REs found 34. Group RE: D1 /Group TF: Dof family /AC: RSP00035//OS: Hordeum vulgare /GENE: Al21/RE: D1 /TF: Dof family ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G52680 |PROD: the same as GENE |complement(19621811..19622680) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +51 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.11 T - 0.33 C - 0.20 1 ttcacttctt gaccaagcaa cgttagggta ataaatcctc aaactattca 51 cctccacaaa aaattagcca tgtcaatcgt caatggtatg ttattttcca 101 cgtgttagtg taatgcttag atttaggatt ttactaaaat atacactttc 151 taattaTATA AATAccatta taatgcatat caaatccctt caagtattct 201 ACAAGCTTAC AATCTTAATT AATTAAGACA TTTCACAGAA CAACCAAGAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00085 Mean Expected Number 0.007 +strand -54 : -39 TTTCTAATTATAtAAA AC RSP00085 Mean Expected Number 0.007 -strand -39 : -54 TTTaTATAATTAGAAA AC RSP00340 Mean Expected Number 0.002 +strand -104 : -95 TCCACGTGTt AC RSP00509 Mean Expected Number 0.003 +strand -44 : -33 TATAAATACCAt AC RSP00524 Mean Expected Number 0.004 -strand -96 : -102 ACACGTG AC RSP00792 Mean Expected Number 0.009 +strand -188 : -179 CCAAGCAACg AC RSP01255 Mean Expected Number 0.001 -strand -96 : -103 ACACGTGG AC RSP01463 Mean Expected Number 0.008 -strand -38 : -50 ATTTATATAaTTA AC RSP01734 Mean Expected Number 0.008 +strand -104 : -98 TCCACGT Totally 9 motifs of 8 different REs have been found Description of REs found 83. Group TF: AGL3 /AC: RSP00085//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AGL3-BE /TF: AGL3 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 485. Group RE: TATA box /AC: RSP00509//OS: Avena fatua /GENE: alpha-Amy2/A/RE: TATA box /TF: unknown 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 745. Group RE: DAE /AC: RSP00792//OS: Hordeum vulgare /GENE: Amy32b/RE: DAE /TF: unknown 1158. Group TF: GBF1 /AC: RSP01255//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS2 /TF: GBF1 1333. Group RE: AT-rich ELS /AC: RSP01463//OS: Glycine max /GENE: BiP6/RE: AT-rich ELS /TF: unknown 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: late embryogenesis abundant protein |LOCUS: AT1G52690 |PROD: the same as GENE |19623413..19625202 |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +97 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.14 T - 0.21 C - 0.27 1 acgtgtcaca tagatatagg tcatcatgaa aacgagaaac ctaactttaa 51 cactcgcaca taactccaag tttcgaaact tcgtcacatc aacctaatcg 101 gggcacgtac ctacacacct gtcgcgaaac tgcaacacct atcttgttct 151 ctcgccgacc aagacttgcT ATAAATAact ctgactaacg agtcggagac 201 AACTCACAGT TCCAAACACA CAAAAAACAC AAGATCTAAA AAAAAAAGCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00917 Mean Expected Number 0.008 -strand -108 : -117 GTTGATGTGA AC RSP01035 Mean Expected Number 0.006 +strand -200 : -194 ACGTGTC AC RSP01296 Mean Expected Number 0.005 +strand -32 : -24 CTATAAATA Totally 3 motifs of 3 different REs have been found Description of REs found 848. Group TF: Opaque-2 /AC: RSP00917//OS: Zea mays /GENE: b-32/RE: B5 /TF: Opaque-2 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: IAA6 |LOCUS: AT1G52830 |PROD: |complement(19676164..19677312) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +85 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.16 T - 0.27 C - 0.22 1 aggacccaac atatgtctct catgtgaccg accaacacat cctcagttga 51 cctgtctttg gtctaacctt gtcttcctcc acaaagctaa cagaaataat 101 tatgaatgtt agtctcttcc atgtgtcagt atattATTGG atcttgttgg 151 agcaacttga caacaTATAA AAGcacgagg cagctcaata ctatcattcc 201 AACAAGAGAA GTGCTTGAGA GAAAAAAAAA GTATCAAAAC TTCATATAGC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00340 Mean Expected Number 0.004 +strand -83 : -74 TCCAtGTGTC AC RSP00709 Mean Expected Number 0.008 -strand -99 : -107 TAATTATTT AC RSP01640 Mean Expected Number 0.004 +strand -190 : -181 aTATGTCTCT Totally 3 motifs of 3 different REs have been found Description of REs found 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 675. Group RE: I-box /AC: RSP00709//OS: Pisum sativum /GENE: TOP2/RE: I-box /TF: unknown 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G52910 |PROD: the same as GENE |19711729..19712991 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +53 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.15 T - 0.39 C - 0.14 1 ttattagtct attgacgtta gttcatatac ttaagtgaaa cttatttttt 51 taattaaatc gtgttgtaaa aggcaacgaa tttgcgttgt cttttttttt 101 ttattagtaa agaaatagtc atttcatttt ctttaattcg gtcacaagtc 151 tcttgacatt ttcgtcTATA TATAtattag tattatcaag aaaacgatcc 201 ATCTTCGAGG GAAAGAGAAA GATCACAAGA AAAGCTCTCT CAGAATAATC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00029 Mean Expected Number 0.009 +strand -136 : -129 TGTAAAAG AC RSP00574 Mean Expected Number 0.007 +strand +41 : +48 CAGAATAA AC RSP00613 Mean Expected Number 0.007 +strand -16 : -9 ATCAAGAA AC RSP01601 Mean Expected Number 0.008 -strand -161 : -168 TTTCACTT Totally 4 motifs of 4 different REs have been found Description of REs found 28. Group RE: P-box 1 /AC: RSP00029//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 1 /TF: unknown 550. Group RE: AT-rich K /AC: RSP00574//OS: Lycopersicon esculentum /GENE: rbcS1/RE: AT-rich K /TF: unknown 589. Group RE: UN Z1 /AC: RSP00613//OS: Lycopersicon esculentum /GENE: rbcS2/RE: UN Z1 /TF: unknown 1422. Group RE: Inr /AC: RSP01601//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G53030 |PROD: the same as GENE |complement(19763721..19765110) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +1000 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.26 G - 0.15 T - 0.39 C - 0.20 1 tttgttcttc gattgtccta tgtgtagatc ctatatttgg taaatccatt 51 caactctttg taaaagaaga atcagagatt cttttcattt gggttactca 101 ATTGTgaaaa acttaaaatg agtaaatggg cctgaaaagc ccatcaacag 151 cccattaacT ATAAATTgtt gtgagctttt acatttctca gttctttctt 201 TCCTTGCTCG CCCAAGATTC TTCATTGTTC TACGTTTCTT GACTCTTCCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00029 Mean Expected Number 0.004 +strand -142 : -135 TGTAAAAG AC RSP00068 Mean Expected Number 0.009 -strand +38 : +29 GAaACGTAGA AC RSP00881 Mean Expected Number 0.006 +strand -58 : -49 ATCAACAgCC AC RSP00979 Mean Expected Number 0.009 +strand -155 : -146 CCATtCAACT AC RSP01031 Mean Expected Number 0.008 -strand +21 : +14 AGAATCTT Totally 5 motifs of 5 different REs have been found Description of REs found 28. Group RE: P-box 1 /AC: RSP00029//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 1 /TF: unknown 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 817. Group TF: Dof family /AC: RSP00881//OS: Hordeum vulgare /GENE: Al21/RE: M2 /TF: Dof family 901. Group RE: Box I /AC: RSP00979//OS: Glycine max /GENE: vspA/RE: Box I /TF: unknown 956. Group TF: AEF /AC: RSP01031//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 2 /TF: AEF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G53870 |PROD: the same as GENE |20115930..20116823 |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +33 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.13 T - 0.35 C - 0.16 1 acacgtgaca acgaccttac gtgtatgtac gtgttgaata gaattaagat 51 acgttttata aacttctctt atctcacata ttcaacatgt ggatgaagat 101 cttcgtattt tttattttaa tttttatgat acacccataa actgaattat 151 tactagctag tagaggcTAT AAATAcgaag aagatatcta tatatatact 201 ATCTATCAGT GCCAAAAAAA AGTTTTTCAA TATATGCAAA TATACAATCC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00072 Mean Expected Number 0.004 +strand -174 : -168 GTACGTG AC RSP00503 Mean Expected Number 0.002 +strand -48 : -41 CTAGCTAG AC RSP00503 Mean Expected Number 0.002 -strand -41 : -48 CTAGCTAG AC RSP00524 Mean Expected Number 0.004 +strand -200 : -194 ACACGTG AC RSP01261 Mean Expected Number 0.004 +strand -184 : -177 TTACGTGT AC RSP01301 Mean Expected Number 0.002 +strand -34 : -25 CTATAAATAC Totally 6 motifs of 5 different REs have been found Description of REs found 71. Group RE: ACGT box /AC: RSP00072//OS: Oryza sativa /GENE: GluB-1/RE: ACGT box /TF: unknown 479. Group TF: RITA-1 /AC: RSP00503//OS: Nicotiana tabacum /GENE: Ntltp1/RE: D1 box /TF: RITA-1 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 1163. Group TF: GBF1 /AC: RSP01261//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS8 /TF: GBF1 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: myrosinase-associated protein, putative |LOCUS: AT1G54000 |PROD: the same as GENE |complement(20157837..20160084) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +51 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.16 T - 0.34 C - 0.18 1 cagtaatgcg tcagacgtga ttaagcgaac tatataatat aattgatcga 51 taatcgtttg ctagtgcgtt aaataggtgt atagtaaaat gaacctcgcg 101 ctacacgtta ttatttgtat agtaaaatga actattattt tcATTGCcaa 151 attgtagtac ttgcaaTATA AATAtaacga atcggtctac gagctaaggc 201 ACAAAAGCAA TCTTCTTCTC TTTTCACAGT TCTGTTTCTC CCTCTCTCTA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00320 Mean Expected Number 0.002 -strand -146 : -156 GATtATCGATC AC RSP00868 Mean Expected Number 0.010 -strand -157 : -168 aATTATATTATA Totally 2 motifs of 2 different REs have been found Description of REs found 306. Group RE: Box I /Group TF: RNFG1 /AC: RSP00320//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: Box I /TF: RNFG1 804. Group RE: TA-rich motif /AC: RSP00868//OS: Nicotiana tabacum /GENE: NiPMT1a/RE: TA-rich motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: myrosinase-associated protein, putative |LOCUS: AT1G54010 |PROD: the same as GENE |complement(20162332..20164480) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +65 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.11 T - 0.35 C - 0.17 1 gcattaacta ggtgtgtaga aaaaagaaaa aaatgaacct cgagcaacac 51 gttatcatat attcatattt aaataacaat atttttcaat tgctaaattg 101 cttttttctt aaaaACAATc tttttgataa aaaaaattca gttgccaaat 151 tgtgtagtat ttacaaTATA AATAtaacgt atcggtctac gagctaagac 201 ACAAAAGCAA TCTTCTACTC ATTTACTGTT CTGTTTCACT TTCTCTCTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00864 Mean Expected Number 0.001 -strand +50 : +42 AGAGAGAGA Totally 1 motifs of 1 different REs have been found Description of REs found 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: EIF4A-2 |LOCUS: AT1G54270 |PROD: |20263359..20265933 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +803 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.20 T - 0.33 C - 0.10 1 ctactcatat ttccacttga aaacaacatt ttgtgattgt gatttgatat 51 tttctggtgt gtgttagtat gcaattgcga ttcattattc atagtctctt 101 ttgacattgg tgtaaaataa cttgattggt aACAATattt tccctactag 151 tttaggaaaa gTATAAAGAg gtgagaaaaa tctcaaatcg aaaaggaaga 201 GGAAAGTGGG GGTAAAGTTG GAAATATAAA AATTTTGGAA AAGTAGAACA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00472 Mean Expected Number 0.000 +strand +3 : +14 AAAGTGGGGGTA AC RSP00522 Mean Expected Number 0.002 +strand -188 : -182 CCACTTG AC RSP00748 Mean Expected Number 0.002 +strand -77 : -66 GAtTGGTAACAA AC RSP00962 Mean Expected Number 0.004 -strand -194 : -200 TGAGTAG Totally 4 motifs of 4 different REs have been found Description of REs found 450. Group TF: Alfin1 /AC: RSP00472//OS: Medicago sativa /GENE: MSPRP2/RE: Alfin1 BS2 /TF: Alfin1 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 710. Group TF: GT-1 /AC: RSP00748//OS: Arabidopsis thaliana /GENE: Pc/RE: PCbox1 /TF: GT-1 887. Group RE: GLM1 /AC: RSP00962//OS: Hordeum vulgare /GENE: ITR1/RE: GLM1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G55000 |PROD: the same as GENE |20518301..20520163 |SUPPORT | 2 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +128 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.13 T - 0.30 C - 0.14 1 agcagaacgt tacttaataa cagttgtaaa ctataaaata aaaatatttt 51 ataaataaat acaatttgta aatttttata tatactaact ttaaaaaata 101 aattatactc gcggtACAAT accgcgggtt aaaatctagt aaacagtact 151 tttgcacaaa aaaaaaataa taTATAAAAT gtatcttatg gacagcatct 201 ATTAAAATCT GTGGATAAGC TGCTTCTGCG GCGATCAAAA ACGCCGTCGA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00011 Mean Expected Number 0.002 -strand +20 : +11 GCTTATCCAC AC RSP00093 Mean Expected Number 0.008 -strand +17 : +11 TATCCAC AC RSP00125 Mean Expected Number 0.002 -strand -153 : -164 AATATTTTTATT AC RSP00135 Mean Expected Number 0.010 -strand -153 : -164 AATATTTTTATt AC RSP00838 Mean Expected Number 0.004 +strand +44 : +49 CCGTCG AC RSP00961 Mean Expected Number 0.002 -strand -45 : -52 TGCAAAAG AC RSP01458 Mean Expected Number 0.008 -strand -120 : -132 ATaTAAAAATTTA Totally 7 motifs of 7 different REs have been found Description of REs found 11. Group RE: C2b-BS /AC: RSP00011//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: C2b-BS /TF: unknown 91. Group RE: TATCCAC box /AC: RSP00093//OS: Hordeum vulgare /GENE: Amy pHV19/RE: TATCCAC box /TF: unknown ||Identical REs AC: RSP01050 123. Group RE: AT-1 (3) /AC: RSP00125//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (3) /TF: unknown ||Identical REs AC: RSP00133 RSP00788 131. Group RE: AT-1 (4) /AC: RSP00135//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (4) /TF: unknown 783. Group RE: CCGTCG motif /AC: RSP00838//OS: Arabidopsis thaliana /GENE: H4A748/RE: CCGTCG motif /TF: unknown 886. Group TF: BPBF /AC: RSP00961//OS: Hordeum vulgare /GENE: ITR1/RE: PB1 /TF: BPBF 1328. Group RE: AT-rich ELS /AC: RSP01458//OS: Glycine max /GENE: BiP9/RE: AT-rich ELS /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G55260 |PROD: the same as GENE |20618418..20620034 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +41 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.15 T - 0.25 C - 0.22 1 attgttttca ttttctgacc gatagattgg ctgagtcctt tgaaaaaact 51 gtataagcca ttattaacac tcaaatatac acacgttcaa aaattattat 101 cttgagcaat aaatgatccc atcatccaaC CAATacgtcg acactcacag 151 agtcacagag gacagagcca TATATATAca cgaacataca aagagactag 201 AGGACACGTT TCTATCTAGA GAGAACACAA CACATCGAAC CATGGAGAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01035 Mean Expected Number 0.010 -strand +9 : +3 ACGTGTC AC RSP01600 Mean Expected Number 0.007 -strand -156 : -163 TTTCAAAG Totally 2 motifs of 2 different REs have been found Description of REs found 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ZCW32 |LOCUS: AT1G59640 |PROD: basic helix-loop-helix (bHLH) family protein |complement(21912842..21914866) |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +171 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.18 T - 0.25 C - 0.17 1 cgtaggtaca ctcgcgtcgc agaagatcaa aagtcaacga taggtcagag 51 taaggaaacc tcgccatgaa gtgaaagtta ataaacaccg tagctcccga 101 ggtacaagaa acagaaaaac aaatatattt atgtctgaaa acttgaataa 151 aataataata tttatataTT TAAATAtgtt gggaatatta ttaatttatt 201 AACAAGAACA CAGTAACGCA ATCACAGACT CCACAGTCCA AGGAGTTTTG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01463 Mean Expected Number 0.001 +strand -41 : -29 ATTTATATATTTA Totally 1 motifs of 1 different REs have been found Description of REs found 1333. Group RE: AT-rich ELS /AC: RSP01463//OS: Glycine max /GENE: BiP6/RE: AT-rich ELS /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ATGSTU15 |LOCUS: AT1G59670 |PROD: glutathione S-transferase, putative |21933675..21935031 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +25 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.10 T - 0.33 C - 0.14 1 agagtatgaa tctaataact ccaaatttat gaagatttta gattactttt 51 tacaaatctt atttgaataa cataaacttt aacatatttt taaaaagtct 101 tgATTGAata tcaacagatt ctacataaca ctttaaatca ctaacttttt 151 ttttgaaatc ataTATAAAC Caataacacc ccctaattgt atacctaaac 201 TAAAAATAAT TTAGACAAAA CAAAGATGGG AGAGAGAGAG GAAGTGAAAC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00405 Mean Expected Number 0.007 -strand -176 : -183 TTTGGAGT AC RSP00863 Mean Expected Number 0.000 +strand +35 : +43 AGAGAGGAA AC RSP00864 Mean Expected Number 0.000 +strand +31 : +39 AGAGAGAGA AC RSP00865 Mean Expected Number 0.000 +strand +29 : +37 GGAGAGAGA AC RSP01105 Mean Expected Number 0.004 +strand -22 : -17 CCCCCT Totally 5 motifs of 5 different REs have been found Description of REs found 387. Group RE: adjb /AC: RSP00405//OS: Nicotiana tabacum /GENE: RNP2/RE: adjb /TF: unknown 799. Group TF: BPC1 /AC: RSP00863//OS: Arabidopsis thaliana /GENE: STK/RE: GA-4 /TF: BPC1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 1023. Group RE: C-rich motif /AC: RSP01105//OS: Spinacia oleracea /GENE: rps22/RE: C-rich motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G60060 |PROD: the same as GENE |22142849..22145455 |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +98 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.46 G - 0.16 T - 0.27 C - 0.11 1 aaataaaaca cgaaaaaagt aacgttaggt aaatggctaa acacgaggaa 51 aagccaaaaa tataaataat tcaatttctt atctccatca agatttaata 101 aaagtaaata aaaattaaga aataaataat gaaaagatgc tttggggagt 151 ggatcTATAA ATCttgttat ataaaggagg atagatagtg agggttttct 201 ACCTTCTTCT ATCTAAAGGA AGTCTTTACT CAGAGAACCA AAAGAAAAAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00009 Mean Expected Number 0.001 +strand -19 : +14 TAGATA-- ** bp --TATCTA AC RSP00009 Mean Expected Number 0.001 -strand +15 : -19 TAGATA-- ** bp --TATCTA AC RSP00722 Mean Expected Number 0.007 -strand -118 : -124 GATAAGA AC RSP00999 Mean Expected Number 0.008 -strand -10 : -20 TCACTATCTAt AC RSP01008 Mean Expected Number 0.009 -strand -171 : -177 ACCTAAC AC RSP01056 Mean Expected Number 0.009 -strand -175 : -185 AAcGTTACTTT Totally 6 motifs of 5 different REs have been found Description of REs found 9. Group RE: GATA /Group TF: NIT2 /AC: RSP00009//OS: Spinacia oleracea /GENE: NiR/RE: GATA /TF: NIT2 687. Group RE: I-box /AC: RSP00722//OS: Nicotiana plumbaginifolia /GENE: rbcS 8B/RE: I-box /TF: unknown 920. Group TF: 3AF3 /AC: RSP00999//OS: Nicotiana tabacum /GENE: rbcS-3A/RE: 3'-III element /TF: 3AF3 933. Group TF: PtMYB1; PtMYB4 /AC: RSP01008//OS: Pinus sylvestris /GENE: PsGS1b/RE: GS1b AC box 3 (AC-III) /TF: PtMYB1; PtMYB4 ||Identical REs AC: RSP01455 976. Group TF: GT-3a /AC: RSP01056//OS: Arabidopsis thaliana /GENE: cab2/RE: GT-3a Box III (3) /TF: GT-3a ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: glycine-rich RNA-binding protein, putative |LOCUS: AT1G60650 |PROD: the same as GENE |22343488..22346002 |SUPPORT | 4 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +266 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.23 T - 0.33 C - 0.15 1 ggagactttc gtaccgtgag ttccgcagaa gagagcttgg agactgaaaa 51 ggggaaagct ttgctaaaga gaagggtttt agggttttta ggttattttt 101 gtaaattaag taacttttat aagggtgttt tagtcATTGA gtggacaaca 151 ttttatcccA ATAAATAtac ttattgagtt gaagttaatc ctctgcagtt 201 ATTTCATTGT CCATCACCAA TCGCCAAAAC CGCAGAAAGG TCTGACCTTT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.003 +strand -122 : -114 TTAGGGTTT AC RSP00369 Mean Expected Number 0.003 -strand -114 : -122 AAACCCTAA AC RSP00918 Mean Expected Number 0.008 +strand -23 : -14 GTTGAAGTTA AC RSP01303 Mean Expected Number 0.007 -strand -113 : -122 aAAACCCTAA Totally 4 motifs of 4 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 849. Group TF: Opaque-2 /AC: RSP00918//OS: Zea mays /GENE: O2/RE: B5-like motif /TF: Opaque-2 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: peroxiredoxin type 2, putative |LOCUS: AT1G60740 |PROD: the same as GENE |22364739..22365617 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +53 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.12 T - 0.40 C - 0.16 1 aattagtgag ggtttcctca aaaagattgt tgtatttttg gaaaacaaag 51 tttatttttg gatattggtt ctgcatttta catctaattt gttttttaaa 101 tcataatttt agaaaatcta ttactaaatt aagaaatcta tgaatggttt 151 acttcattcc gtaaaacacT ATAAATTgtc ctaaactcat attcgctctc 201 AAGTCAAAAC TCTTCTATTT TCCCCTGTCT TCATATCCAA CAGAGATCTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00085 Mean Expected Number 0.009 +strand -80 : -65 TTACTAAATTaAGAAA AC RSP00085 Mean Expected Number 0.009 -strand -65 : -80 TTTCTtAATTTAGTAA AC RSP00441 Mean Expected Number 0.006 +strand -157 : -148 AACAAAGTtT AC RSP00628 Mean Expected Number 0.009 -strand -170 : -177 AACAATCT Totally 4 motifs of 3 different REs have been found Description of REs found 83. Group TF: AGL3 /AC: RSP00085//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AGL3-BE /TF: AGL3 421. Group TF: Dof1 /AC: RSP00441//OS: Zea mays /GENE: cyPPDK1/RE: box a /TF: Dof1 604. Group TF: CCA1 /AC: RSP00628//OS: Arabidopsis thaliana /GENE: Lhcb1*3/RE: CCA1 BS1 /TF: CCA1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: RALFL8 |LOCUS: AT1G61563 |PROD: rapid alkalinization factor (RALF) family protein |complement(22718586..22719113) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +119 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.06 T - 0.38 C - 0.18 1 tatgcaaatt ctataataat tttctagaaa cctttttttg ttattttcta 51 ttttaaacag acgtatctat ctttattttt actaaaaata acattcattt 101 actaaaatat atgtggttac taatcatcat ctaaatataa ccaactttga 151 aatcaatcta gtctctacta TATAAACAcc aactagcgct tgttcataat 201 CCCACAGAGC CAATTCCCGA TACATTATCA ATTATATAAA TAACATAAAC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00329 Mean Expected Number 0.010 -strand -136 : -141 TACGTC AC RSP01033 Mean Expected Number 0.002 +strand -170 : -161 CCTTTTTTTG AC RSP01600 Mean Expected Number 0.008 -strand -49 : -56 TTTCAAAG Totally 3 motifs of 3 different REs have been found Description of REs found 315. Group RE: ACGT motif /AC: RSP00329//OS: Arabidopsis thaliana /GENE: erd1/RE: ACGT motif /TF: unknown ||Identical REs AC: RSP01781 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: RALFL9 |LOCUS: AT1G61566 |PROD: rapid alkalinization factor (RALF) family protein |complement(22720725..22721275) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +118 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.12 T - 0.31 C - 0.19 1 ttatttaaat cgacgagtcg tctttgttta aaagtagttc gcgtaactta 51 cgtcaagaca aacactatat atggaactca agaaaaacaa cattcattta 101 ctaaaatata tgtggttact aatcatcatc caaatataac caagtttgaa 151 atccatatgt tctctactaT ATAAACAcca actagcgctt gttcataatc 201 CCATAGAGCC AATTTCCGAT ACAATATTAG ATATATAAAT AACACAAAGT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00112 Mean Expected Number 0.004 -strand -146 : -153 TGACGTAA AC RSP01463 Mean Expected Number 0.009 -strand +40 : +28 ATTTATATATcTA AC RSP01757 Mean Expected Number 0.002 +strand -149 : -142 GTCAAGAC Totally 3 motifs of 3 different REs have been found Description of REs found 110. Group RE: TGA1 /AC: RSP00112//OS: Glycine max /GENE: GH3/RE: TGA1 /TF: unknown 1333. Group RE: AT-rich ELS /AC: RSP01463//OS: Glycine max /GENE: BiP6/RE: AT-rich ELS /TF: unknown 1562. Group TF: B /AC: RSP01757//OS: Glycine max /GENE: a2/RE: BBS /TF: B ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G61930 |PROD: the same as GENE |22896766..22897635 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +117 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.13 T - 0.39 C - 0.14 1 ataagatcat ccaagaatac aaatgttttt ttgggaaaaa gacaaaattt 51 gggttctaac tctccataat aaatgtaagt atccttttgt aagaaatgga 101 taatataggt gtcaaatttg aataatttta ttttcttcat ttgtactctt 151 gtcttcacag atgcTATATA TActcctcca tttctctcgg tgtgaacctt 201 ATAGCAAAAT CTCTAATAAT TGATTATATG AATTAATGGT TAAATTTTAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00114 Mean Expected Number 0.003 +strand -53 : -44 CTTGTCtTCA AC RSP00421 Mean Expected Number 0.005 -strand -10 : -16 ACCGAGA AC RSP00698 Mean Expected Number 0.006 +strand +29 : +39 TGAATTAATgG AC RSP00773 Mean Expected Number 0.004 +strand +29 : +38 TGAATTAATG AC RSP00778 Mean Expected Number 0.004 +strand +29 : +38 TGAATTAATG AC RSP01013 Mean Expected Number 0.006 -strand -58 : -67 CAAATGaAGA AC RSP01014 Mean Expected Number 0.001 -strand -58 : -67 CAAATGAAGA Totally 7 motifs of 7 different REs have been found Description of REs found 112. Group RE: B2 /AC: RSP00114//OS: Glycine max /GENE: GmAux28/RE: B2 /TF: unknown 402. Group RE: DRE1 /AC: RSP00421//OS: Zea mays /GENE: rab17/RE: DRE1 /TF: unknown 664. Group RE: Box III /AC: RSP00698//OS: Brassica oleracea /GENE: SLG13/RE: Box III /TF: unknown 729. Group RE: Box III /AC: RSP00773//OS: Brassica oleracea /GENE: SLR1/RE: Box III /TF: unknown 733. Group RE: Box III /AC: RSP00778//OS: Arabidopsis thaliana /GENE: AtS1/RE: Box III /TF: unknown 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 939. Group TF: GAPF /AC: RSP01014//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 2 /TF: GAPF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G62500 |PROD: the same as GENE |23135710..23137167 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +136 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.12 T - 0.33 C - 0.22 1 accttgaagt ttgcatcgga ccaacaacga tccaaaaaac ctttagttgt 51 aacgcaataa aatgctccaa tatttctcga agtttggaac atcttctttt 101 ttcttcattt tcttgcctta cacatgttcg tttgtacgta ccataacaaa 151 taatcaaatc tactacactT ATAAACActa tacctattta tgtgcgtagt 201 GGTTAACACC CATACAAGAG TCACGGGTCA CATTTAAGCT TCAACTATAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01071 Mean Expected Number 0.005 -strand -67 : -76 CAAACGaACA Totally 1 motifs of 1 different REs have been found Description of REs found 989. Group TF: PvAlf /AC: RSP01071//OS: Arachis hypogea; Phaseolus vulgaris /GENE: Em/RE: Em1c /TF: PvAlf ||Identical REs AC: RSP01153 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: SEH1H |LOCUS: AT1G64350 |PROD: |23885175..23886960 |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +70 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.14 T - 0.32 C - 0.12 1 cattaataaa atcttaataa ttttaaactt tacaattatt ttttattaat 51 gtataagatt aaaaaaagtt aagaaaatat ttaataaaaa attacgtttt 101 gtatcggcta acggtccaat aggaaattat ggaagagTCA ATttcaacaa 151 atgcgattag tcgattgCAT AAATAggcca gttaaatgca taacaggccc 201 AATATTTTGG CCCAAGTCTT GATAATTCGA ATTAAACGAA AAAAATCGCT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00097 Mean Expected Number 0.000 +strand -90 : -83 ACGGTCCA AC RSP00495 Mean Expected Number 0.009 -strand -167 : -174 TGTAAAGT Totally 2 motifs of 2 different REs have been found Description of REs found 95. Group RE: 9-mer box /AC: RSP00097//OS: Zea mays /GENE: GapC4/RE: 9-mer box /TF: unknown 471. Group RE: P-box 2 /AC: RSP00495//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 2 /TF: unknown ||Identical REs AC: RSP00686 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G64360 |PROD: the same as GENE |23891533..23892167 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +58 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.14 T - 0.25 C - 0.18 1 aacgtatact tatctatact gatagtaaca catatagtca aaacacaaaa 51 ggtgaagatt gtaaatctca tccacttgaa atgaatctaa ttcataaaat 101 gatgtaacag aagcttgagg aatccaaACA ATgtacatac gttaatacaa 151 catgcaagtt catcTATAAA TAtggaacct taactctcgg ataagaattc 201 ACCAAGGCAA TACATTTTAC CTAAGAGAAC AGAAAAAAGA CACTTAGCAG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00103 Mean Expected Number 0.005 +strand -68 : -59 GtACATACGT AC RSP00522 Mean Expected Number 0.005 +strand -129 : -123 CCACTTG AC RSP01296 Mean Expected Number 0.010 +strand -37 : -29 CTATAAATA Totally 3 motifs of 3 different REs have been found Description of REs found 101. Group RE: Z element /AC: RSP00103//OS: Agrobacterium tumefaciens /GENE: nos/RE: Z element /TF: unknown 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G64405 |PROD: the same as GENE |23927395..23927999 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +68 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.10 T - 0.39 C - 0.15 1 actcatatat actctttatt acattgttga atttaaaaaa atcttaatta 51 tgtcactttc tcttagaata attacgagag tcgttgggaa atttcaaagg 101 cttttaaaag acaaatccgt aaaaaaagat ttgATTGAta ttttgctaat 151 taattgaccc tcTATATATA tattcacact catgtcaatc acttattttc 201 AAAGAAAATA AACAAATCCG TGGTTTTCTT TTCATTTCTT AAGATTTTAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01237 Mean Expected Number 0.002 +strand -41 : -32 CTCTATATAT Totally 1 motifs of 1 different REs have been found Description of REs found 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: transferase family protein |LOCUS: AT1G65450 |PROD: the same as GENE |24321527..24322727 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +171 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.12 T - 0.35 C - 0.14 1 attatatatg attgtaacat aaatctactt gttacgcgta aaattaaaac 51 gctggttttc tttgttgctc atttattgaa tcctaccaaa catatagcaa 101 tctaaattaa tgtgacataa ctgtctgtta tatactgcca aatcatgtaa 151 tcattttgta aagaaaatta TATAAACCat atacatatta cttgatagtt 201 AATGAACGTA TAAAGTAGGA TTTCATAATG CAACGTCTAA TAGCTAGAAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01136 Mean Expected Number 0.010 -strand -84 : -90 TGTCACA Totally 1 motifs of 1 different REs have been found Description of REs found 1054. Group RE: TGTCACA motif /AC: RSP01136//OS: Cucumis melo /GENE: Cucumisin/RE: TGTCACA motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: isocitrate dehydrogenase |LOCUS: AT1G65930 |PROD: the same as GENE |24542587..24545790 |SUPPORT | 15 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +164 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.13 T - 0.29 C - 0.20 1 ccaaacttta ttctataaat taaaacttag cattcatatt gttgaatatg 51 acttttgaat tttgttagtg ggaccctttt atacaataag tggcggctac 101 aacgaaaaat caaagtaggg accaaaatga tacaaatcgt aataacgggg 151 tcaaaataac ataatccaaa ctTTTAAATA gcataaatac aacaactctc 201 AAGACCTGTA CAAGCTATTT CACCTACTTC ATCACTCATC ACCAGCTTCG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00030 Mean Expected Number 0.001 -strand -103 : -109 AGCCGCC AC RSP00397 Mean Expected Number 0.000 +strand -112 : -105 AGTGGCGG AC RSP00438 Mean Expected Number 0.003 +strand -109 : -104 GGCGGC AC RSP00550 Mean Expected Number 0.008 -strand -33 : -43 TGGATTATGTt AC RSP00654 Mean Expected Number 0.007 +strand +21 : +30 CACCtACTTC AC RSP00807 Mean Expected Number 0.003 -strand -104 : -109 GCCGCC Totally 6 motifs of 6 different REs have been found Description of REs found 29. Group TF: EREBP /AC: RSP00030//OS: Nicotiana sylvestris /GENE: OLP/RE: ERRE /TF: EREBP ||Identical REs AC: RSP00082 RSP01344 RSP01523 RSP01764 RSP01775 379. Group RE: CDE /AC: RSP00397//OS: Nicotiana tabacum /GENE: RNP2/RE: CDE /TF: unknown 418. Group RE: PR-box /AC: RSP00438//OS: Arabidopsis thaliana /GENE: PR-1/RE: PR-box /TF: unknown 526. Group RE: CAAT/13 M /AC: RSP00550//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: CAAT/13 M /TF: unknown 628. Group RE: CT-B /AC: RSP00654//OS: Spinacia oleracea /GENE: PetH/RE: CT-B /TF: unknown 760. Group RE: GCC box /Group TF: Pti4 /AC: RSP00807//OS: Arabidopsis thaliana /GENE: PDF1.2/RE: GCC box /TF: Pti4 ||Identical REs AC: RSP00809 RSP00811 RSP00814 RSP00921 RSP01328 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: TPX2 |LOCUS: AT1G65970 |PROD: peroxiredoxin type 2, putative |complement(24560479..24561952) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +60 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.10 T - 0.39 C - 0.15 1 aaacaaaatg ttgtattttt ggaaaaaaaa gtttattttt agatattggt 51 tctagatttt acatccaatt tttgttttaa tcataatttt agaaattcta 101 ttatattttt tatggtcaaa ctaaaattag aaatctatta atgatttaca 151 tcattccgta aagcacTATA AATTgtccta aggcctaaat acattttcgc 201 ACTCAAGTCA AACAAAACTC TTCTATTTTC CTCTGTCTTC AAAACCACAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00383 Mean Expected Number 0.006 +strand -87 : -81 GGTCAAA Totally 1 motifs of 1 different REs have been found Description of REs found 368. Group TF: WRKY1 /AC: RSP00383//OS: Petroselinum crispum /GENE: WRKY1/RE: WA /TF: WRKY1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: translation initiation factor-related |LOCUS: AT1G66070 |PROD: the same as GENE |complement(24599549..24602181) |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +998 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.21 T - 0.22 C - 0.17 1 aaaaaaaaat gattaaaaac ggaataaaaa aatggagagt gtaagatgga 51 aaaagttaca tgttggggcc acggtgatcg gttcgaccgt atcagtctaa 101 ccgaaATTGA ccaaacaact ttggtctata ctttgatcgg ttcgacatgt 151 tggggccacg gtggaaaggc ttTATAAAAA ggcataaaat ctaacgaaaa 201 ACAAAAGGAA ACACACAAAA GCCCTAAATC TCTTTTTAAC CTCTGAAGCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00445 Mean Expected Number 0.001 -strand +38 : +29 tAAAAAGAGA AC RSP00467 Mean Expected Number 0.004 -strand -88 : -97 TGGTCAATTt AC RSP00468 Mean Expected Number 0.002 -strand -87 : -97 TTGGTCAATTt AC RSP00979 Mean Expected Number 0.008 +strand -90 : -81 CCAaACAACT AC RSP01482 Mean Expected Number 0.002 +strand -97 : -87 aAATTGACCAA Totally 5 motifs of 5 different REs have been found Description of REs found 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 445. Group RE: ERE1 /AC: RSP00467//OS: Dianthus caryophyylus /GENE: hcbt2/RE: ERE1 /TF: unknown 446. Group RE: ERE2 /AC: RSP00468//OS: Dianthus caryophyylus /GENE: hcbt2/RE: ERE2 /TF: unknown 901. Group RE: Box I /AC: RSP00979//OS: Glycine max /GENE: vspA/RE: Box I /TF: unknown 1350. Group RE: ERE2 /AC: RSP01482//OS: carnation (Dianthus caryophillus) /GENE: hcbt2/RE: ERE2 /TF: unknown ||Identical REs AC: RSP01483 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: U-box domain-containing protein |LOCUS: AT1G66160 |PROD: the same as GENE |24640859..24642271 |SUPPORT | 1 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +22 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.12 T - 0.36 C - 0.20 1 ataatatgac ataaaccttc attaattcaa aaatcatttt tcccgtgata 51 tgtttttttt ttcttttacc taaaaattaa ctttgaccca ctcgcgttcg 101 agaagcgtat gataacgact aatttaaaat gcatacattt tattatctct 151 atattcacat ccatacataT ATAAATCtct catccccact tgtgttctcc 201 ATTAGTAATA AACGGTCAAA GAATGGGACT TTCATTGAGA GTGAGACGTC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00383 Mean Expected Number 0.008 +strand +14 : +20 GGTCAAA AC RSP00522 Mean Expected Number 0.009 +strand -15 : -9 CCACTTG AC RSP00773 Mean Expected Number 0.005 -strand -172 : -181 TGAATTAATG AC RSP00778 Mean Expected Number 0.006 -strand -172 : -181 TGAATTAATG AC RSP01013 Mean Expected Number 0.010 -strand +5 : -5 CtAATGGAGA AC RSP01463 Mean Expected Number 0.005 -strand -25 : -37 ATTTATATATgTA Totally 6 motifs of 6 different REs have been found Description of REs found 368. Group TF: WRKY1 /AC: RSP00383//OS: Petroselinum crispum /GENE: WRKY1/RE: WA /TF: WRKY1 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 729. Group RE: Box III /AC: RSP00773//OS: Brassica oleracea /GENE: SLR1/RE: Box III /TF: unknown 733. Group RE: Box III /AC: RSP00778//OS: Arabidopsis thaliana /GENE: AtS1/RE: Box III /TF: unknown 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 1333. Group RE: AT-rich ELS /AC: RSP01463//OS: Glycine max /GENE: BiP6/RE: AT-rich ELS /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: aspartyl protease family protein |LOCUS: AT1G66180 |PROD: the same as GENE |24650851..24652476 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +33 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.07 T - 0.31 C - 0.21 1 cccttcaaat gtaacccttg gcttagattt atttttgtca attactataa 51 acttactgta aattacatac aaccttaaaa tctccaaaat gaaactattg 101 accaaaaaaa aaaaaaaaaa attttaataa acctgaaaat taagtaagaa 151 aacgtgtatg ttaagtgTAT ATATAttaca gtcaccttcc attactctcc 201 ATCATCTCTC TCACTTCCAC AAAACTCAAA AAAATGTCTC CCATTCCAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00307 Mean Expected Number 0.005 -strand -179 : -184 GCCAAG AC RSP00548 Mean Expected Number 0.000 +strand -190 : -180 GTAACCcTTGG AC RSP01093 Mean Expected Number 0.001 -strand -174 : -184 TCTAAGCcAAG AC RSP01642 Mean Expected Number 0.005 +strand +32 : +41 AAATGTCTCC AC RSP01762 Mean Expected Number 0.005 -strand -180 : -185 CCAAGG Totally 5 motifs of 5 different REs have been found Description of REs found 294. Group RE: GCCAAG motif /AC: RSP00307//OS: Hordeum vulgare /GENE: Chi26/RE: GCCAAG motif /TF: unknown 524. Group RE: CAAT/13 Y /AC: RSP00548//OS: Lycopersicon esculentum /GENE: rbcS3C/RE: CAAT/13 Y /TF: unknown 1011. Group RE: box 2 /AC: RSP01093//OS: Pisum sativum /GENE: GS2/RE: box 2 /TF: unknown 1462. Group RE: ARE /AC: RSP01642//OS: Nicotiana tabacum /GENE: WIPK/RE: ARE /TF: unknown 1567. Group TF: NSP1 /AC: RSP01762//OS: Arabidopsis thaliana /GENE: ANAC13 (At1g32870)/RE: UVBox (ANAC13) /TF: NSP1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: 60S ribosomal protein L10 (RPL10C) |LOCUS: AT1G66580 |PROD: the same as GENE |24842828..24844275 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +43 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.18 T - 0.29 C - 0.20 1 tgttcttcgt tcttctttga ctttgactaa aaataaaaat aaacctcggc 51 ctaagaaaat agcgtgttca cattggatga ttaaggcctg gaccgagtat 101 caaataatat ctaaatgggc ctagctaagc agttacgtaa gctaaattta 151 gggtttgttt ttgccgcacc TATAAAATaa caacacagct tcccatttgt 201 AATTTCTAGG GTTTTGCAAA ACCAACACCG AAGATCCAAC ACGATGGGAC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00166 Mean Expected Number 0.002 +strand -41 : -34 TTTGCCGC AC RSP00279 Mean Expected Number 0.001 +strand -53 : -45 TTAGGGTTT AC RSP00369 Mean Expected Number 0.001 -strand -45 : -53 AAACCCTAA AC RSP00646 Mean Expected Number 0.000 -strand +6 : -8 GAAATTAcAAATGG AC RSP00716 Mean Expected Number 0.002 +strand +17 : +25 CAAAACCAA AC RSP01303 Mean Expected Number 0.003 -strand -44 : -53 cAAACCCTAA Totally 6 motifs of 6 different REs have been found Description of REs found 160. Group TF: E2F /AC: RSP00166//OS: Nicotiana tabacum /GENE: RNP2/RE: E2Fb /TF: E2F 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 620. Group RE: C1-box /AC: RSP00646//OS: Daucus carota /GENE: DC 59/RE: C1-box /TF: unknown 681. Group RE: GT motif /AC: RSP00716//OS: Arabidopsis thaliana /GENE: Adh/RE: GT motif /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G66700 |PROD: the same as GENE |complement(24876954..24878409) |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +56 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.15 T - 0.33 C - 0.16 1 aatgccgtca cttataattt gtcatataag caacgtttgt tgaccgcatt 51 cagcttcata tagtaagaag ctgccttttt ttaattggac gacgttccat 101 atatttaatt tattctcatt acagtaaATT GTtttttaag aacacggaat 151 attacTATAT ATAagcatcg agaggtccat ggattatcac tactctcatc 201 ATAAACCAAA GTATCAAACA ATAAAAGATT TTTGAGAAAA AAGAGAGAGA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00445 Mean Expected Number 0.002 +strand +37 : +46 AAAAAAGAGA AC RSP00864 Mean Expected Number 0.001 +strand +42 : +50 AGAGAGAGA AC RSP01678 Mean Expected Number 0.009 +strand +19 : +30 CAATAAAAgATT Totally 3 motifs of 3 different REs have been found Description of REs found 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1496. Group TF: AT-Hook TFs /AC: RSP01678//OS: Catharanthus roseus /GENE: ORSA3/RE: JRE (Quant. Seq.) /TF: AT-Hook TFs ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G66850 |PROD: the same as GENE |24940621..24941097 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +27 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.13 T - 0.29 C - 0.17 1 caaaaaaaaa aaaaaaaatt aataagccct aatttaatac gtgtgtcact 51 attacttaat acttattttc gactaagttc tttttgcatg acgactagtt 101 acgttcacgt tatttaacat tcaagataca tgcattttgc gttatggaat 151 gcaatgcgaa acccaaacat AATAAATAct aaaacaagac ctcaaagaaa 201 AATATAGAAT ATAACCATAT TCCGGACATG AAGATCGTGA CATTGGTACT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00107 Mean Expected Number 0.007 -strand -111 : -117 CATGCAA AC RSP00114 Mean Expected Number 0.005 -strand -103 : -112 CTaGTCGTCA AC RSP00404 Mean Expected Number 0.005 +strand -65 : -59 TTTGCGT AC RSP00985 Mean Expected Number 0.004 +strand -104 : -95 AGTTAcGTTC AC RSP01288 Mean Expected Number 0.003 +strand -164 : -157 ATACGTGT AC RSP01702 Mean Expected Number 0.006 -strand -156 : -165 cACACGTATT Totally 6 motifs of 6 different REs have been found Description of REs found 105. Group RE: RY2 /AC: RSP00107//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY2 /TF: unknown 112. Group RE: B2 /AC: RSP00114//OS: Glycine max /GENE: GmAux28/RE: B2 /TF: unknown 386. Group RE: adja /AC: RSP00404//OS: Nicotiana tabacum /GENE: RNP2/RE: adja /TF: unknown 906. Group TF: PBP (Myb305) /AC: RSP00985//OS: Antirrhinum majus /GENE: gPAL2/RE: P-box /TF: PBP (Myb305) 1185. Group RE: Z-DNA-motif /AC: RSP01288//OS: Arabidopsis thaliana /GENE: cab1/RE: Z-DNA-motif /TF: unknown 1511. Group RE: ACGT1 /AC: RSP01702//OS: Arabidopsis thaliana /GENE: XERO2/RE: ACGT1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G67050 |PROD: the same as GENE |complement(25032290..25033451) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +132 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.25 G - 0.06 T - 0.44 C - 0.25 1 cttttttggc ccatgcatgt gaatatgttg caagcgacac gcttctctgt 51 cccctctttt attaacccat tttattcttc cttttttctc tttttcacaa 101 aaACAATtct aacaattcat tttattgttt ctccttttta ttccaaaaaa 151 taaattttgt aaaatcaccT ATAAAAAtaa ttaaattcac cttcttcctc 201 AAAATTCTCT CTTTCTCTCT TCTTCGAAAT TCTTCCTCCT CTTTTTCTGC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00108 Mean Expected Number 0.001 +strand -189 : -182 CATGCATG AC RSP00108 Mean Expected Number 0.001 -strand -182 : -189 CATGCATG AC RSP00117 Mean Expected Number 0.001 -strand -19 : -31 AATTATTTTTAtA AC RSP00140 Mean Expected Number 0.001 -strand -19 : -31 AATTATTTTTATa AC RSP00143 Mean Expected Number 0.000 -strand -156 : -165 GAaGCGTGTC AC RSP00709 Mean Expected Number 0.005 -strand -18 : -26 TAATTATTT AC RSP01470 Mean Expected Number 0.006 +strand -190 : -181 cCATGCATGT Totally 7 motifs of 6 different REs have been found Description of REs found 106. Group RE: RY4 /AC: RSP00108//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY4 /TF: unknown ||Identical REs AC: RSP01169 RSP01452 115. Group RE: AT-1 (2) /AC: RSP00117//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (2) /TF: unknown 136. Group RE: AT-1 (2) /Group TF: AT-1 /AC: RSP00140//OS: Pisum sativum /GENE: rbcS-3.6/RE: AT-1 (2) /TF: AT-1 139. Group TF: TRAB1 /AC: RSP00143//OS: Oryza sativa /GENE: Osem/RE: CE3 /TF: TRAB1 675. Group RE: I-box /AC: RSP00709//OS: Pisum sativum /GENE: TOP2/RE: I-box /TF: unknown 1340. Group TF: Opaque-2 (O2) /AC: RSP01470//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z2 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G67080 |PROD: the same as GENE |complement(25048888..25050523) |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +179 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.47 G - 0.13 T - 0.28 C - 0.11 1 atatatcatt gattgaagta aaccaaaaat gttacttaaa tctactaatt 51 gatccatatt aaattagaag ttaattaaat aaacaaacaa aatccaaata 101 attataataa actaaaccgg aattcaaagt ttaaacaaat ATTGAagtaa 151 aaaagatgaa aacttTATAA AGAtggaagg atgagcaaaa agtgttgtat 201 ATAATTGTCG ACACTGAGCA AAGAAAGAGT GAAAGACAAC TTTTTTCCCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01056 Mean Expected Number 0.003 +strand -173 : -163 AATGTTACTTa Totally 1 motifs of 1 different REs have been found Description of REs found 976. Group TF: GT-3a /AC: RSP01056//OS: Arabidopsis thaliana /GENE: cab2/RE: GT-3a Box III (3) /TF: GT-3a ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: remorin family protein, contains Pfam domain |LOCUS: AT1G67590 |PROD: the same as GENE |complement(25336721..25338310) |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +175 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.12 T - 0.29 C - 0.19 1 ccccacgtac acatgattaa tctaagcttt taacacaaac cagatctgag 51 cattctaata aaaacattaa tttaaagtaa aaaaacaaaa aatagtgggt 101 ctataTCAAT ttatgctatt tagatagaaa aaaacatagt gataattaga 151 gagtTATAAA GAcactatca ttctcgtctc tacaacaacc catctggaca 201 TTAATGTCAC ATTTCTGAAA TCTCTCAACT TCATCATCAA GTGGGTTCCT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00051 Mean Expected Number 0.003 +strand -199 : -190 cCCACGTACA AC RSP00072 Mean Expected Number 0.009 -strand -191 : -197 GTACGTG AC RSP00075 Mean Expected Number 0.002 -strand -191 : -200 GTACGTGGgG AC RSP00145 Mean Expected Number 0.010 -strand +47 : +42 AACCCA AC RSP00522 Mean Expected Number 0.003 -strand +44 : +38 CCACTTG AC RSP00857 Mean Expected Number 0.007 +strand -11 : -2 CCATCTGgAC AC RSP01276 Mean Expected Number 0.002 -strand -191 : -198 GTACGTGG Totally 7 motifs of 7 different REs have been found Description of REs found 50. Group RE: A3 /AC: RSP00051//OS: Hordeum vulgare /GENE: HVA22/RE: A3 /TF: unknown 71. Group RE: ACGT box /AC: RSP00072//OS: Oryza sativa /GENE: GluB-1/RE: ACGT box /TF: unknown 74. Group TF: TAF-1 /AC: RSP00075//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: Iwt /TF: TAF-1 141. Group TF: SEF3 /AC: RSP00145//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: SEF3 BS 2 /TF: SEF3 ||Identical REs AC: RSP00338 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 793. Group RE: NON /AC: RSP00857//OS: Zea mays /GENE: H4C7/RE: NON /TF: unknown 1175. Group RE: Box III /AC: RSP01276//OS: Petroselinum crispum /GENE: CHS/RE: Box III /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: pectate lyase family protein |LOCUS: AT1G67750 |PROD: the same as GENE |25405251..25407151 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +72 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.14 T - 0.25 C - 0.22 1 ggatcatctg aatgaaccgt tttttgcact aaacgaacat caaaactcat 51 ctccatccag atgatccatc tgaatgatga aacgaacaga gccttaatag 101 aatctgaaaa gagtgggtcc TCAATaatta aaaaccaaga attcaagggg 151 atgggacttt tccTATAAAG Aagccaaagc ctttctcacc attttctctc 201 ATCACCAAAC AAACAAACAC ATTCAAATCT CATAAACACA TTGATAAGTA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00428 Mean Expected Number 0.001 -strand -176 : -187 AAAAAACGGTTc AC RSP00440 Mean Expected Number 0.000 +strand -47 : -39 GGACTTTTC AC RSP00857 Mean Expected Number 0.010 +strand -135 : -126 CCATCTGAAt Totally 3 motifs of 3 different REs have been found Description of REs found 409. Group TF: Myb26 /AC: RSP00428//OS: Pisum sativum /GENE: Synthetic OLIGO/RE: Myb1 /TF: Myb26 ||Identical REs AC: RSP00919 420. Group RE: -NF-kB-box /AC: RSP00440//OS: Arabidopsis thaliana /GENE: PR-1/RE: -NF-kB-box /TF: unknown 793. Group RE: NON /AC: RSP00857//OS: Zea mays /GENE: H4C7/RE: NON /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G67920 |PROD: the same as GENE |25477207..25477803 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +187 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.15 T - 0.26 C - 0.20 1 tggtctctca acggtcaaaa accgacgatt tctccaattt ccagtaaaaa 51 tcttattaaa caaaaggtca aatcgaaaga taaacgtaag cgactcgtca 101 caaatgtttc aacgttaccg acacgtaacc aaaactcacc gaacaccgtc 151 ctccacgttt gttTATAAAA Tgagagatag ataaatatag agagagtcgt 201 CTCTTTGTAT AATATATGAT CTGAAAAAGA AAAAAAAACT CTTTAGCTGT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00040 Mean Expected Number 0.007 -strand -38 : -44 AACAAAC AC RSP00070 Mean Expected Number 0.003 -strand -74 : -81 TACGTGTC AC RSP01035 Mean Expected Number 0.009 -strand -75 : -81 ACGTGTC AC RSP01261 Mean Expected Number 0.009 -strand -73 : -80 TTACGTGT AC RSP01734 Mean Expected Number 0.008 +strand -49 : -43 TCCACGT Totally 5 motifs of 5 different REs have been found Description of REs found 39. Group RE: AACA box (D) /AC: RSP00040//OS: Oryza sativa /GENE: GluB-1/RE: AACA box (D) /TF: unknown 69. Group TF: TRAB1 /AC: RSP00070//OS: Oryza sativa /GENE: Osem/RE: ABRE motif A /TF: TRAB1 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1163. Group TF: GBF1 /AC: RSP01261//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS8 /TF: GBF1 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: IAR1 |LOCUS: AT1G68100 |PROD: IAA-alanine resistance protein 1, putative |25524867..25527838 |SUPPORT | 11 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +121 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.16 T - 0.35 C - 0.16 1 gatgcataaa atttaacgga taacattttt taggatccga tagatatctc 51 tatgtttcat gattatcatc aacataaaga cttttataag agttgtgtag 101 agtctgtagc ctagtaaaag ggggttttcg acttaatttc gaaACAATgg 151 gccaaaacta caaatTATAA AAAgatctcc taaggtttat tactttcccc 201 AAATGGATGT TGTCACTTTC GGAATCATAA TCGGAATTAT CATTCTCTTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01105 Mean Expected Number 0.009 -strand -77 : -82 CCCCCT AC RSP01711 Mean Expected Number 0.008 +strand -90 : -81 CTAGTAAAAG Totally 2 motifs of 2 different REs have been found Description of REs found 1023. Group RE: C-rich motif /AC: RSP01105//OS: Spinacia oleracea /GENE: rps22/RE: C-rich motif /TF: unknown 1519. Group TF: RIN /AC: RSP01711//OS: Solanum lycopersicum /GENE: Synthetic OLIGO/RE: RIN BSC Others /TF: RIN ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G68340 |PROD: the same as GENE |complement(25617860..25619066) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +68 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.42 G - 0.13 T - 0.22 C - 0.23 1 acggctaaaa taagaagtca aaaaacaatc gaacggttat taatcaatct 51 catcactcaa accgacatct caaaacctat gcgccaagaa ctcagcgcag 101 tttagcaact ctcacaaaac ttataatatc cccaaaatac ccttctatgt 151 taaaaacggc acttcgtaTA TAAACAaaaa ctctttctgc tccgtttctc 201 ACAAGCGAAA AGAAAAAAGT TAAACGAAGA AGACGAAAGA GAGAAAATTT 251 T Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G68680 |PROD: the same as GENE |25789169..25790587 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +121 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.16 T - 0.32 C - 0.18 1 tattggaatc cctaatacat ggctcactct ctttgattca aacataaact 51 gcactcgttt atttaatctt tgtttgacag ctaaaaagat ttttattttc 101 gggttgataa acctataact cctccaacgg acaaaattta ctagatagat 151 ctataacttt tcgtgggcTA TATATAactt ctcgtgggct tcgaggccca 201 AAAATGTTTA AAAGTGTTGA AAACCAAGAC AAAAAAAAAT GGAGTGAAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00125 Mean Expected Number 0.004 +strand -115 : -104 AAgATTTTTATT AC RSP00304 Mean Expected Number 0.004 +strand -126 : -119 TGACAGCT AC RSP01064 Mean Expected Number 0.000 +strand -60 : -49 CTaGATAGATCT AC RSP01223 Mean Expected Number 0.000 -strand -71 : -79 CCGTTGGAG Totally 4 motifs of 4 different REs have been found Description of REs found 123. Group RE: AT-1 (3) /AC: RSP00125//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (3) /TF: unknown ||Identical REs AC: RSP00133 RSP00788 291. Group TF: KN1/KIP /AC: RSP00304//OS: Zea mays /GENE: Synthetic OLIGO/RE: KN1/KIP BS /TF: KN1/KIP 983. Group RE: Fungus RE /Group TF: homeodomain TF /AC: RSP01064//OS: Arabidopsis thaliana /GENE: SEX1/RE: Fungus RE /TF: homeodomain TF 1129. Group TF: C-myb /AC: RSP01223//OS: Oryza sativa /GENE: Amy3E (Amy8)/RE: C-myb motif /TF: C-myb ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: RAV2 |LOCUS: AT1G68840 |PROD: |25883990..25885399 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +115 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.08 T - 0.35 C - 0.22 1 agcgttgacc ctacctttcc atttttaaaa tgttctctca ttttgaccca 51 tttttttcca taaaccaatc aaattttaac tttcaaaaac ataaaactaa 101 ttagatataa aataataaca tgtacatgca cttgcctcgt ccattcctca 151 catcatcata tgtctttgTA TATATAtaga tgaaccaaag aaatgaaaaa 201 GTAACAACGT CACCTAAATC TCTCTCACCC AATTTGTGTT TCTTCTTTCT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00016 Mean Expected Number 0.009 +strand -76 : -70 CATGCAC AC RSP00021 Mean Expected Number 0.003 +strand -5 : +7 AAAAAGTAAcAA AC RSP00915 Mean Expected Number 0.009 -strand -44 : -53 GATGATGTGa AC RSP00916 Mean Expected Number 0.005 -strand -44 : -53 GATGAtGTGA AC RSP01237 Mean Expected Number 0.008 -strand -20 : -29 aTCTATATAT AC RSP01237 Mean Expected Number 0.008 -strand -22 : -31 CTaTATATAT Totally 6 motifs of 5 different REs have been found Description of REs found 15. Group RE: RY /AC: RSP00016//OS: Glycine max /GENE: beta-conglycinin/RE: RY /TF: unknown 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 846. Group TF: Opaque-2 /AC: RSP00915//OS: Zea mays /GENE: b-32/RE: B3 /TF: Opaque-2 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G68875 |PROD: the same as GENE |25895749..25896461 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +27 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.14 T - 0.29 C - 0.21 1 ggacgggatc aatatgtggt gtcatgataa tgaaattact tgaagacaac 51 aatatcctat aaaacgttac cacgacacct ttatttccaa aacaaatgct 101 ccttacATTG Cccagctttt tctgctctta ttcctgacta atgacaaaag 151 catgacacca gtttcacaac TATATATAtt tgtgatctct ctaagccttc 201 AACTATTTAA AACCAAAAGA AGCAAAAATG ACAGAACTCA AATGGATATG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00284 Mean Expected Number 0.006 -strand -195 : -200 CCGTCC AC RSP01013 Mean Expected Number 0.005 +strand +39 : +48 CAAATGGAtA Totally 2 motifs of 2 different REs have been found Description of REs found 275. Group RE: Box A /AC: RSP00284//OS: Petroselinum crispum /GENE: PAL-1/RE: Box A /TF: unknown ||Identical REs AC: RSP00849 RSP00856 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: RPL34 |LOCUS: AT1G69620 |PROD: 60S ribosomal protein L34 (RPL34B) |26193501..26194986 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +62 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.22 T - 0.26 C - 0.17 1 aagaaaagac aaacgttcga aagatgggcc tttgggccaa gtcatatttg 51 gattattatg taagcattaa caagcccata aaatgtcgtc cattgatgat 101 cataagTCAA Tatgtaatct gaaccgtccg atctagggct ttaggtgttg 151 aagtgaaaaa agaccctaTA TAAAGAtaat atagcttata aagtctcttc 201 TCTGCTCCGT CAAGCTGAGG AGGATAAAAA CCCTAGGGTG AGTGAGACAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00530 Mean Expected Number 0.005 -strand -38 : -49 TCTTTTTTcACT AC RSP00917 Mean Expected Number 0.004 +strand -54 : -45 GTTGAAGTGA AC RSP01505 Mean Expected Number 0.000 -strand -68 : -76 GATCGGACG Totally 3 motifs of 3 different REs have been found Description of REs found 506. Group RE: AT-rich F /AC: RSP00530//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: AT-rich F /TF: unknown 848. Group TF: Opaque-2 /AC: RSP00917//OS: Zea mays /GENE: b-32/RE: B5 /TF: Opaque-2 1362. Group RE: NonaLS /AC: RSP01505//OS: Triticum aestivum /GENE: H1 (TH315)/RE: NonaLS /TF: unknown ||Identical REs AC: RSP01506 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G69760 |PROD: the same as GENE |complement(26242923..26244371) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +81 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.09 T - 0.33 C - 0.24 1 aattgtagac catgtattta aattttgcct ccgggttatg cgaaaaaagg 51 aaaaagcatt cacatgtctc tctcctgaca tgcacgaacc aactaataac 101 ttcttattat actaatcacg ttattatctt attaaaaaat aaacccattt 151 tgaccacaac ctttctctaT ATAAACAttt tagtctcctc ctctctcttt 201 ATAACCACAA CGATTTTCTC TCTCTCACGA TTTAAAAAGC TAAACAAAAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00038 Mean Expected Number 0.006 -strand +9 : -3 TGTGGTTATAaA AC RSP00653 Mean Expected Number 0.007 +strand -135 : -125 gTCTCTCTCCT AC RSP00864 Mean Expected Number 0.003 -strand +25 : +17 AGAGAGAGA AC RSP00865 Mean Expected Number 0.002 -strand -126 : -134 GGAGAGAGA AC RSP01033 Mean Expected Number 0.003 -strand -151 : -160 CCTTTTTTCG AC RSP01469 Mean Expected Number 0.006 +strand -141 : -132 TCACATGTcT AC RSP01470 Mean Expected Number 0.006 -strand -114 : -123 TCgTGCATGT AC RSP01612 Mean Expected Number 0.000 +strand -9 : +5 TCTCTCTTTATAAc Totally 8 motifs of 8 different REs have been found Description of REs found 37. Group TF: GT-1 related TFs /AC: RSP00038//OS: Lycopersicon esculentum /GENE: LAT52; LAT56;/RE: 52/56 box /TF: GT-1 related TFs 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) 1340. Group TF: Opaque-2 (O2) /AC: RSP01470//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z2 /TF: Opaque-2 (O2) 1432. Group TF: GmDof4 /AC: RSP01612//OS: Glycine max /GENE: Synthetic OLIGO/RE: CRA1-2 /TF: GmDof4 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ATHB13 |LOCUS: AT1G69780 |PROD: |26262602..26264414 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +227 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.14 T - 0.39 C - 0.17 1 tgaagataaa attggagtta ataattatat atactttggc ttaacgtaaa 51 tgaagtttaa gcttgtattt gatcgtgtta tttttatttt ttttaacgag 101 agaaTCAATt gagtgcgtct ctttctcttc tcagctcata tgtcctctct 151 ctctctctct cagcctttct aTATAAAACg aaataaagaa gaaattaaat 201 ACCAGAAGTG GTATAGTCTA GGCCGATACA TTTCACTATC TCTCTCTCTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00861 Mean Expected Number 0.004 -strand -75 : -83 AGAAAGAGA AC RSP00864 Mean Expected Number 0.002 -strand +49 : +41 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 -strand +47 : +39 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 -strand -41 : -49 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 -strand -43 : -51 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 -strand -45 : -53 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 -strand -47 : -55 AGAGAGAGA AC RSP01283 Mean Expected Number 0.000 -strand -40 : -56 GAGAGAGAGAGAGAGAg AC RSP01283 Mean Expected Number 0.000 -strand -42 : -58 GAGAGAGAGAGAGAGgA Totally 9 motifs of 3 different REs have been found Description of REs found 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1180. Group RE: GAGA element /AC: RSP01283//OS: OS: Glycine max /GENE: gsa1/RE: GAGA element /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G69870 |PROD: the same as GENE |26319690..26323883 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +181 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.12 T - 0.28 C - 0.23 1 atacgtggaa caaaacaata atgttacgta cggtgtaaga aaaacaaaaa 51 aaacatagca ctaaaatagt tttcttttaa ttttcctctt caaacttctc 101 acgtggaggc tactagtggc gaacgtcatt caaatttacc cacacccacc 151 atatattatc tactcactcc ctTATATATA cacacttcca caaataattc 201 ACTACACCCA AAAAAGCTTC TAACAAAGAG AAAGTGTCTG TATGTTGTGC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00454 Mean Expected Number 0.002 -strand -171 : -181 TACGTAACATt AC RSP00640 Mean Expected Number 0.001 +strand -102 : -95 TCACGTGG AC RSP01654 Mean Expected Number 0.009 -strand -71 : -80 AATGACGTTC AC RSP01734 Mean Expected Number 0.004 -strand -94 : -100 TCCACGT AC RSP01734 Mean Expected Number 0.004 -strand -192 : -198 TCCACGT Totally 5 motifs of 4 different REs have been found Description of REs found 432. Group RE: Motif e/f /AC: RSP00454//OS: Pisum sativum /GENE: PSPAL2/RE: Motif e/f /TF: unknown 616. Group RE: G-box /Group TF: GBF /AC: RSP00640//OS: Zea mays /GENE: GRF1/RE: G-box /TF: GBF ||Identical REs AC: RSP00641 1472. Group TF: STF1/HY5 /AC: RSP01654//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: STF1/HY5 BS (cons) /TF: STF1/HY5 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G69890 |PROD: the same as GENE |complement(26326774..26328267) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +77 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.16 T - 0.26 C - 0.21 1 gaaaaacaaa atttggtgaa acacgtcaat taagcacgac ttttccatgg 51 ctagtggcta agatcgtttc atcacatggc tatatcatat aatacttgga 101 tgaattcaaa ataaacgact gagaaaatgt ccacgtcacg gcgcaccgct 151 ttggacttaa gtctcctatA ATAAATAcaa caccaaacat tgcattccac 201 ATTAATTCGT CTTGTGCAAA AAAAGACACT TCTTAAGCTT CAACAAGAAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00057 Mean Expected Number 0.004 +strand -71 : -62 TCCACGTCaC AC RSP00214 Mean Expected Number 0.003 -strand -63 : -70 TGACGTGG AC RSP00215 Mean Expected Number 0.003 +strand -70 : -63 CCACGTCA AC RSP00233 Mean Expected Number 0.006 +strand -71 : -62 TCcACGTCAC AC RSP00868 Mean Expected Number 0.008 -strand -107 : -118 TATTATATgATA AC RSP01258 Mean Expected Number 0.005 -strand -173 : -180 TGACGTGT AC RSP01275 Mean Expected Number 0.004 +strand -71 : -62 TCCACGTCAc AC RSP01734 Mean Expected Number 0.009 +strand -71 : -65 TCCACGT Totally 8 motifs of 8 different REs have been found Description of REs found 56. Group TF: ABF /AC: RSP00057//OS: Zea mays /GENE: rab28/RE: ABRE B /TF: ABF 207. Group TF: TGA1; GBF1 /AC: RSP00214//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: TGA1; GBF1 ||Identical REs AC: RSP01257 RSP01474 208. Group TF: HBP-11(17); HBP-1b(c38) /AC: RSP00215//OS: Triticum aestivum /GENE: H3/RE: Hex /TF: HBP-11(17); HBP-1b(c38) 226. Group RE: LS5 /Group TF: TGA2 & NPR1/NIM1 /AC: RSP00233//OS: Arabidopsis thaliana /GENE: PR-1/RE: LS5 /TF: TGA2 & NPR1/NIM1 804. Group RE: TA-rich motif /AC: RSP00868//OS: Nicotiana tabacum /GENE: NiPMT1a/RE: TA-rich motif /TF: unknown 1160. Group TF: GBF1 /AC: RSP01258//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS5 /TF: GBF1 1174. Group RE: ACE 2 /AC: RSP01275//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 2 /TF: unknown 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: carbonic anhydrase |LOCUS: AT1G70410 |PROD: the same as GENE |complement(26537589..26541898) |SUPPORT | 10 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +778 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.10 T - 0.29 C - 0.25 1 aacaaataaa aagaaaaaac atggaagaag aagaagaaga agaagtccag 51 cttcactcac ctttcgcttt ctctatccca taacagaaac ccccacattg 101 ctcgaacggt cgtcataatt ccttgaaacc tcgaaaatcc aaaaacccat 151 atccaatctt cttcccaTAT AAATTaagat ttttatttat ttatttgttt 201 ACTTATTTCA ATTCCCAAAA TCCTCTGCCT CATCATCTTC AAACTGTTAC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00125 Mean Expected Number 0.003 +strand -25 : -14 AAgATTTTTATT AC RSP00629 Mean Expected Number 0.007 -strand -17 : -24 AAAAATCT Totally 2 motifs of 2 different REs have been found Description of REs found 123. Group RE: AT-1 (3) /AC: RSP00125//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (3) /TF: unknown ||Identical REs AC: RSP00133 RSP00788 605. Group TF: CCA1 /AC: RSP00629//OS: Arabidopsis thaliana /GENE: Lhcb1*3/RE: CCA1 BS2 /TF: CCA1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ADP-ribosylation factor, putative |LOCUS: AT1G70490 |PROD: the same as GENE |complement(26567590..26569471) |SUPPORT | 7 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +656 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.17 T - 0.31 C - 0.24 1 agcacttaag aaaagagtat tgctcacgtg ttaagtttta attggttagc 51 tcgcgaacac ctgcacactt ggtcatagaa gattcgaaga gggtaattcc 101 gTCAATtaca aatggcaatt tcgttaattg gcgtgagaaa cgacgaataa 151 accggtaccc ctctccctTA TAAAATtgct ctccaccact tcccatttcg 201 GCGTCATCGC GTTTCTCTTA AGCTTCTCTC ACATTTCTCT TTCAAATTTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00978 Mean Expected Number 0.003 +strand -178 : -169 cTCACGTGTT Totally 1 motifs of 1 different REs have been found Description of REs found 900. Group RE: G-box /AC: RSP00978//OS: Glycine max /GENE: vspA/RE: G-box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G70540 |PROD: the same as GENE |26597593..26598305 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +43 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.10 T - 0.31 C - 0.20 1 agcaaaaata aaaataagaa ggaaataacc catcattagg cctaattaac 51 caaggaacta aatttgatat gtctctctaa ttattcaccg gcgacaattt 101 ATTGAaactc ttttcctcaa aagaacttac taaaattacc cattttttct 151 tttagcgtat gcattatTAT AAATAacaac caccctctat ttgttcaaat 201 AATCAACAAC CGGTGTTCAA ATACCACGCA ATTTTACATA AAAATGTCTA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00881 Mean Expected Number 0.001 +strand +2 : +11 ATCAACAACC AC RSP00889 Mean Expected Number 0.006 +strand +24 : +30 CCACGCA AC RSP01640 Mean Expected Number 0.004 +strand -134 : -125 aTATGTCTCT AC RSP01642 Mean Expected Number 0.005 +strand +42 : +51 AAATGTCTaC AC RSP01755 Mean Expected Number 0.005 +strand -24 : -17 CAACCACC Totally 5 motifs of 5 different REs have been found Description of REs found 817. Group TF: Dof family /AC: RSP00881//OS: Hordeum vulgare /GENE: Al21/RE: M2 /TF: Dof family 821. Group RE: GC motif /Group TF: bZIP TF /AC: RSP00889//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: GC motif /TF: bZIP TF 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown 1462. Group RE: ARE /AC: RSP01642//OS: Nicotiana tabacum /GENE: WIPK/RE: ARE /TF: unknown 1560. Group TF: C1 /AC: RSP01755//OS: Glycine max /GENE: a2/RE: C1BS1 /TF: C1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: 60S ribosomal protein L27A (RPL27aC) |LOCUS: AT1G70600 |PROD: the same as GENE |complement(26624586..26625322) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +51 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.25 T - 0.22 C - 0.20 1 gcgcgtcaga aaggcgcgtg aaggttcaat catgtggttg tggtagatga 51 tctctcttcc ccctctacga tataatcggg cctaaaggcc catctcgcgt 101 tataactaaa tagcccaaaa tgtcgtaaac cctagagggt aaaataggaa 151 acgtaaaaat ccttatcgtc ttTATAAACT cagtgatatc ttaagaaacc 201 CTAGCCGCAA AGAGAGAAAG GGAGGGAGGA GAGTGTAGCA GATCGGCGAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01086 Mean Expected Number 0.001 -strand -44 : -53 TTTACGTTTC AC RSP01438 Mean Expected Number 0.000 +strand -10 : +3 TTAAGAaACCCTA AC RSP01475 Mean Expected Number 0.001 +strand -86 : -78 CCAAAATGT AC RSP01499 Mean Expected Number 0.002 +strand -144 : -135 TTCCCCcTCT Totally 4 motifs of 4 different REs have been found Description of REs found 1004. Group TF: bZIP TF /AC: RSP01086//OS: Helianthus annuus /GENE: sHSP/RE: bZIP BS /TF: bZIP TF 1311. Group RE: 13 bp RE /AC: RSP01438//OS: Agrobacterium rhizogenes /GENE: rolC/RE: 13 bp RE /TF: unknown 1343. Group RE: GCAA-like motif /AC: RSP01475//OS: Oryza sativa /GENE: GluA-3/RE: GCAA-like motif /TF: unknown 1360. Group RE: CS6 /AC: RSP01499//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS6 /TF: unknown ||Identical REs AC: RSP01500 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: caleosin-related family protein |LOCUS: AT1G70670 |PROD: the same as GENE |26648245..26649784 |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +248 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.15 T - 0.32 C - 0.12 1 gcaattttta actaatagaa acacatgaaa aattacaagt tgtatattaa 51 attactgata cgttaaaatt aaattttagg agtaacgaat aatgagaatt 101 cttattttat tttttatttt attaaaacga ggaaagtatc agccaaagca 151 aacgtggtgg gtgaatgata agTATAAAAG atgtctaaag cttcccactc 201 ATTTTCTTGT CTTCGTATAG AATCAAAAAA AAAGTAACGA CGATGCAAAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01091 Mean Expected Number 0.001 +strand +17 : +27 ATAGAATCAAA Totally 1 motifs of 1 different REs have been found Description of REs found 1009. Group RE: box 1 /AC: RSP01091//OS: Pisum sativum /GENE: GS2/RE: box 1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: caleosin-related family protein |LOCUS: AT1G70680 |PROD: the same as GENE |26650883..26652397 |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +121 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.12 T - 0.35 C - 0.18 1 gaatgtatat cactaatttt gtacaaacaa ggactaatca ggcccaatat 51 gttcatatct agattcagta accttctcag tcttgcacga tatgtacact 101 tttgtttttg tttattacac gatatgttta cttagataat gacttattat 151 aatatacaga acaactgtaT ATAAATAtat cgaccgcacg agatcgaatc 201 GAGTATTTAT CACATTAATT ATTATCATAC AATAACAGCG TTTCACCATT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00270 Mean Expected Number 0.003 +strand -106 : -96 TACACTTTTGt AC RSP00999 Mean Expected Number 0.004 -strand -59 : -69 TCAtTATCTAA AC RSP01621 Mean Expected Number 0.001 +strand -106 : -97 TACACTTTTG Totally 3 motifs of 3 different REs have been found Description of REs found 262. Group TF: OBP1 /AC: RSP00270//OS: Arabidopsis thaliana /GENE: GST6/RE: OBP1 BS /TF: OBP1 920. Group TF: 3AF3 /AC: RSP00999//OS: Nicotiana tabacum /GENE: rbcS-3A/RE: 3'-III element /TF: 3AF3 1441. Group TF: GmDof4; GmDof22 /AC: RSP01621//OS: Glycine max /GENE: Synthetic OLIGO/RE: E4 /TF: GmDof4; GmDof22 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G70720 |PROD: the same as GENE |26670070..26670866 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +19 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.12 T - 0.33 C - 0.22 1 aaactaactt cttttctttt catatgataa gttctaagat tggaattcgg 51 cccggcccac taaacattca tgcagacaat tgttggcaga gtatttttgt 101 tcacctccaa actcaactct ctaattttgt ttctttataa aatctgatat 151 ttttcaaaaa tccTATAAAT Aactccaagg cttatgaatc caaaagagcc 201 AAACACATCA CACAACAATA TGGTAACAAT GATGAGACCT ACTCTCCTTA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00850 Mean Expected Number 0.009 -strand -114 : -119 GCCAAC AC RSP01017 Mean Expected Number 0.008 -strand -67 : -74 AGAAACAA AC RSP01296 Mean Expected Number 0.008 +strand -38 : -30 CTATAAATA Totally 3 motifs of 3 different REs have been found Description of REs found 790. Group RE: CAT /AC: RSP00850//OS: Zea mays /GENE: H4C7/RE: CAT /TF: unknown 942. Group TF: AEF /AC: RSP01017//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 2 /TF: AEF 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: multi-copper oxidase type I family protein |LOCUS: AT1G71040 |PROD: the same as GENE |complement(26800628..26803984) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +98 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.11 T - 0.27 C - 0.21 1 tgtcatgtac atataatatt caaattctag ttttataatg tagaagctta 51 ctaattaaaa aaaaaaccat tcctttttgg aagataaatt ctaggaaagt 101 agcgacTCAA Tagtcaagag aatgaaagca aagaacaaca aagttatttg 151 acaccacaca ctcgtatgCA TAAATAcgca aaaccccaaa gaacttcttc 201 AACTTCTCTC CTCAACTTTT AAGTATTCCA CACATACAAA CACACACACA 251 C Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: glycosyl hydrolase family 9 protein |LOCUS: AT1G71380 |PROD: the same as GENE |complement(26903446..26905451) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +40 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.16 T - 0.31 C - 0.20 1 agaaaaggat ttggttaagc aatattaagg tatgaactaa cctaaaccat 51 aaaatagtaa aaaaggagga ttaaggttac tttgtttagg agcagcacgt 101 tgataaccaa aaagccataa ttatcgcttc cttcagcgca ggatccttct 151 ctctcctatc tctctgTATA TATAtgtgga ccttcacgta atagcttcgt 201 ACTTCAAACC TCAAAAGCAA TTTAGCTCTC TGTCTTCAAG ATGACTTCTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.004 +strand -149 : -138 AAAtAGTAAAAA AC RSP00653 Mean Expected Number 0.002 +strand -54 : -44 TTCTCTCTCCT AC RSP00865 Mean Expected Number 0.001 -strand -45 : -53 GGAGAGAGA AC RSP00866 Mean Expected Number 0.001 +strand -106 : -99 GCACGTTG AC RSP01056 Mean Expected Number 0.003 +strand -128 : -118 AAgGTTACTTT AC RSP01103 Mean Expected Number 0.007 +strand +6 : +13 AAACCTCA AC RSP01176 Mean Expected Number 0.001 -strand -104 : -114 tGCTGCTCCTA AC RSP01636 Mean Expected Number 0.002 +strand +10 : +20 CTCAAAAGCAA Totally 8 motifs of 8 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 802. Group RE: G-box /AC: RSP00866//OS: Nicotiana tabacum /GENE: NiPMT1a/RE: G-box /TF: unknown 976. Group TF: GT-3a /AC: RSP01056//OS: Arabidopsis thaliana /GENE: cab2/RE: GT-3a Box III (3) /TF: GT-3a 1021. Group RE: AC1 /AC: RSP01103//OS: Spinacia oleracea /GENE: rps22/RE: AC1 /TF: unknown 1087. Group TF: Zmhox1a /AC: RSP01176//OS: Zea mays /GENE: Sh/RE: Zmhox1a BS 3 /TF: Zmhox1a 1456. Group RE: TERE /AC: RSP01636//OS: Arabidopsis thaliana /GENE: XCP2/RE: TERE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: peroxidase 12 (PER12) (P12) (PRXR6) |LOCUS: AT1G71695 |PROD: the same as GENE |26967967..26970350 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +54 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.47 G - 0.14 T - 0.25 C - 0.15 1 ttggatattt tttttccttt ttgaaaagca aagaaatata ctctccttta 51 atcacaataa atatatagaa ggaaaagact tcagtattcc tttgcctttt 101 aacataagaa aaatatatat acttaaaaga tagaaataag acacacaagg 151 actgaaggac caaaattgcc TATAAAAGca aagtccatct attccacaag 201 AACAAGAAAA GGCAGAGAAG AGAGAGGCTC TGATAAAAAA AAAAACAAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00080 Mean Expected Number 0.005 +strand -35 : -20 TTGCCTATAAAaGCAA AC RSP00080 Mean Expected Number 0.005 -strand -20 : -35 TTGCtTTTATAGGCAA AC RSP00755 Mean Expected Number 0.009 -strand -110 : -116 AGGAATA Totally 3 motifs of 2 different REs have been found Description of REs found 79. Group TF: MADS-domain AGAMOUS BF /AC: RSP00080//OS: Arabidopsis thaliana /GENE: STE2; other genes/RE: AGAMOUS MADS BS /TF: MADS-domain AGAMOUS BF 717. Group RE: submotif A /AC: RSP00755//OS: Solanum tuberosum /GENE: S2-RNase/RE: submotif A /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G71780 |PROD: the same as GENE |complement(26998748..27000312) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +12 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.19 T - 0.29 C - 0.20 1 gagaaaaaaa acacttctcc tctgagaaga cgaactaaaa ggtaacaacc 51 gaataaccaa tctcttattg tctattatac cctttaggcc catcataagg 101 cccaaacatt acgaggcctt ttactaagcg acgtcgttat gaacagaata 151 tttatttttt gctttcctgg gatTATAAAT Ctttttttcc atcggacggt 201 GAATTGTTAG TCATGTCATC GATGACGGAG AAGGAGAAGG AGAGAGATCC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00377 Mean Expected Number 0.004 +strand -146 : -137 AACCAATCtC AC RSP00447 Mean Expected Number 0.004 -strand -33 : -42 AGgAAAGCAA AC RSP00460 Mean Expected Number 0.005 +strand +10 : +19 GtCATGTCAT AC RSP00653 Mean Expected Number 0.003 -strand +48 : +38 aTCTCTCTCCT AC RSP00865 Mean Expected Number 0.001 +strand +39 : +47 GGAGAGAGA AC RSP00913 Mean Expected Number 0.003 -strand +20 : +11 GATGACATGA AC RSP00916 Mean Expected Number 0.003 -strand +20 : +11 GATGACATGA Totally 7 motifs of 7 different REs have been found Description of REs found 362. Group RE: LS5 /AC: RSP00377//OS: Lemna gibba /GENE: Lhcb2 (cabAB19)/RE: LS5 /TF: unknown 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 438. Group TF: O2 /AC: RSP00460//OS: coix /GENE: alpha-coixin/RE: O2d /TF: O2 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 844. Group TF: Opaque-2 /AC: RSP00913//OS: Zea mays /GENE: b-32/RE: B1 /TF: Opaque-2 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G71950 |PROD: the same as GENE |complement(27083846..27085275) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +40 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.15 T - 0.31 C - 0.15 1 aaaaaatatt ggctgattca ttttattttt taagttaaat gtcacattgt 51 aggcaaggta attacaaaaa tgagtggaat tataaaatta tctacatacc 101 gacatcattc aaccgtcaga ttatggatta accatttgag accgtccatt 151 tatgagtcgg TTTAAATTgt gacataaatg gaaaatgtca cctctcacgc 201 GTTATTGAAA AAAAATTCCC AGATTCTATA AAAAAGAGAA ATGCAAACAT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00284 Mean Expected Number 0.006 +strand -59 : -54 CCGTCC AC RSP00445 Mean Expected Number 0.003 +strand +30 : +39 AAAAAAGAGA AC RSP00749 Mean Expected Number 0.009 -strand -131 : -142 tTTTTGTAATTA AC RSP01009 Mean Expected Number 0.001 +strand -104 : -96 TACCGACAT AC RSP01010 Mean Expected Number 0.001 +strand -104 : -96 TACCGACAT AC RSP01068 Mean Expected Number 0.008 -strand -81 : -89 TCTGACGGT AC RSP01642 Mean Expected Number 0.004 +strand -18 : -9 AAATGTCaCC Totally 7 motifs of 7 different REs have been found Description of REs found 275. Group RE: Box A /AC: RSP00284//OS: Petroselinum crispum /GENE: PAL-1/RE: Box A /TF: unknown ||Identical REs AC: RSP00849 RSP00856 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 711. Group TF: GT-1 /AC: RSP00749//OS: Catharanthus roseus /GENE: STR/RE: BN /TF: GT-1 934. Group TF: DREB1A; DREB2A /AC: RSP01009//OS: Arabidopsis thaliana /GENE: rd29A/RE: DREB1A/DREB2A BS /TF: DREB1A; DREB2A ||Identical REs AC: RSP01610 RSP01763 RSP01771 RSP01779 935. Group TF: DREB2A /AC: RSP01010//OS: Arabidopsis thaliana /GENE: rd29A/RE: DREB2A BS /TF: DREB2A 987. Group TF: HvH21 /AC: RSP01068//OS: Hordeum vulgare /GENE: Synthetic OLIGOs/RE: HvH21 BS /TF: HvH21 1462. Group RE: ARE /AC: RSP01642//OS: Nicotiana tabacum /GENE: WIPK/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G72290 |PROD: the same as GENE |27219451..27220453 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +63 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.16 T - 0.26 C - 0.20 1 acgtgatgat ctgtttcccc ccatacttac gggatgatca gaatgtggca 51 tgaggaaaaa gccaagaaat aagttgataa atttaaggtt taatttaaca 101 aaaatgagag attaatcttt tcattttagg gtcgcacgcg gtgttttgtg 151 caaccgcaga aacttccTAT AAATAccgat acaatgtgca tgctttctac 201 AACTCAACTC ACTCAAACCA AAAAAAGAAA CATCAAACCC TAAAACACAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00016 Mean Expected Number 0.005 -strand -9 : -15 CATGCAC AC RSP00260 Mean Expected Number 0.007 +strand -76 : -70 TTTAGGG AC RSP00279 Mean Expected Number 0.004 -strand +43 : +35 TTAGGGTTT AC RSP00357 Mean Expected Number 0.006 +strand +5 : +12 CAACTCAC AC RSP00369 Mean Expected Number 0.004 +strand +35 : +43 AAACCCTAA AC RSP01209 Mean Expected Number 0.002 -strand +27 : +18 CTTTTTTTGG AC RSP01296 Mean Expected Number 0.006 +strand -34 : -26 CTATAAATA AC RSP01301 Mean Expected Number 0.001 +strand -34 : -25 CTATAAATAC AC RSP01303 Mean Expected Number 0.007 +strand +34 : +43 cAAACCCTAA Totally 9 motifs of 9 different REs have been found Description of REs found 15. Group RE: RY /AC: RSP00016//OS: Glycine max /GENE: beta-conglycinin/RE: RY /TF: unknown 253. Group RE: RTBP1 BS /AC: RSP00260//OS: Oryza sativa /GENE: Synthetic OLIGO/RE: RTBP1 BS /TF: unknown 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 342. Group RE: CARE1 /AC: RSP00357//OS: Oryza sativa /GENE: Rep-1/RE: CARE1 /TF: unknown 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: TIR |LOCUS: AT1G72930 |PROD: |27443113..27444125 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +24 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.16 T - 0.33 C - 0.19 1 aatatgttat ccatactcat tatcttattt tggcggccca tctattctct 51 tccctctttc tgagtagttt agtgaaacag aagctgacaa gaaaaaatag 101 aaaatgccag gaaacacaca gttagcagta ggaagactct tataggtcaa 151 cttctgtagt ggtagtgccT ATAAATAtcc ttgagttttt tatttctatc 201 ACTCATTGAG AATCAAAAAT CAAAATGTCT TCTCATACTG CAACTAAGTA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00115 Mean Expected Number 0.009 -strand -2 : -12 ATAGAAATaAA AC RSP00438 Mean Expected Number 0.005 +strand -169 : -164 GGCGGC AC RSP00807 Mean Expected Number 0.005 -strand -164 : -169 GCCGCC AC RSP01032 Mean Expected Number 0.007 -strand -168 : -177 CCAAAATAAG AC RSP01209 Mean Expected Number 0.006 +strand -177 : -168 CTTATTTTGG AC RSP01296 Mean Expected Number 0.006 +strand -32 : -24 CTATAAATA AC RSP01642 Mean Expected Number 0.006 +strand +23 : +32 AAATGTCTtC Totally 7 motifs of 7 different REs have been found Description of REs found 113. Group TF: ATBP-1 /AC: RSP00115//OS: Pisum sativum /GENE: GS2/RE: BOX 1 /TF: ATBP-1 418. Group RE: PR-box /AC: RSP00438//OS: Arabidopsis thaliana /GENE: PR-1/RE: PR-box /TF: unknown 760. Group RE: GCC box /Group TF: Pti4 /AC: RSP00807//OS: Arabidopsis thaliana /GENE: PDF1.2/RE: GCC box /TF: Pti4 ||Identical REs AC: RSP00809 RSP00811 RSP00814 RSP00921 RSP01328 957. Group TF: FLC /AC: RSP01032//OS: Arabidopsis thaliana /GENE: SOC1/RE: CArG box /TF: FLC 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1462. Group RE: ARE /AC: RSP01642//OS: Nicotiana tabacum /GENE: WIPK/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein, similar to phosphatase |LOCUS: AT1G73010 |PROD: the same as GENE |complement(27468233..27469917) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +76 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.10 T - 0.33 C - 0.24 1 gatctctcta caagactcaa gtttgacccg taaacgtcat caaatccaac 51 ggttctcaga ataaaatcaa aagtattcta atttgttctt cttttttttg 101 ttaccttgaa ggtaatattc cattggcatc tccgataaaa tcccccATTG 151 Tttctctcca ttcattagTA TAAATAccta accacatttc tattctcctc 201 AATTCACAAA CCAACAAGAA CTCAAAGAGA GATCCATCAA TTAGAATCAC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00171 Mean Expected Number 0.009 +strand +27 : +32 GAGAGA AC RSP00574 Mean Expected Number 0.008 +strand -144 : -137 CAGAATAA AC RSP00997 Mean Expected Number 0.007 -strand -160 : -169 GATGACGTTT AC RSP01017 Mean Expected Number 0.007 -strand -46 : -53 AGAAACAA AC RSP01091 Mean Expected Number 0.008 +strand -140 : -130 ATAaAATCAAA AC RSP01654 Mean Expected Number 0.008 -strand -160 : -169 GATGACGTTT Totally 6 motifs of 6 different REs have been found Description of REs found 165. Group RE: GAGAGA motif /AC: RSP00171//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: GAGAGA motif /TF: unknown 550. Group RE: AT-rich K /AC: RSP00574//OS: Lycopersicon esculentum /GENE: rbcS1/RE: AT-rich K /TF: unknown 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 942. Group TF: AEF /AC: RSP01017//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 2 /TF: AEF 1009. Group RE: box 1 /AC: RSP01091//OS: Pisum sativum /GENE: GS2/RE: box 1 /TF: unknown 1472. Group TF: STF1/HY5 /AC: RSP01654//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: STF1/HY5 BS (cons) /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: eukaryotic translation initiation factor-related |LOCUS: AT1G73180 |PROD: the same as GENE |27521577..27525290 |SUPPORT | 14 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +419 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.16 T - 0.30 C - 0.18 1 acaactcaaa gccgactctt tataaacaga tatgattctc taaggaaaaa 51 aacctaattt gaatcgaatt agcaagagat tcacctggta gaaacaatgc 101 agccgtactc cacacagaga actaaaaacc tctagcttat aaaaaaagct 151 gatttttttt ctctttggtT ATAAATAtac agtaaccttc tggtttacct 201 AGAGTATTCA AAAGGCTGAT GAAATTTAAG TTAGGGTATC TCTTTATACG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00735 Mean Expected Number 0.010 -strand -44 : -51 AAAAATCA AC RSP01687 Mean Expected Number 0.009 -strand -187 : -193 CGGCTTT Totally 2 motifs of 2 different REs have been found Description of REs found 698. Group TF: DET1; CCA1 /AC: RSP00735//OS: Arabidopsis thaliana /GENE: CAB2/RE: CCA1 BS /TF: DET1; CCA1 1505. Group RE: CARE E /AC: RSP01687//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE E /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: calcium-binding protein, putative |LOCUS: AT1G73630 |PROD: the same as GENE |27688397..27689114 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +12 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.53 G - 0.10 T - 0.20 C - 0.17 1 aaaataactc attcagaaat attattagca ggacaaaaaa tatcaaatat 51 taatggttaa taaaaatagg aataaatata aatagttaat taattaaaag 101 ccatgaaggg tagccataga aaaagcatca agcatctcaC CAATcaaaag 151 caaatgatca gaaaaactcT ATAAAAAcgt caaaaacaga aactcaaatc 201 ACAAAACAAA AAATGGCAAA CACAAATCTT GAATCCACCA ACAAATCCAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00947 Mean Expected Number 0.006 +strand -146 : -140 GGTTAAT AC RSP01772 Mean Expected Number 0.006 +strand -151 : -145 TTAATGG Totally 2 motifs of 2 different REs have been found Description of REs found 876. Group TF: GT-2 /AC: RSP00947//OS: Oryza sativa /GENE: PHYA/RE: GT1-bx /TF: GT-2 1572. Group TF: WOX11 /AC: RSP01772//OS: Oryza sativa /GENE: PR2/RE: WOX11 BS /TF: WOX11 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G74055 |PROD: the same as GENE |27852891..27853473 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +49 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.14 T - 0.33 C - 0.20 1 tcacctgtaa gagtgcaatg gatcacatat atcatttata attagtttga 51 gacgcttttg atgaagctga tgaggatttc tccgctttat tcacctttac 101 atgtccttct tcaacaaacA TTGGtcggct taaaagctct tcaaaagatc 151 aatgtgcaca tgcctatgTA TATATAtact aatgaccccg ttactcaatc 201 AACAAATATT GAATCTTGAT CACCGAAAAC CAAAATTTCA TTAGATTCAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00359 Mean Expected Number 0.009 -strand -72 : -77 GCCGAC AC RSP00535 Mean Expected Number 0.002 +strand -39 : -23 GCCT-- +7 bp --TATATA AC RSP00870 Mean Expected Number 0.009 +strand -195 : -186 TGTAAgAGTG AC RSP01092 Mean Expected Number 0.009 -strand +51 : +41 ATtGAATCTAA Totally 4 motifs of 4 different REs have been found Description of REs found 344. Group TF: HvCBF1 /AC: RSP00359//OS: Hordeum vulgare /GENE: HVA1s/RE: GCCGAC motif /TF: HvCBF1 ||Identical REs AC: RSP00952 511. Group RE: LRE-TATA AA1 /AC: RSP00535//OS: Lycopersicon esculentum /GENE: rbcS3C/RE: LRE-TATA AA1 /TF: unknown 806. Group RE: EM2 /AC: RSP00870//OS: Triticum aestivum /GENE: LMWG-1D1/RE: EM2 /TF: unknown 1010. Group RE: box 1* /AC: RSP01092//OS: Pisum sativum /GENE: GS2/RE: box 1* /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: esterase/lipase/thioesterase family protein |LOCUS: AT1G74300 |PROD: the same as GENE |27938959..27940650 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +70 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.12 T - 0.37 C - 0.21 1 aaattgtagc attgtaattc gacagcttaa catgtatctt tttcttttcc 51 ttttttggca accacacaat taaagtatca aatcactgca acatatttga 101 atttaattca tccctgaaAT TGAcgtggct gagaagactt gtcacaagcc 151 taagagccct tcttcatcTA TAAATAtact cttgttcagt gatgaaaact 201 TAATATAATT TGGTTTCTCC CCAAATTCTC CACTTGTTCA CTTAATCTTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00080 Mean Expected Number 0.004 +strand -155 : -140 TTTCCTTTTTTGGCAA AC RSP00080 Mean Expected Number 0.004 -strand -140 : -155 TTGCCAAAAAAGGAAA AC RSP00113 Mean Expected Number 0.000 +strand -80 : -72 TGACGTGGC AC RSP00214 Mean Expected Number 0.000 +strand -80 : -73 TGACGTGG AC RSP00215 Mean Expected Number 0.000 -strand -73 : -80 CCACGTCA AC RSP00248 Mean Expected Number 0.001 -strand -72 : -81 GCCACGTCAa AC RSP00423 Mean Expected Number 0.010 +strand -79 : -74 GACGTG AC RSP00424 Mean Expected Number 0.010 -strand -74 : -79 CACGTC AC RSP01003 Mean Expected Number 0.008 +strand -135 : -126 ACAATTAAaG AC RSP01033 Mean Expected Number 0.007 +strand -152 : -143 CCTTTTTTGG AC RSP01034 Mean Expected Number 0.002 +strand -78 : -72 ACGTGGC AC RSP01214 Mean Expected Number 0.002 +strand -152 : -143 CCTTTTTTGG AC RSP01296 Mean Expected Number 0.006 +strand -33 : -25 CTATAAATA AC RSP01751 Mean Expected Number 0.002 +strand +29 : +37 TCCACTTGT AC RSP01776 Mean Expected Number 0.006 +strand -135 : -125 ACAATTAAAGt Totally 15 motifs of 14 different REs have been found Description of REs found 79. Group TF: MADS-domain AGAMOUS BF /AC: RSP00080//OS: Arabidopsis thaliana /GENE: STE2; other genes/RE: AGAMOUS MADS BS /TF: MADS-domain AGAMOUS BF 111. Group RE: TGA2 /AC: RSP00113//OS: Glycine max /GENE: GH3/RE: TGA2 /TF: unknown 207. Group TF: TGA1; GBF1 /AC: RSP00214//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: TGA1; GBF1 ||Identical REs AC: RSP01257 RSP01474 208. Group TF: HBP-11(17); HBP-1b(c38) /AC: RSP00215//OS: Triticum aestivum /GENE: H3/RE: Hex /TF: HBP-11(17); HBP-1b(c38) 241. Group TF: REB /AC: RSP00248//OS: Oryza sativa /GENE: alpha-globulin/RE: REB2 /TF: REB 404. Group RE: ABRE1 /AC: RSP00423//OS: Zea mays /GENE: rab17/RE: ABRE1 /TF: unknown ||Identical REs AC: RSP01547 405. Group RE: ABRE2 /AC: RSP00424//OS: Zea mays /GENE: rab17/RE: ABRE2 /TF: unknown ||Identical REs AC: RSP01549 928. Group TF: DEF/GLO /AC: RSP01003//OS: Antirrhinum majus /GENE: DEFH125/RE: CArG1 /TF: DEF/GLO 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1122. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01214//OS: Brassica oleracea /GENE: BoCRC/RE: EM1 /TF: MADS box TFs 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1557. Group TF: AREB2/ABF4 /AC: RSP01751//OS: Arabidopsis thaliana /GENE: COX5b-1/RE: distalB-like /TF: AREB2/ABF4 1575. Group TF: SIP1 /AC: RSP01776//OS: Lotus japonicus /GENE: AT-rich motif/RE: 39-bp element /TF: SIP1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: bHLH family protein |LOCUS: AT1G74500 |PROD: the same as GENE |complement(28001837..28002482) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +153 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.10 T - 0.37 C - 0.18 1 tttaaaatac gagattctct gaaatcgttc tattataaca aaagttgtca 51 ggagaggggg catataattc aatatttgaa aaataagatt cgcaatatat 101 ttttttctaa ctaaaataag aaaGCAATtt tatatatttt tcataaacaa 151 ataataaaaa gacctaCATA AATAcaaccg tcacttcact tgtttccttc 201 ATACTATCAA CTTTTCTCTA TCTATCTCTC TCTCTTCTTT TTCCGGCATA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00431 Mean Expected Number 0.009 -strand -16 : -27 AGTGACGGTTGt AC RSP00593 Mean Expected Number 0.003 -strand -110 : -118 GAATCTTAT AC RSP00864 Mean Expected Number 0.002 -strand +35 : +27 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 -strand +33 : +25 AGAGAGAGA AC RSP01105 Mean Expected Number 0.001 -strand -141 : -146 CCCCCT Totally 5 motifs of 4 different REs have been found Description of REs found 411. Group TF: AtMYB77 /AC: RSP00431//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AtMYB77 BS /TF: AtMYB77 569. Group RE: GATA/2 B /AC: RSP00593//OS: Lycopersicon esculentum /GENE: rbcS1/RE: GATA/2 B /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1023. Group RE: C-rich motif /AC: RSP01105//OS: Spinacia oleracea /GENE: rps22/RE: C-rich motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: CYP98A8 |LOCUS: AT1G74540 |PROD: cytochrome P450, putative |28016970..28018710 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +53 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.18 T - 0.30 C - 0.16 1 tgagaactaa agcacaagaa atagttttgg taagtaaaca gaaaatgcaa 51 aaagtgtgag agtattaagg ggccaaacca tggtattttc atgcgcatac 101 caaagttgtg tttctctaca cttacgtaag taaatatcaa aaactttctt 151 ctatgtttta cagtttgcgT ATAAAAActt cagtgtaagg tagatgttac 201 AATGTACATC AAACTTACAT CAATAACTGT TGTTTCACAT CGTCGAAGCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00332 Mean Expected Number 0.008 +strand -121 : -114 ATGGTATT AC RSP00404 Mean Expected Number 0.010 +strand -37 : -31 TTTGCGT AC RSP00489 Mean Expected Number 0.008 -strand -165 : -174 TACtTACCAA AC RSP00756 Mean Expected Number 0.003 -strand -141 : -148 CTCACACT Totally 4 motifs of 4 different REs have been found Description of REs found 318. Group TF: S1F /AC: RSP00332//OS: Spinacia oleracea /GENE: RPL21/RE: S1 /TF: S1F 386. Group RE: adja /AC: RSP00404//OS: Nicotiana tabacum /GENE: RNP2/RE: adja /TF: unknown 465. Group RE: UVLRE2 /AC: RSP00489//OS: Glycine max /GENE: chs1/RE: UVLRE2 /TF: unknown 718. Group RE: submotif B /AC: RSP00756//OS: Solanum tuberosum /GENE: S2-RNase/RE: submotif B /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: CYP98A9 |LOCUS: AT1G74550 |PROD: cytochrome P450, putative |28019706..28021523 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +41 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.12 T - 0.31 C - 0.14 1 agaaagttca actaaaattt tcaatcaaat tagaaaatgc aaatagtgtg 51 agaaaagcaa aaagtgaacc aattcatgac aatttcatgc aaaattacgt 101 gttatctaaa cagcttattc cataaccgtg actaaaaata ataattcata 151 aatcatttaa tatttggtgT ATAAAAAagt atacttcatg aagaagcatc 201 AAACCTGTAT TTTATCAATT ACCACACTTT GTCTAAGCAA AATGGATTTA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00441 Mean Expected Number 0.006 -strand +33 : +24 gACAAAGTGT AC RSP00756 Mean Expected Number 0.001 -strand -149 : -156 CTCACACT AC RSP00941 Mean Expected Number 0.008 +strand -182 : -175 TTTCAATC AC RSP01072 Mean Expected Number 0.009 +strand -107 : -98 ATTACGTGTT AC RSP01093 Mean Expected Number 0.004 +strand +32 : +42 TCTAAGCAAAa AC RSP01261 Mean Expected Number 0.002 +strand -106 : -99 TTACGTGT AC RSP01594 Mean Expected Number 0.008 -strand -175 : -182 GATTGAAA AC RSP01702 Mean Expected Number 0.006 -strand -98 : -107 AACACGTAaT Totally 8 motifs of 8 different REs have been found Description of REs found 421. Group TF: Dof1 /AC: RSP00441//OS: Zea mays /GENE: cyPPDK1/RE: box a /TF: Dof1 718. Group RE: submotif B /AC: RSP00756//OS: Solanum tuberosum /GENE: S2-RNase/RE: submotif B /TF: unknown 870. Group TF: GBF /AC: RSP00941//OS: Lycopersicon esculentum /GENE: RbcS-3.6/RE: box I /TF: GBF 990. Group TF: PvAlf /AC: RSP01072//OS: Arachis hypogea; Phaseolus vulgaris /GENE: Em/RE: Em1d /TF: PvAlf ||Identical REs AC: RSP01154 1011. Group RE: box 2 /AC: RSP01093//OS: Pisum sativum /GENE: GS2/RE: box 2 /TF: unknown 1163. Group TF: GBF1 /AC: RSP01261//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS8 /TF: GBF1 1416. Group RE: Box I /AC: RSP01594//OS: Pisum sativum /GENE: rbcS-3.6/RE: Box I /TF: unknown 1511. Group RE: ACGT1 /AC: RSP01702//OS: Arabidopsis thaliana /GENE: XERO2/RE: ACGT1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: myb family transcription factor |LOCUS: AT1G74840 |PROD: the same as GENE |complement(28119558..28121066) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +88 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.17 T - 0.22 C - 0.22 1 cagccaatga ataaaaaaag tctatccaaa tgaaaactct gtagagagac 51 aggcaggtaa gaaaaaaata caagaacaga cgaataaaaa caaaacacgt 101 gtcatatggt accgtcacca acacctacaa catgtaatag tttaaaaagg 151 aaccacgtgg cttttggctT ATAAAAGggt ccccaaagaa gctcagatct 201 AACTCACACC ACTCCATTGC CCATTGCTCT GTGTACTTTG CTTCTTTAGG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00073 Mean Expected Number 0.002 +strand -49 : -40 aCCACGTGGC AC RSP00073 Mean Expected Number 0.002 -strand -40 : -49 GCCACGTGGt AC RSP00153 Mean Expected Number 0.002 +strand -48 : -39 CCACGTGGCt AC RSP00175 Mean Expected Number 0.001 +strand -47 : -40 CACGTGGC AC RSP00524 Mean Expected Number 0.006 -strand -99 : -105 ACACGTG AC RSP00682 Mean Expected Number 0.001 -strand -40 : -49 GCCACGTGGt AC RSP00718 Mean Expected Number 0.001 +strand -48 : -41 CCACGTGG AC RSP00718 Mean Expected Number 0.001 -strand -41 : -48 CCACGTGG AC RSP01034 Mean Expected Number 0.005 +strand -46 : -40 ACGTGGC AC RSP01035 Mean Expected Number 0.006 +strand -104 : -98 ACGTGTC AC RSP01256 Mean Expected Number 0.003 +strand -106 : -99 ACACGTGT AC RSP01256 Mean Expected Number 0.003 -strand -99 : -106 ACACGTGT Totally 12 motifs of 9 different REs have been found Description of REs found 72. Group TF: TAF-1 /AC: RSP00073//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: PA /TF: TAF-1 ||Identical REs AC: RSP00274 149. Group RE: Box II /AC: RSP00153//OS: Petroselinum crispum /GENE: CHS/RE: Box II /TF: CPRF-1; CPRF-2; CPRF-3; ||Identical REs AC: RSP00154 169. Group RE: ABRE /Group TF: ABF /AC: RSP00175//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: ABRE /TF: ABF ||Identical REs AC: RSP00723 RSP01570 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 651. Group TF: GBF3 /AC: RSP00682//OS: Arabidopsis thaliana /GENE: Adh/RE: -214 G-box (core) /TF: GBF3 683. Group TF: GBF /AC: RSP00718//OS: Arabidopsis thaliana /GENE: Adh/RE: G-box-1 /TF: GBF ||Identical REs AC: RSP01254 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1159. Group TF: GBF1 /AC: RSP01256//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS3 /TF: GBF1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ALDH10A8 |LOCUS: AT1G74920 |PROD: betaine-aldehyde dehydrogenase, putative |complement(28142686..28146405) |SUPPORT | 15 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +171 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.14 T - 0.42 C - 0.12 1 aaaaaagtga cgtttaaaga tctctaatcc ttttctaatt aactttgtgt 51 atgattttta gttcttctaa tttctatata tttttgttca taatatgaaa 101 atttgatctc tgttttaatt attttggaac taaatacaca tttttaatta 151 gattagtaaa agagtTATAA TTAaaaaaag ttgatctggt tggtgtcagc 201 AGAACAAGGA AAAAAGAGAG GCTTTTTCGT TTTGATCCTC CTACTCTTCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00445 Mean Expected Number 0.001 +strand +10 : +19 AAAAAAGAGA AC RSP00996 Mean Expected Number 0.005 +strand -21 : -12 GTTGATCTGG AC RSP01454 Mean Expected Number 0.007 -strand -7 : -13 ACCAACC AC RSP01654 Mean Expected Number 0.004 +strand -195 : -186 AGTGACGTTT Totally 4 motifs of 4 different REs have been found Description of REs found 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 917. Group TF: Opaque-2 (O2) /AC: RSP00996//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-1 /TF: Opaque-2 (O2) 1325. Group RE: AC-II /Group TF: PtMYB4 /AC: RSP01454//OS: Pinus taeda /GENE: Synthetic OLIGO/RE: AC-II /TF: PtMYB4 1472. Group TF: STF1/HY5 /AC: RSP01654//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: STF1/HY5 BS (cons) /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G75110 |PROD: the same as GENE |complement(28197776..28199594) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +48 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.16 T - 0.32 C - 0.13 1 gactgtagta tataaattat tataattttg ttaaccttgt aacatgattt 51 taaaaattag aacccactta tttatttctc tatcaggatg gtatgttaat 101 agaatgaact atagaacaga tcaacagaca gtaaatgaaa cttaaagaaa 151 aaaatacaaa tggctcaTAT AAAATgaact tgcagaaata cagtttgatc 201 ACAGAATAAG AGAGGGTTTA TCAATTTGGC TTCTGCGTCA TTTCGGCAAT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00996 Mean Expected Number 0.004 -strand -76 : -85 GTTGATCTGT Totally 1 motifs of 1 different REs have been found Description of REs found 917. Group TF: Opaque-2 (O2) /AC: RSP00996//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-1 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: zinc knuckle (CCHC-type) family protein |LOCUS: AT1G75560 |PROD: the same as GENE |complement(28374802..28376902) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +524 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.18 T - 0.31 C - 0.20 1 ggctttagat aaagctcaaa tttccacgtg aatctgtatt ttttttcttt 51 cttaaatcta aaatatctgc agacgtaaaa cccatgtaaa gttatagttc 101 agcccatgtt aaaagcccat gtaaagttat agcccacgta aaaaagccca 151 gcccaaagat aagttggGAT AAATAatatt gatgttctcg attgctcgcc 201 GGGATCGTAA GAACAGAGGA TTTTTCTCGG CCAAGTTTTC TCTAGCTCAG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00442 Mean Expected Number 0.008 -strand -72 : -81 TAACTTTaCA AC RSP00442 Mean Expected Number 0.008 -strand -107 : -116 TAACTTTaCA AC RSP00495 Mean Expected Number 0.007 +strand -116 : -109 TGTAAAGT AC RSP00495 Mean Expected Number 0.007 +strand -81 : -74 TGTAAAGT AC RSP00640 Mean Expected Number 0.002 -strand -170 : -177 TCACGTGG AC RSP00860 Mean Expected Number 0.002 -strand -149 : -157 AGAAAGAAA AC RSP01734 Mean Expected Number 0.010 +strand -178 : -172 TCCACGT Totally 7 motifs of 5 different REs have been found Description of REs found 422. Group TF: Dof1 /AC: RSP00442//OS: Zea mays /GENE: cyPPDK1/RE: box b /TF: Dof1 471. Group RE: P-box 2 /AC: RSP00495//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 2 /TF: unknown ||Identical REs AC: RSP00686 616. Group RE: G-box /Group TF: GBF /AC: RSP00640//OS: Zea mays /GENE: GRF1/RE: G-box /TF: GBF ||Identical REs AC: RSP00641 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: auxin-responsive family protein |LOCUS: AT1G75590 |PROD: the same as GENE |complement(28386557..28387429) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +54 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.10 T - 0.30 C - 0.24 1 cctctcttca aacaaaactg attgattaat ttccttaata tttaataatc 51 aaccaattac actaatcttt atttcattaa ggaaaagaat agagccaaag 101 taaggaccac ggaggtaatc tcgtaaatat ctcgaaaacc aatggcATTG 151 Tgttattcct tttactaTAT AAACCtcgtc cctccctaac tctcaaaatc 201 CCCCTGACAT TTTCTTTCTC TCACAAAGAA AACCAAATCA CTAAACCGGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00860 Mean Expected Number 0.003 -strand +19 : +11 AGAAAGAAA AC RSP01167 Mean Expected Number 0.008 +strand -77 : -69 TAAATATCT Totally 2 motifs of 2 different REs have been found Description of REs found 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: glycosyl hydrolase family 9 protein |LOCUS: AT1G75680 |PROD: the same as GENE |complement(28420713..28423190) |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +298 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.16 T - 0.33 C - 0.15 1 atttagcaat ttattgtttt tttttatcat attatattta cttattaatg 51 tggacaacta attaaattat agagcgaccg acaattgtga cagtgacact 101 ggagttggac tcggcTCAAT ttaaaggggt agttcagtaa tcatacctca 151 cattactaca ctcttgatta ataTATAAAA Ccaaatcagt ttttaaaaat 201 AAGGGAAAAT CCTAATAAAG GAGAAGAAAA ACAGATCTGA AATCCCGCTT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00127 Mean Expected Number 0.006 -strand +49 : +44 AGCGGG AC RSP01068 Mean Expected Number 0.007 +strand -115 : -107 TGTGACAGT Totally 2 motifs of 2 different REs have been found Description of REs found 125. Group RE: BS1 /AC: RSP00127//OS: Eucalyptus gunnii /GENE: CCR/RE: BS1 /TF: unknown 987. Group TF: HvH21 /AC: RSP01068//OS: Hordeum vulgare /GENE: Synthetic OLIGOs/RE: HvH21 BS /TF: HvH21 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ATAMY2 |LOCUS: AT1G76130 |PROD: alpha-amylase, putative / 1 |28566179..28568970 |SUPPORT | 13 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +362 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.19 G - 0.19 T - 0.48 C - 0.14 1 tttgtgggta tagtccaatt tgctctttta attcttcttc ttcattgtaa 51 catttataaa aggtttgttt tttgtgtggc cgaaagttgt ttgacatttg 101 attctgattc gtttgggatc agaaactgtt taatcacttc acgttctctc 151 ttcggctcTA TATATAtata tgtaggattg tttctttaag ggacttgtgt 201 GATTTAGCTT CTTCGTTTCC TTGGTATTTG ATCTTCTTTT ATGTGTGTGA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00361 Mean Expected Number 0.006 +strand -121 : -116 CCGAAA AC RSP01024 Mean Expected Number 0.004 +strand -80 : -74 AGAAACT AC RSP01054 Mean Expected Number 0.003 -strand -147 : -157 AAtGTTACAAT AC RSP01237 Mean Expected Number 0.001 +strand -45 : -36 CTCTATATAT Totally 4 motifs of 4 different REs have been found Description of REs found 346. Group RE: LTRE /AC: RSP00361//OS: Hordeum vulgare /GENE: blt4.9/RE: LTRE /TF: unknown 949. Group RE: R1 /AC: RSP01024//OS: Arabidopsis thaliana /GENE: GapB/RE: R1 /TF: unknown 974. Group TF: GT-3a /AC: RSP01054//OS: Arabidopsis thaliana /GENE: cab2/RE: GT-3a Box III (1) /TF: GT-3a 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: small nuclear ribonucleoprotein D3 |LOCUS: AT1G76300 |PROD: the same as GENE |28630778..28632257 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +73 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.16 T - 0.28 C - 0.16 1 tacaaacagt tcttatcttt ttattttttt gggtcaacta aacaaatctt 51 atcttatctt atactaataa aacttaagag taaaaacaaa gtaacaaaaa 101 aggcacacaa cattcaacta atgggcCCAA Taaactaatg ggccgatcca 151 aaaTCTAAAT Aagaagtcca taagagtgtg gagctttaac gagagaagct 201 AAATTGTTCA AAGCTTTTTG GCTGCTAAAA AGGAAAAGGG AAGGTTCAAT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00227 Mean Expected Number 0.001 -strand -141 : -149 AAGATAAGA AC RSP00227 Mean Expected Number 0.001 -strand -146 : -154 AAGATAAGA AC RSP00227 Mean Expected Number 0.001 -strand -182 : -190 AAGATAAGA AC RSP01053 Mean Expected Number 0.002 -strand -143 : -151 GATAAGATA Totally 4 motifs of 2 different REs have been found Description of REs found 220. Group TF: GT-1 /AC: RSP00227//OS: Pisum sativum /GENE: rbcS-3A/RE: BOX III* /TF: GT-1 973. Group TF: HvMCB1 /AC: RSP01053//OS: Hordeum vulgare /GENE: ITR1/RE: GATA-core /TF: HvMCB1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: |LOCUS: AT1G76410 |PROD: the same as GENE |28673742..28674540 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +67 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.09 T - 0.31 C - 0.25 1 tagagtttac atgagctagc tttcgagttt tcagtcatta actaaatgca 51 accgatttcg aactaataac aattgaaatt ttacgaaaac atccttataa 101 ctgaaagtga tACAATaaac tttataatat aaagcaaaaa tacccaagac 151 gaagatctca ctcacTATAA ATCcctttcc tctttgcctc cccaaaaaac 201 GCTCACACTC CTAATCCCTC CCATTTTTCA AACCACTCTC TCTTTCTCTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00642 Mean Expected Number 0.008 +strand -158 : -151 TAAATGCA AC RSP00861 Mean Expected Number 0.004 -strand +47 : +39 AGAAAGAGA AC RSP00879 Mean Expected Number 0.004 -strand -176 : -182 CGAAAGC Totally 3 motifs of 3 different REs have been found Description of REs found 617. Group RE: L1-box /AC: RSP00642//OS: Arabidopsis thaliana /GENE: PDF1/RE: L1-box /TF: unknown 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 815. Group RE: D2 /Group TF: Dof family /AC: RSP00879//OS: Hordeum vulgare /GENE: Al21/RE: D2 /TF: Dof family ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: auxin efflux carrier family protein |LOCUS: AT1G76520 |PROD: the same as GENE |28720026..28722308 |SUPPORT | 10 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +252 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.19 T - 0.30 C - 0.14 1 acaccaagtt gtacatacaa aatatgtagg atgaaaatat gaaattctct 51 tcccatatgc atagaataat aatttacctt agttaaaaag attagtttct 101 aagtttgccc caaataaaga gattagtttc ttgaaaaaag cattttgtgg 151 atagacaaga aTTTAAATAg aatgaagagg cgaccatgca agtgttgtac 201 TAGGCCAAAT TTTGGAGACG CTCTTTCTCT TTCATAGAGA GAGAGTGAGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00864 Mean Expected Number 0.002 +strand +36 : +44 AGAGAGAGA Totally 1 motifs of 1 different REs have been found Description of REs found 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: zinc-binding family protein |LOCUS: AT1G76590 |PROD: the same as GENE |28745585..28747101 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +184 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.14 T - 0.31 C - 0.16 1 tatcaataac accacctttt ttttttaagt tcctttactt ctggggtctc 51 tagagaccca cacatgtgca caaaatatac gtgtgtctct catagacttt 101 aaagcaaaat tagagaacac ttatttttag ccaaaaaaag taattaaaga 151 aaaaactaTA TAAAAAcagt ttaaaaaggg gatgatatta aatgattttc 201 ATGTGAATTA TAAAACGTAT TGAGTATTAT CGTGACCGAC TTCAAAAAAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01209 Mean Expected Number 0.001 -strand -61 : -70 CTTTTTTTGG AC RSP01288 Mean Expected Number 0.003 +strand -124 : -117 ATACGTGT AC RSP01469 Mean Expected Number 0.009 -strand -132 : -141 gCACATGTGT AC RSP01631 Mean Expected Number 0.001 +strand -104 : -94 CTTTAAAGCAA AC RSP01632 Mean Expected Number 0.002 +strand -104 : -94 CTTTAAAGCAA AC RSP01633 Mean Expected Number 0.001 +strand -104 : -94 CTTTAAAGCAA AC RSP01636 Mean Expected Number 0.002 +strand -104 : -94 CTTTAAAGCAA AC RSP01637 Mean Expected Number 0.002 +strand -104 : -94 CTTTAAAGCAA AC RSP01638 Mean Expected Number 0.002 +strand -104 : -94 CTTTAAAGCAA AC RSP01702 Mean Expected Number 0.009 +strand +12 : +21 AAaACGTATT AC RSP01715 Mean Expected Number 0.001 -strand -115 : -126 AcACACGTATAT Totally 11 motifs of 11 different REs have been found Description of REs found 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs 1185. Group RE: Z-DNA-motif /AC: RSP01288//OS: Arabidopsis thaliana /GENE: cab1/RE: Z-DNA-motif /TF: unknown 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) 1451. Group RE: TERE /AC: RSP01631//OS: Arabidopsis thaliana /GENE: ZCP4/RE: TERE /TF: unknown 1452. Group RE: TERE /AC: RSP01632//OS: Arabidopsis thaliana /GENE: At5g51890/RE: TERE /TF: unknown 1453. Group RE: TERE /AC: RSP01633//OS: Arabidopsis thaliana /GENE: At1g08610/RE: TERE /TF: unknown 1456. Group RE: TERE /AC: RSP01636//OS: Arabidopsis thaliana /GENE: XCP2/RE: TERE /TF: unknown 1457. Group RE: TERE /AC: RSP01637//OS: Arabidopsis thaliana /GENE: XSP1/RE: TERE /TF: unknown 1458. Group RE: TERE /AC: RSP01638//OS: Arabidopsis thaliana /GENE: AGP/RE: TERE /TF: unknown 1511. Group RE: ACGT1 /AC: RSP01702//OS: Arabidopsis thaliana /GENE: XERO2/RE: ACGT1 /TF: unknown 1523. Group TF: STF1/HY5 /AC: RSP01715//OS: Arabidopsis thaliana /GENE: ARF6 (At1g30330)/RE: G/A-box /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G76600 |PROD: the same as GENE |28751782..28752739 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +87 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.12 T - 0.31 C - 0.28 1 attggccttg taaaacaaga ctactctcac aacagtcaac acacacagct 51 aagcatacgc gtcagcttcc ggtttaaaca aaaaaaaaca caaaccgtaa 101 tttggtttcc gtttcttcct cttgtaacga ccggttaaat aaaatgctga 151 cgtcaccatc ttcttcTATA TATAtcctac ctggaaccaa ctctgtatat 201 ACGCGTCCTC CTCTCTCTTC TTCCTCTTGC TATCAATAAA TCTCTCTTTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00861 Mean Expected Number 0.005 -strand +51 : +43 AGAAAGAGA AC RSP01730 Mean Expected Number 0.000 -strand -44 : -55 GGTGACGTCAGC Totally 2 motifs of 2 different REs have been found Description of REs found 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 1538. Group TF: STF1/HY5 /AC: RSP01730//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: CRE (G/A): /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: calcium-binding EF hand family protein |LOCUS: AT1G76650 |PROD: the same as GENE |complement(28771644..28772411) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +75 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.44 G - 0.07 T - 0.26 C - 0.23 1 aaaggaagaa aaagcgtgtt ttatacaaga aaactcatta aaataaaagt 51 ccaaaatatc taaacactaa tctaccacgt ctattacaca cacacacaca 101 cacttgatct taatttattt tcaagattca agaaaatacc cattccatta 151 ccacaacttg accacacgcc tataTATAAA ACataaaagc cctttcccct 201 ATTTCTCATT CACTTTTCAT TTCAAAAGTA AAACAAGACA AACAAAAAAT 251 A Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: F-box family protein (FBX3) |LOCUS: AT1G76920 |PROD: the same as GENE |28896956..28898570 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +233 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.45 G - 0.14 T - 0.27 C - 0.14 1 agccattgta aataaatctt aactccatga cttatttcac aaaatgactg 51 taaaaatata tatatagata ttaagtaggt ttaaacaatt atgaatctat 101 gaaaaatgcg tatgtcgagt ctttctaata caaaacttca tacaaataat 151 gaccaaagag aaTATAAAAT agtcaattat gaaaatattc aaatgataag 201 CAGACAAGTA GGTGACTCAG CGCATTAAGC AACCCAAGGA CAAAATGGGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00190 Mean Expected Number 0.010 -strand +19 : +13 TGAGTCA AC RSP00943 Mean Expected Number 0.005 +strand -169 : -159 TtATTTCACAA AC RSP01596 Mean Expected Number 0.005 -strand -159 : -169 TTGTGAAATaA Totally 3 motifs of 3 different REs have been found Description of REs found 184. Group RE: GCN4 box /AC: RSP00190//OS: Oryza sativa /GENE: GluB-1/RE: GCN4 box /TF: unknown ||Identical REs AC: RSP00666 RSP00959 872. Group TF: GBF /AC: RSP00943//OS: Lycopersicon esculentum /GENE: RbcS-3.6/RE: box III /TF: GBF 1417. Group RE: Box III /AC: RSP01596//OS: Pisum sativum /GENE: rbcS-3.6/RE: Box III /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ADH1 |LOCUS: AT1G77120 |PROD: alcohol dehydrogenase (ADH) |28980345..28982311 |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +58 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.14 T - 0.29 C - 0.22 1 agcaacgcca agtggaaaga gcgttcgaga gaacaaggca aaaccaaata 51 cgcccctagt attctacaga tgtcgactgg ataattacaa aagatttcaa 101 taaacagtac taattaattt ctagtggtga gtttttgtaa atatctactt 151 cttccaatta ccagctgcta TATAAATCcc cttctctgtt tctcttttct 201 TACATCACAA TCACACAAAA CTAACAAAAG ATCAAAAGCA AGTTCTTCAC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00445 Mean Expected Number 0.009 -strand -1 : -10 AgAAAAGAGA AC RSP00522 Mean Expected Number 0.005 -strand -186 : -192 CCACTTG AC RSP00615 Mean Expected Number 0.009 -strand -70 : -75 CTCACC AC RSP00683 Mean Expected Number 0.002 +strand -194 : -185 GCCAAGTGGA AC RSP00716 Mean Expected Number 0.005 +strand -162 : -154 CAAAACCAA AC RSP00717 Mean Expected Number 0.000 +strand -163 : -144 GCAAAACCAAATACGCCCCT AC RSP00720 Mean Expected Number 0.000 +strand -197 : -172 AACGCCAAGTGGAAAGAGCGTTCGAG AC RSP00749 Mean Expected Number 0.006 -strand -108 : -119 cTTTTGTAATTA AC RSP01167 Mean Expected Number 0.006 +strand -63 : -55 TAAATATCT Totally 9 motifs of 9 different REs have been found Description of REs found 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 591. Group RE: C-rich GG1 /AC: RSP00615//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: C-rich GG1 /TF: unknown 652. Group TF: GBF3 /AC: RSP00683//OS: Arabidopsis thaliana /GENE: Adh/RE: -190 half G-box (core) /TF: GBF3 681. Group RE: GT motif /AC: RSP00716//OS: Arabidopsis thaliana /GENE: Adh/RE: GT motif /TF: unknown 682. Group RE: ARE /AC: RSP00717//OS: Arabidopsis thaliana /GENE: Adh/RE: ARE /TF: unknown 685. Group TF: GBF /AC: RSP00720//OS: Arabidopsis thaliana /GENE: Adh/RE: "in vivo footprint" /TF: GBF 711. Group TF: GT-1 /AC: RSP00749//OS: Catharanthus roseus /GENE: STR/RE: BN /TF: GT-1 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: 1-aminocyclopropane-1-carboxylate oxidase |LOCUS: AT1G77330 |PROD: the same as GENE |complement(29067884..29069431) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +90 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.14 T - 0.32 C - 0.14 1 atatggaaac tataagattc aacggttgta cttatgcatg cttagctttt 51 aaaaaataac ataacgtaaa aatgaacgat aaattaaata caatagtcaa 101 ctggtcactg ttacgttttt ttcattttcg ttaaagaaaa caaatacatg 151 ggaaaattta gaaatagTAT AAATGgaggc ttaagctttc cataatcttc 201 ACAACTAAAT CAGAAGATTA CTACTAAACA GAGTCTTTTT TGACTTGCCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00400 Mean Expected Number 0.010 +strand -178 : -173 CGGTTG AC RSP00530 Mean Expected Number 0.003 +strand +34 : +45 TCTTTTTTgACT AC RSP00593 Mean Expected Number 0.004 -strand -181 : -189 GAATCTTAT AC RSP00680 Mean Expected Number 0.009 +strand +26 : +35 aAACAGAGTC AC RSP00949 Mean Expected Number 0.004 +strand -107 : -100 TAGTCAAC Totally 5 motifs of 5 different REs have been found Description of REs found 382. Group TF: Myb /AC: RSP00400//OS: Nicotiana tabacum /GENE: RNP2/RE: Myba /TF: Myb 506. Group RE: AT-rich F /AC: RSP00530//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: AT-rich F /TF: unknown 569. Group RE: GATA/2 B /AC: RSP00593//OS: Lycopersicon esculentum /GENE: rbcS1/RE: GATA/2 B /TF: unknown 649. Group RE: GARE/Box 2 /AC: RSP00680//OS: Hordeum vulgare /GENE: Amy32b/RE: GARE/Box 2 /TF: unknown 878. Group RE: TAGTCAAC motif /AC: RSP00949//OS: Petroselinum crispum /GENE: 4CL-1/RE: TAGTCAAC motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: AAP3 |LOCUS: AT1G77380 |PROD: amino acid carrier, putative / amino acid permease |complement(29079782..29082284) |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +138 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.10 T - 0.39 C - 0.20 1 aatcattcat ataaaattat aaatcatgaa gtcaaatttt tcaatagtaa 51 cacttgagta atagtggtcc taccaacttt ttaccaagac agatatattt 101 tttttaatac actttttacc ttttactgtg tttgcctcaa atgagtgttt 151 ttaccagttt ctgtgtaTAT AAATCtgcac tccactctca gtttatcttc 201 ATCCACAAGA CAGTTCTTTA ACAAAGTCAT TAAACATTTC CCTTACCTTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00680 Mean Expected Number 0.005 +strand +19 : +28 TAACAaAGTC AC RSP00933 Mean Expected Number 0.003 -strand -178 : -190 TTTATAATTTTaT Totally 2 motifs of 2 different REs have been found Description of REs found 649. Group RE: GARE/Box 2 /AC: RSP00680//OS: Hordeum vulgare /GENE: Amy32b/RE: GARE/Box 2 /TF: unknown 862. Group RE: AT-2a /AC: RSP00933//OS: Pinus sylvestris /GENE: GS1a/RE: AT-2a /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: hydrolase, alpha/beta fold family protein |LOCUS: AT1G77420 |PROD: the same as GENE |29098393..29100610 |SUPPORT | 8 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +142 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.22 T - 0.27 C - 0.18 1 atatatgatt caatggaaat tgcaattata aagtaaaagc ccaatagcgt 51 caaaaaaaag taaaagccca ataatagtga ggcccatcaa taatctggag 101 tcaaACAATg gtggataatg gaaatctctc aaaatccaaa tccggtttta 151 gccggtTATA AATGggtttg actggtttcg ggtcacaatc gaacggttga 201 CGTCGATCAT CATTCTGGTA GTTGAAAACT TTGTCGTCGT CGTCGTCGTC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.005 +strand -146 : -135 AAAAAGTAAAAg AC RSP00778 Mean Expected Number 0.004 +strand -195 : -186 TGATTCAATG Totally 2 motifs of 2 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 733. Group RE: Box III /AC: RSP00778//OS: Arabidopsis thaliana /GENE: AtS1/RE: Box III /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ANAC032 |LOCUS: AT1G77450 |PROD: no apical meristem (NAM) family protein |29104848..29106155 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +75 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.10 T - 0.35 C - 0.28 1 aagcaatgac aaaactcacc tacattacag tctgccacgt gtccctctcc 51 atctacttca aatgaatcct ccactataca gatttaacca tttttctatt 101 tttgtttgag attcctttcc accaacacaa agcccctgtc tatccgccat 151 gtgtccacga cctttctTAT ATATAtagtc atctttcttc tttgctcgag 201 AGAAGTTTCA ACTTTCAAAC ATATCTTTAC AGTTCTTTCT TGCTAAACAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00002 Mean Expected Number 0.000 -strand -159 : -167 ACACGTGGC AC RSP00044 Mean Expected Number 0.001 -strand -157 : -167 GGACaCGTGGC AC RSP00056 Mean Expected Number 0.006 +strand -167 : -158 GCCACgTGTC AC RSP00073 Mean Expected Number 0.001 +strand -167 : -158 GCCACGTGtC AC RSP00073 Mean Expected Number 0.001 -strand -158 : -167 GaCACGTGGC AC RSP00153 Mean Expected Number 0.002 +strand -166 : -157 CCACGTGtCC AC RSP00171 Mean Expected Number 0.005 +strand -3 : +3 GAGAGA AC RSP00175 Mean Expected Number 0.000 -strand -160 : -167 CACGTGGC AC RSP00204 Mean Expected Number 0.001 -strand -158 : -167 GACACGTGGC AC RSP00219 Mean Expected Number 0.000 -strand -157 : -168 gGACACGTGGCA AC RSP00340 Mean Expected Number 0.006 +strand -167 : -158 gCCACGTGTC AC RSP00524 Mean Expected Number 0.006 -strand -159 : -165 ACACGTG AC RSP00936 Mean Expected Number 0.000 +strand -168 : -157 TGCCACGTGTCc AC RSP01034 Mean Expected Number 0.005 -strand -161 : -167 ACGTGGC AC RSP01035 Mean Expected Number 0.006 +strand -164 : -158 ACGTGTC AC RSP01326 Mean Expected Number 0.008 -strand -90 : -96 TCTCAAA AC RSP01237 Mean Expected Number 0.003 -strand -23 : -32 CTaTATATAT AC RSP01255 Mean Expected Number 0.002 -strand -159 : -166 ACACGTGG Totally 18 motifs of 17 different REs have been found Description of REs found 2. Group RE: ABRE-3 /AC: RSP00002//OS: Brassica napus /GENE: Oleosin/RE: ABRE-3 /TF: unknown 43. Group TF: ASF1 /AC: RSP00044//OS: Triticum aestivum /GENE: H3/RE: hex3 /TF: ASF1 55. Group TF: ABI3 /AC: RSP00056//OS: Brassica napus /GENE: napA/RE: ABRE Bd /TF: ABI3 72. Group TF: TAF-1 /AC: RSP00073//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: PA /TF: TAF-1 ||Identical REs AC: RSP00274 149. Group RE: Box II /AC: RSP00153//OS: Petroselinum crispum /GENE: CHS/RE: Box II /TF: CPRF-1; CPRF-2; CPRF-3; ||Identical REs AC: RSP00154 165. Group RE: GAGAGA motif /AC: RSP00171//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: GAGAGA motif /TF: unknown 169. Group RE: ABRE /Group TF: ABF /AC: RSP00175//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: ABRE /TF: ABF ||Identical REs AC: RSP00723 RSP01570 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 212. Group TF: HY5 /AC: RSP00219//OS: Arabidopsis thaliana /GENE: RBCS-1A/RE: G box-1 /TF: HY5 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 865. Group TF: GBF /AC: RSP00936//OS: Lycopersicon esculentum /GENE: RbcS-3A/RE: G box /TF: GBF 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1089. Group TF: ABF-2 /AC: RSP01326//OS: Pisum sativum /GENE: AB80/RE: AB1 heptamer /TF: ABF-2 ||Identical REs AC: RSP01326 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1158. Group TF: GBF1 /AC: RSP01255//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS2 /TF: GBF1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: 60S ribosomal protein L30 (RPL30B) |LOCUS: AT1G77940 |PROD: the same as GENE |complement(29308791..29310259) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +77 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.16 T - 0.29 C - 0.19 1 ttgaatgtac aagtggttta tgctaattta atcactgtca attcactgaa 51 acgaataaat cgagtaatta cttttttaat tgacaaatta caaaactata 101 gaaacattaa gggcataatt gaaatttcca ataaATTGAa gagcaaaaac 151 cctagaaaat tgacacggac TATAAAAAgg tgacgaagcg gcgctttttc 201 GGTTTGGTCA TCGTGCTCCT CTTCTCCTCC ACCGCACAGA TCCAAGACAT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00522 Mean Expected Number 0.007 -strand -185 : -191 CCACTTG Totally 1 motifs of 1 different REs have been found Description of REs found 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ATGSTU20 |LOCUS: AT1G78370 |PROD: glutathione S-transferase, putative |complement(29489165..29490183) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +86 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.12 T - 0.29 C - 0.22 1 ttcactagtt gcacacatat gacaattatt taacaaagtt gcaaaataca 51 ttttaaatcg ttacgggtaa aagcttactg tttaaaagat ttatatatgg 101 accataatat gctttgaaaa aagctgatgt gacgtaacgg gaatcaaaat 151 cctttccaca tcattttctt ccccTATAAA ACaaccgtca ctcactcctt 201 CTCTACTATA ACACACACTC GCTTGTTCAC GCACAACAAA AAGCAAGAAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00112 Mean Expected Number 0.003 +strand -71 : -64 TGACGTAA AC RSP01469 Mean Expected Number 0.009 -strand -179 : -188 TCAtATGTGT AC RSP01600 Mean Expected Number 0.008 -strand -82 : -89 TTTCAAAG Totally 3 motifs of 3 different REs have been found Description of REs found 110. Group RE: TGA1 /AC: RSP00112//OS: Glycine max /GENE: GH3/RE: TGA1 /TF: unknown 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: ATGSTU19 |LOCUS: AT1G78380 |PROD: glutathione S-transferase, putative |complement(29491306..29492799) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +87 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.42 G - 0.14 T - 0.27 C - 0.17 1 acactataat ggtcaacaga taaaaaaaag gcgaatgaag atatgttacg 51 taaaaagaaa atactgtaat tataaattat tactttaaaa agctttaaaa 101 tctggccaca tgtttttaaa gagtggtgtg acgtaacgac tagagtcagc 151 acaatccatt attgtatCAT AAATAttctc atctataaat tacctaaacc 201 CTTACAGGTA GTGTCCCAAC CAAACAAATC GAGAAAGACG AACACTTACA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00112 Mean Expected Number 0.005 +strand -72 : -65 TGACGTAA AC RSP00454 Mean Expected Number 0.002 -strand -149 : -159 TACGTAACATa AC RSP01716 Mean Expected Number 0.001 -strand -146 : -157 TTTTACGTAAcA Totally 3 motifs of 3 different REs have been found Description of REs found 110. Group RE: TGA1 /AC: RSP00112//OS: Glycine max /GENE: GH3/RE: TGA1 /TF: unknown 432. Group RE: Motif e/f /AC: RSP00454//OS: Pisum sativum /GENE: PSPAL2/RE: Motif e/f /TF: unknown 1524. Group RE: A-box /Group TF: STF1/HY5 /AC: RSP01716//OS: Arabidopsis thaliana /GENE: ARF18 (At1g23750)/RE: A-box /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: VQ motif-containing protein |LOCUS: AT1G78410 |PROD: the same as GENE |29507475..29508134 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +146 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.42 G - 0.14 T - 0.25 C - 0.18 1 catgacgtca ggaagaaaaa aaacaagaaa aaaataggtc gtcacatatg 51 ttttcatgta ggacaagatt acgattataa aatcgtttca aaaagaatac 101 gaaaaaattt acttgaatga gtcacttcag taccccacag agattatatc 151 tttctctctt taatctctcT ATAAATAcct aagtatgcaa ctatgcatat 201 AAATCTACAA AACATCTGAA CACCCAAAGA CACAGGAAGA GAGCTAAAGC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00857 Mean Expected Number 0.007 +strand +12 : +21 aCATCTGAAC AC RSP01296 Mean Expected Number 0.010 +strand -32 : -24 CTATAAATA AC RSP01301 Mean Expected Number 0.002 +strand -32 : -23 CTATAAATAC AC RSP01469 Mean Expected Number 0.004 +strand -159 : -150 TCACATaTGT Totally 4 motifs of 4 different REs have been found Description of REs found 793. Group RE: NON /AC: RSP00857//OS: Zea mays /GENE: H4C7/RE: NON /TF: unknown 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: gibberellin 2-oxidase / GA2-oxidase (GA2OX1) |LOCUS: AT1G78440 |PROD: the same as GENE |complement(29516492..29517944) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +61 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.13 T - 0.32 C - 0.18 1 tttactattt agcaaataac taatcacaat ggaggctttc gcaaatatcg 51 tcccgatata ttcaatttta ttgatataga tacataaaag agaaaaaaat 101 aagtgattag ctttagtttt gaacagtttt gatcgtacgt cgttgtaaga 151 tctttatcat ctcatctgcT ATATATAcac tcctccgagt acataaccca 201 ATGTCTCAGC CTTCAAAGCT ATCAAAATCA AAAAAATTCT ATCAAACAAG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00879 Mean Expected Number 0.004 -strand -160 : -166 CGAAAGC AC RSP01634 Mean Expected Number 0.001 +strand +11 : +21 CTTCAAAGCTA AC RSP01635 Mean Expected Number 0.001 +strand +11 : +21 CTTCAAAGCTA AC RSP01637 Mean Expected Number 0.002 +strand +11 : +21 CTTCAAAGCTA AC RSP01638 Mean Expected Number 0.002 +strand +11 : +21 CTTCAAAGCTA Totally 5 motifs of 5 different REs have been found Description of REs found 815. Group RE: D2 /Group TF: Dof family /AC: RSP00879//OS: Hordeum vulgare /GENE: Al21/RE: D2 /TF: Dof family 1454. Group RE: TERE /AC: RSP01634//OS: Arabidopsis thaliana /GENE: At3g62160/RE: TERE /TF: unknown 1455. Group RE: TERE /AC: RSP01635//OS: Arabidopsis thaliana /GENE: XCP1/RE: TERE /TF: unknown 1457. Group RE: TERE /AC: RSP01637//OS: Arabidopsis thaliana /GENE: XSP1/RE: TERE /TF: unknown 1458. Group RE: TERE /AC: RSP01638//OS: Arabidopsis thaliana /GENE: AGP/RE: TERE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: SOUL heme-binding family protein |LOCUS: AT1G78450 |PROD: the same as GENE |complement(29521882..29522826) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +23 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.14 T - 0.35 C - 0.18 1 cgataattta tgtaatttcg atatttttaa tgcatattat ttttgtcggc 51 caacttgtta tatttaatca tgtgtttaca atgcaattta atcctatccg 101 aagatgaacc acacacataa aaccttatct gttacaaaaa aaatgtttat 151 gtttttcttc ataaatgTAT AAAACcttgt atcagtttac gttgcatggc 201 CGCAACGGAA AACAAATCCG CCAATGGAAG CGGCTCTGAG CATCTTCAAG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00359 Mean Expected Number 0.008 -strand -151 : -156 GCCGAC AC RSP01086 Mean Expected Number 0.010 +strand -15 : -6 TTTACGTTgC Totally 2 motifs of 2 different REs have been found Description of REs found 344. Group TF: HvCBF1 /AC: RSP00359//OS: Hordeum vulgare /GENE: HVA1s/RE: GCCGAC motif /TF: HvCBF1 ||Identical REs AC: RSP00952 1004. Group TF: bZIP TF /AC: RSP01086//OS: Helianthus annuus /GENE: sHSP/RE: bZIP BS /TF: bZIP TF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: pathogenesis-related family protein |LOCUS: AT1G78780 |PROD: the same as GENE |complement(29626237..29627338) |SUPPORT | 4 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +14 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.16 T - 0.29 C - 0.15 1 acagccaaag aagtaattgt tggttattgg ttgcaacttt ttagaaaata 51 tgattgagac aattaacaac ttcaaaatgt caactttacg cggataagaa 101 aacgggattc accactaatc cattttaaac taatttctaa ataTCAATca 151 acatgtattg tgagatTATA AAAGatacaa gcaatcataa ctcattctcc 201 ATTAAAAAGC TAATATGGCT ACTAGGGAAG AGAGAGATAA GTATAGATCA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00864 Mean Expected Number 0.002 +strand +29 : +37 AGAGAGAGA AC RSP01602 Mean Expected Number 0.005 -strand -142 : -149 TCTCAATC AC RSP01733 Mean Expected Number 0.009 -strand -108 : -113 CCGCGT Totally 3 motifs of 3 different REs have been found Description of REs found 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1423. Group RE: Inr /AC: RSP01602//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown 1541. Group TF: CAMTA3 /AC: RSP01733//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM2 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G79200 |PROD: the same as GENE |29799281..29800933 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +16 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.26 T - 0.24 C - 0.16 1 acattgagca aaaagctagt aaaaagggat tataattgta ttggggtaaa 51 taaaaacatt gggggcgaga tgcaaaatat aaaagagtaa ggggtttaag 101 tgtaatttcg acatcgagac ccgacccgac ccgggattat gaatcctgat 151 cgccgcgggg tccaAATAAA TAtatgtcag ctcctccgtt cttttatttt 201 AGTCCGTCGG GAAATAATGG TAAGCGAACG GAGCTCCAAG GAGAAGAAGA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00142 Mean Expected Number 0.003 +strand -50 : -44 CGCCGCG AC RSP00572 Mean Expected Number 0.005 +strand -29 : -22 ATATGTCA AC RSP01150 Mean Expected Number 0.005 -strand -164 : -174 AATTATAATCc Totally 3 motifs of 3 different REs have been found Description of REs found 138. Group RE: GC-rich motif /AC: RSP00142//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: GC-rich motif /TF: unknown 548. Group RE: 3'/AT-rich J1 /AC: RSP00572//OS: Lycopersicon esculentum /GENE: rbcS1/RE: 3'/AT-rich J1 /TF: unknown 1066. Group RE: C-DP BS2 /AC: RSP01150//OS: Cucumis sativus/GENE: POR/RE: C-DP BS2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G79770 |PROD: the same as GENE |30019254..30019971 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +10 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.26 T - 0.20 C - 0.17 1 agcacgtgaa ttagtggctt cattaattag tattgttgtg aaaagtaaaa 51 caaagagtaa gtaaagagct aggtcgctat agcgtgagca cgtacgtgag 101 atggcaatgc tgaaccacAC AATacacatg aatatgtcaa cacagacagc 151 accgctTATA AATAccaaag cttagcgcag acgctctagg tgaaaaaaag 201 AAGATTGGAT ATGGCAGCAA ACGGGAGAAG GAAGAGCGTG AGCGGAAGCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00072 Mean Expected Number 0.008 -strand -106 : -112 GTACGTG AC RSP00103 Mean Expected Number 0.005 +strand -113 : -104 GCACgTACGT AC RSP00200 Mean Expected Number 0.000 +strand -180 : -171 CATTAATTAG AC RSP00475 Mean Expected Number 0.000 -strand -43 : -54 tAAGCGGTGCTG AC RSP00509 Mean Expected Number 0.001 +strand -44 : -33 TATAAATACCAa AC RSP00572 Mean Expected Number 0.004 +strand -69 : -62 ATATGTCA AC RSP00817 Mean Expected Number 0.005 -strand -191 : -200 TtCACGTGCT Totally 7 motifs of 7 different REs have been found Description of REs found 71. Group RE: ACGT box /AC: RSP00072//OS: Oryza sativa /GENE: GluB-1/RE: ACGT box /TF: unknown 101. Group RE: Z element /AC: RSP00103//OS: Agrobacterium tumefaciens /GENE: nos/RE: Z element /TF: unknown 193. Group TF: GmHdl56; GmHdl57 /AC: RSP00200//OS: Glycine max /GENE: vspB/RE: PRD motif 1 /TF: GmHdl56; GmHdl57 453. Group TF: Alfin1 /AC: RSP00475//OS: Medicago sativa /GENE: MSPRP2/RE: Alfin1 BS5 /TF: Alfin1 485. Group RE: TATA box /AC: RSP00509//OS: Avena fatua /GENE: alpha-Amy2/A/RE: TATA box /TF: unknown 548. Group RE: 3'/AT-rich J1 /AC: RSP00572//OS: Lycopersicon esculentum /GENE: rbcS1/RE: 3'/AT-rich J1 /TF: unknown 763. Group TF: ACE-binding TF /AC: RSP00817//OS: Arabidopsis thaliana /GENE: CFI/RE: ACE-core (AtCFI) /TF: ACE-binding TF ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: mitochondrial substrate carrier family protein |LOCUS: AT1G79900 |PROD: the same as GENE |complement(30056972..30058624) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +132 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.22 T - 0.35 C - 0.16 1 attatcattt tttgttaatt taatttaata atggttaatg tgaaaaacag 51 aggaaactag aagaagagag ttttggcagg agatgtaggt ggcgggagtg 101 ggttgggcga gagagatgat ggtgacggtg cagctccaaa tcttctctaa 151 tcttttgaca cttttcTATA AAACtcccca aactgattct ctctgactgc 201 CTCATAAGTC ATTATAATAG TTTCCCCCGG ATTGTTTTTT CTTTCTTTTT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00051 Mean Expected Number 0.006 -strand -108 : -117 GCCACcTACA AC RSP00075 Mean Expected Number 0.004 +strand -116 : -107 GTAgGTGGCG AC RSP00860 Mean Expected Number 0.004 -strand +46 : +38 AGAAAGAAA AC RSP00988 Mean Expected Number 0.001 -strand -119 : -130 CTCCtGCCAAAA Totally 4 motifs of 4 different REs have been found Description of REs found 50. Group RE: A3 /AC: RSP00051//OS: Hordeum vulgare /GENE: HVA22/RE: A3 /TF: unknown 74. Group TF: TAF-1 /AC: RSP00075//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: Iwt /TF: TAF-1 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 909. Group TF: E2F/DP /AC: RSP00988//OS: Zea mays /GENE: RBR3/RE: E2F/DP I /TF: E2F/DP ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: expressed protein |LOCUS: AT1G80040 |PROD: the same as GENE |complement(30114040..30116173) |SUPPORT | 4 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +229 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.20 T - 0.22 C - 0.18 1 tcatattgtt tgttagataa ctttactaag ggggcaaaaa aggaattatc 51 agataaacaa aatatttgaa aaaagaaaaa aacgttggca gggagtttca 101 cgcgcaacgc aacgcgccca tgtgattaac aaaagtacga gaaagcccct 151 gccgcttaaa gatctgtaTA TAAAAAgggt aaaataaggt ctcctggcct 201 GGCCTTTAAG ATAAAGAAAA GGAAACCCAA TCGAAAACCT AAAACCCGAT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00040 Mean Expected Number 0.004 -strand -187 : -193 AACAAAC AC RSP00092 Mean Expected Number 0.009 -strand -186 : -192 TAACAAA AC RSP00741 Mean Expected Number 0.008 +strand -28 : -17 AAAAGGgTAAAA Totally 3 motifs of 3 different REs have been found Description of REs found 39. Group RE: AACA box (D) /AC: RSP00040//OS: Oryza sativa /GENE: GluB-1/RE: AACA box (D) /TF: unknown 90. Group TF: GAmyb /AC: RSP00092//OS: Hordeum vulgare /GENE: Amy pHV19/RE: TAACAAA box /TF: GAmyb ||Identical REs AC: RSP00393 RSP01051 703. Group RE: box 1 /Group TF: GT-1 /AC: RSP00741//OS: Nicotiana plumbaginifolia /GENE: Cab-E/RE: box 1 /TF: GT-1 ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: CCR2 |LOCUS: AT1G80820 |PROD: cinnamoyl-CoA reductase, putative |30375465..30377562 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +73 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.09 T - 0.34 C - 0.21 1 ttcacaataa attcttcatt taccaaaccc acactctttc aatatatcag 51 aacaaaaata tactaatcta aagtttttca gtttgttctt ttgaaaaaga 101 aaagaattat cataagttga ctcaccaact ctttaccatg gttaagtaac 151 ttgttttgaa gtctcTATAT ATAcaaatca ctaacgacac atcataacat 201 ACTACTCTCT TAAGCCCTTT CATAACCTTG TAAACCATTA AGAGGCTTTG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00040 Mean Expected Number 0.008 -strand -114 : -120 AACAAAC AC RSP00871 Mean Expected Number 0.008 -strand -75 : -84 GGTGAGTCAa AC RSP00950 Mean Expected Number 0.003 +strand -80 : -70 CTCACCAACtC AC RSP01237 Mean Expected Number 0.002 +strand -38 : -29 CTCTATATAT Totally 4 motifs of 4 different REs have been found Description of REs found 39. Group RE: AACA box (D) /AC: RSP00040//OS: Oryza sativa /GENE: GluB-1/RE: AACA box (D) /TF: unknown 807. Group RE: GLM1 /AC: RSP00871//OS: Triticum aestivum /GENE: LMWG-1D1/RE: GLM1 /TF: unknown 879. Group RE: CTCACCAACCC motif /AC: RSP00950//OS: Petroselinum crispum /GENE: 4CL-1/RE: CTCACCAACCC motif /TF: unknown 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: WRKY40 |LOCUS: AT1G80840 |PROD: WRKY family transcription factor |30388584..30390388 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +142 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.13 T - 0.28 C - 0.24 1 caaatacgtg tgcgggtgga cccgatagaa gccgagttga gtctaaagac 51 taaaaagtaa acaaaaaatg ataagaccat cacttagttt attgcatgaa 101 aatgaaaagc acatgctcct ctctctctct tctgcctctt tccatctagt 151 ttcctcttaa aactccatTA TATATAgaaa caaaatcttt tctctcttca 201 ACAATCCCAC CATTAAAAAA GAAGAACCCA AGATCGACTC TTACTTCGAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.005 +strand -149 : -138 AAAAAGTAAAcA AC RSP00107 Mean Expected Number 0.008 -strand -103 : -109 CATGCAA AC RSP00864 Mean Expected Number 0.001 -strand -71 : -79 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand -73 : -81 AGAGAGAGA AC RSP01237 Mean Expected Number 0.008 -strand -22 : -31 tTCTATATAT AC RSP01288 Mean Expected Number 0.003 +strand -197 : -190 ATACGTGT AC RSP01702 Mean Expected Number 0.005 -strand -189 : -198 cACACGTATT Totally 7 motifs of 6 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 105. Group RE: RY2 /AC: RSP00107//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY2 /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1185. Group RE: Z-DNA-motif /AC: RSP01288//OS: Arabidopsis thaliana /GENE: cab1/RE: Z-DNA-motif /TF: unknown 1511. Group RE: ACGT1 /AC: RSP01702//OS: Arabidopsis thaliana /GENE: XERO2/RE: ACGT1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 1: GENE: J8 |LOCUS: AT1G80920 |PROD: |complement(30408536..30409577) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +136 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.14 T - 0.35 C - 0.16 1 atattaaact tttttaaaca taacaacaaa aaggttggga tggataactt 51 tttttttatt tataaatcta ctgtatgtgt aaaaatagta aaaaacaatt 101 tggccgtgga aatcggtagc gttatggata aggacacttt gagatgagtc 151 accgtttcct ttcttTATAA ATAatcccgc ttcctctctt tatccaatcc 201 ATTAAATCCT AAAATCCATT ATTGATTGAA TCTTCGAGTT ACCAACAAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.006 +strand -118 : -107 AAAtAGTAAAAA AC RSP00127 Mean Expected Number 0.008 -strand -20 : -25 AGCGGG AC RSP00862 Mean Expected Number 0.002 -strand -37 : -45 AGAAAGGAA AC RSP00863 Mean Expected Number 0.001 -strand -12 : -20 AGAGAGGAA AC RSP00871 Mean Expected Number 0.005 -strand -48 : -57 GGTGAcTCAT Totally 5 motifs of 5 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 125. Group RE: BS1 /AC: RSP00127//OS: Eucalyptus gunnii /GENE: CCR/RE: BS1 /TF: unknown 798. Group TF: BPC1 /AC: RSP00862//OS: Arabidopsis thaliana /GENE: STK/RE: GA-3 /TF: BPC1 799. Group TF: BPC1 /AC: RSP00863//OS: Arabidopsis thaliana /GENE: STK/RE: GA-4 /TF: BPC1 807. Group RE: GLM1 /AC: RSP00871//OS: Triticum aestivum /GENE: LMWG-1D1/RE: GLM1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G01300 |PROD: the same as GENE |complement(151062..151728) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +38 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.14 T - 0.27 C - 0.19 1 aaacagattt taatagaacc actgaaacat gaatgatggg aaacgaaaat 51 gacgtggagg taaaggcaag tgggttccat taatcaaatt gcgaatggca 101 acgcgctaat cataaatcat ccactttatt gttataatat tgttACAATa 151 gtattatcca aatgtTATAA ATAcatttcc aactgtccat catcttctcc 201 ATCAACAACA TTCCAAAATA ACAACGATCA ATATCACAAT GGAAGCTACA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00214 Mean Expected Number 0.001 +strand -151 : -144 TGACGTGG AC RSP00215 Mean Expected Number 0.001 -strand -144 : -151 CCACGTCA AC RSP00522 Mean Expected Number 0.006 -strand -128 : -134 CCACTTG AC RSP01275 Mean Expected Number 0.002 -strand -143 : -152 TCCACGTCAT AC RSP01734 Mean Expected Number 0.006 -strand -143 : -149 TCCACGT Totally 5 motifs of 5 different REs have been found Description of REs found 207. Group TF: TGA1; GBF1 /AC: RSP00214//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: TGA1; GBF1 ||Identical REs AC: RSP01257 RSP01474 208. Group TF: HBP-11(17); HBP-1b(c38) /AC: RSP00215//OS: Triticum aestivum /GENE: H3/RE: Hex /TF: HBP-11(17); HBP-1b(c38) 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 1174. Group RE: ACE 2 /AC: RSP01275//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 2 /TF: unknown 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G01630 |PROD: the same as GENE |complement(279283..282122) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +168 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.10 T - 0.39 C - 0.12 1 aaaaaaatcc tagaacattt atttaaaggt tagttttaaa cgaaaataaa 51 agaattgttt ttccaccgaa aaataaatta ttaatattta gtggtacgat 101 acatcttttc agcaaaaaaa taaaaaaaaa ttagaaaccc aacttttagc 151 ctttaggctt gaagtTATAT ATAttactct tttgaagcga actgattctt 201 AATTTTTCAC TTTCTATTTC TCTATATCTA TTTTTTTATA GATATATATT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00230 Mean Expected Number 0.004 -strand -165 : -174 AAaCTAACCT Totally 1 motifs of 1 different REs have been found Description of REs found 223. Group TF: PcMYB1 /AC: RSP00230//OS: Petroselinum crispum /GENE: CHS-1/RE: MRECHS /TF: PcMYB1 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: MutT/nudix family protein |LOCUS: AT2G01670 |PROD: the same as GENE |complement(296509..298091) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +274 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.12 T - 0.37 C - 0.18 1 ttagacttgt agctatgctt attggtactt aaaattaaca tacatttttc 51 ttttaaaaaa ccccaacatt agctttagct tctcgaccaa tgatgaaaat 101 tccaagaaaa gaaagaaaca ttcataATTG Tttttttttc aaacaaaaaa 151 aaagagcggc cgttttatTA TAAAAAgaag ataagctatt ggaggttgat 201 ACAACGCTTT TTGTCTCATC TCCTTCTTCT TCTCCTTCTC AAATCTTTTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00011 Mean Expected Number 0.001 -strand -15 : -24 GCTTATCTTC AC RSP00054 Mean Expected Number 0.009 -strand -15 : -21 GCTTATC AC RSP00163 Mean Expected Number 0.002 +strand +7 : +17 CtTTTTGTCTC AC RSP00860 Mean Expected Number 0.002 +strand -91 : -83 AGAAAGAAA AC RSP01016 Mean Expected Number 0.008 +strand -87 : -80 AGAAACAT AC RSP01206 Mean Expected Number 0.000 +strand -114 : -103 CCAATGATGAAA AC RSP01209 Mean Expected Number 0.006 -strand -90 : -99 CTTTTCTTGG Totally 7 motifs of 7 different REs have been found Description of REs found 11. Group RE: C2b-BS /AC: RSP00011//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: C2b-BS /TF: unknown 53. Group RE: C2a-BS /AC: RSP00054//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: C2a-BS /TF: unknown 158. Group TF: ARF1 /AC: RSP00163//OS: Glycine max /GENE: Synthetic OLIGO/RE: DR5 /TF: ARF1 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 941. Group TF: AEF /AC: RSP01016//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 1 /TF: AEF 1116. Group TF: LFY /AC: RSP01206//OS: Arabidopsis thaliana /GENE: AtCRC/RE: EL1 /TF: LFY ||Identical REs AC: RSP01211 RSP01216 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: PHD finger family protein, contains Pfam domain |LOCUS: AT2G02470 |PROD: the same as GENE |652579..654914 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +257 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.15 T - 0.38 C - 0.12 1 aataatgtaa aatttgggag tggggaatgt agctcggaaa aaaatagggt 51 atgtagatcg gaattaataa atagatttta tattattaca taaacaataa 101 taaaatacAC AATgttgtct ttatttaatt aatacaaaaa taataaaata 151 gacaatgttg tcttTATTAA TAttacttct cagccccaaa attaatcttt 201 GATCGGTCCC TTTTGTTTTA TCGTTTTAGG GTTTGTAGCT CCTTTCTCTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.002 +strand +26 : +34 TTAGGGTTT AC RSP00369 Mean Expected Number 0.002 -strand +34 : +26 AAACCCTAA AC RSP00751 Mean Expected Number 0.003 -strand +27 : +16 AAAaCGATAAAA AC RSP01303 Mean Expected Number 0.005 -strand +35 : +26 cAAACCCTAA AC RSP01472 Mean Expected Number 0.001 -strand -144 : -154 TCTACaTACCC Totally 5 motifs of 5 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 713. Group TF: GT-1 /AC: RSP00751//OS: Catharanthus roseus /GENE: STR/RE: BN-2 /TF: GT-1 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1341. Group RE: Box-I /AC: RSP01472//OS: Pisum sativum /GENE: PsCHS1/RE: Box-I /TF: unknown ||Identical REs AC: RSP01528 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G02515 |PROD: the same as GENE |675255..675655 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +14 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.11 T - 0.36 C - 0.15 1 tacatataac tttctttcta tatgaaatta tctagtcaaa atcttttttt 51 tttggacaga aatctagtca aaatctatga tattaattgt cttttttttt 101 gtcacagcat ataattctag tcaacaaaaa gataagtatA TTGCtttatg 151 ctatttttgt cacaacaaTA TAAATAaaaa tctaggttag acatttgcaa 201 ACACAAAACA AAATATGAAG ATGATTCTGA AGCTCCCCGC AATAACAATG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00459 Mean Expected Number 0.004 -strand -77 : -86 TTGACTAGaA AC RSP00860 Mean Expected Number 0.004 -strand -182 : -190 AGAAAGAAA AC RSP00949 Mean Expected Number 0.004 +strand -83 : -76 TAGTCAAC AC RSP01201 Mean Expected Number 0.001 +strand +28 : +35 TGAAGCTC AC RSP01639 Mean Expected Number 0.009 +strand -116 : -107 AATTGTCTTT Totally 5 motifs of 5 different REs have been found Description of REs found 437. Group TF: O2 /AC: RSP00459//OS: coix /GENE: alpha-coixin/RE: O2u /TF: O2 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 878. Group RE: TAGTCAAC motif /AC: RSP00949//OS: Petroselinum crispum /GENE: 4CL-1/RE: TAGTCAAC motif /TF: unknown 1112. Group TF: NIT2 /AC: RSP01201//OS: Chlorella vulgaris /GENE: NR/RE: NIT2 BS II /TF: NIT2 1459. Group RE: ARE /AC: RSP01639//OS: Nicotiana tabacum /GENE: PR-Q; ACS2/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: aspartyl protease family protein |LOCUS: AT2G03200 |PROD: the same as GENE |complement(966448..967915) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +27 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.11 T - 0.37 C - 0.25 1 tcaaaagttt tctcaactaa caacggaaga atagggcttt gcttgtttga 51 gtgaatctct taaacagtgt ctcctcattt taagtaggga agttacatca 101 atgtctatct tcttacacgc ctaactttgt tctgtaactc ttttcttttt 151 gtgtcctaaa aactcttTAT AAACActaat ctacactccc ttaatctctc 201 ATCTATCCAC TCACACACAC ACAAACCATG GCTTCTTCTT CTTCTTCTTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00930 Mean Expected Number 0.008 -strand -113 : -118 CCTACT AC RSP00960 Mean Expected Number 0.007 +strand -187 : -180 CAACTAAC Totally 2 motifs of 2 different REs have been found Description of REs found 859. Group RE: H-box II /AC: RSP00930//OS: French Phaseolus vulgaris /GENE: CHS/RE: H-box II /TF: unknown 885. Group TF: HvGAMYB /AC: RSP00960//OS: Hordeum vulgare /GENE: ITR1/RE: MYB BS /TF: HvGAMYB ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: band 7 family protein |LOCUS: AT2G03510 |PROD: the same as GENE |1066639..1069096 |SUPPORT | 9 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +75 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.09 T - 0.31 C - 0.21 1 atagtatttg tttaatattt gaagatttgt tttaaaaaaa aagttataat 51 gaaatataaa ttttggaaga ttactcccac atctaaaaaa atacgatcca 101 ttgattctcc tctattcaac ggttcgataT CAATtacaca cacgaagtta 151 aactcttccc tcccacacct TATAAAACcc tatacatgaa aaaaaccttc 201 ATCTTGAAAA AACCCCTTTC CAAGTTTTGC AATTTCCACT GAACAGAAAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00158 Mean Expected Number 0.008 +strand -196 : -186 TATTTGtTTAA AC RSP01114 Mean Expected Number 0.008 -strand -135 : -141 CCAAAAT Totally 2 motifs of 2 different REs have been found Description of REs found 153. Group RE: D3 /AC: RSP00158//OS: Glycine max /GENE: GmAux28/RE: D3 /TF: unknown 1033. Group RE: CCAAT box-like motif 1 /AC: RSP01114//OS: Agrobacterium tumefaciens /GENE: ags/RE: CCAAT box-like motif 1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G03690 |PROD: the same as GENE |complement(1121897..1123168) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +160 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.16 T - 0.33 C - 0.19 1 tacatataac tatatatcag ttacaatatt tatgggccaa aagctcttct 51 tattggattt gactagggaa tctctcagtt ttttttaccc aatggcccaa 101 gttcttatat ttcagtcatt tattttcggt ttttctttga acattaaatg 151 atgggccaca atggagtTAT AAACTaaagg ccccaattga aatctctctc 201 AAAAACTTTC AGTCAAATCT TGAGAACAGA AAGAAAGTCC ACGCGAGGAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00459 Mean Expected Number 0.004 +strand -142 : -133 TTGACTAGGg AC RSP00860 Mean Expected Number 0.002 +strand +28 : +36 AGAAAGAAA Totally 2 motifs of 2 different REs have been found Description of REs found 437. Group TF: O2 /AC: RSP00459//OS: coix /GENE: alpha-coixin/RE: O2u /TF: O2 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G04039 |PROD: the same as GENE |1333268..1334563 |SUPPORT | 4 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +193 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.14 T - 0.42 C - 0.16 1 tttaccaatt aagctaacga cacttaactc tttctttctt ctattcttgt 51 gcttctacaa tgggaagatc aacgtaaaca tattattact aaagtttaca 101 tacgatagta aacataacta taatgggaag tgcaagtgtt tttaatttta 151 tttgtaggTA TAAAAAtatg ctatatctct tttttgtgtg tgtggttggc 201 AAATCTTAGG CTCAGCCTTT TTCACATTTG TCTCTTGTTT TATTTCCTCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00080 Mean Expected Number 0.005 +strand -199 : -184 TTACCAATTAAGcTAA AC RSP00080 Mean Expected Number 0.005 -strand -184 : -199 TTAgCTTAATTGGTAA AC RSP00445 Mean Expected Number 0.006 -strand -16 : -25 AAAAAAGAGA AC RSP00489 Mean Expected Number 0.009 -strand -41 : -50 TACCTACaAA Totally 4 motifs of 3 different REs have been found Description of REs found 79. Group TF: MADS-domain AGAMOUS BF /AC: RSP00080//OS: Arabidopsis thaliana /GENE: STE2; other genes/RE: AGAMOUS MADS BS /TF: MADS-domain AGAMOUS BF 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 465. Group RE: UVLRE2 /AC: RSP00489//OS: Glycine max /GENE: chs1/RE: UVLRE2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: auxin-responsive protein-related |LOCUS: AT2G04850 |PROD: the same as GENE |1704280..1705775 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +15 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.11 T - 0.33 C - 0.19 1 cgtcatattt tatcataatt aaaaagatgt ccaaatatta cacaaccaac 51 caactgtgtt gtggagagtg tttgagtttc acttagcttc aaagcaaaga 101 cttcaatgaa aaatcataat atcaactttt ACAATcacaa tcatatttct 151 taagtttcac tacacaTATA AAAAgtctcg actctattaa caaaaaaaac 201 AGAGATGATC AAACAATGGC GACTTTGATT CTATCATTCT TGCTTCTTCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00680 Mean Expected Number 0.006 -strand -12 : -21 TAAtAGAGTC AC RSP01091 Mean Expected Number 0.009 -strand +34 : +24 ATAGAATCAAA AC RSP01092 Mean Expected Number 0.010 -strand +34 : +24 ATAGAATCaAA AC RSP01093 Mean Expected Number 0.003 +strand -112 : -102 TCaAAGCAAAG AC RSP01631 Mean Expected Number 0.001 +strand -114 : -104 CTTCAAAGCAA AC RSP01634 Mean Expected Number 0.001 +strand -114 : -104 CTTCAAAGCAA AC RSP01635 Mean Expected Number 0.001 +strand -114 : -104 CTTCAAAGCAA AC RSP01638 Mean Expected Number 0.002 +strand -114 : -104 CTTCAAAGCAA Totally 8 motifs of 8 different REs have been found Description of REs found 649. Group RE: GARE/Box 2 /AC: RSP00680//OS: Hordeum vulgare /GENE: Amy32b/RE: GARE/Box 2 /TF: unknown 1009. Group RE: box 1 /AC: RSP01091//OS: Pisum sativum /GENE: GS2/RE: box 1 /TF: unknown 1010. Group RE: box 1* /AC: RSP01092//OS: Pisum sativum /GENE: GS2/RE: box 1* /TF: unknown 1011. Group RE: box 2 /AC: RSP01093//OS: Pisum sativum /GENE: GS2/RE: box 2 /TF: unknown 1451. Group RE: TERE /AC: RSP01631//OS: Arabidopsis thaliana /GENE: ZCP4/RE: TERE /TF: unknown 1454. Group RE: TERE /AC: RSP01634//OS: Arabidopsis thaliana /GENE: At3g62160/RE: TERE /TF: unknown 1455. Group RE: TERE /AC: RSP01635//OS: Arabidopsis thaliana /GENE: XCP1/RE: TERE /TF: unknown 1458. Group RE: TERE /AC: RSP01638//OS: Arabidopsis thaliana /GENE: AGP/RE: TERE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: atg8d |LOCUS: AT2G05630 |PROD: autophagy 8d (APG8d) |complement(2082983..2084879) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +107 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.08 T - 0.33 C - 0.19 1 accaattttt taggggtttt taaaacaaaa atataataac aaaaatctaa 51 aatctataga ctaaaatcta aactcaaaaa ctgaatcgaa aatatccatt 101 caggcctaat acatccaata ttTCAATact tcttaactct taactcttaa 151 gttttaagta attaaataTA TAAAGAtctg ttgccaagcg tacccttttt 201 ATAAACATTC CAAATAACTA TCTCCATTCT TTGGAGTTAC CCAATTTCGA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00260 Mean Expected Number 0.002 +strand -192 : -186 TTTAGGG AC RSP00307 Mean Expected Number 0.009 +strand -18 : -13 GCCAAG AC RSP00405 Mean Expected Number 0.001 +strand +30 : +37 TTTGGAGT AC RSP00481 Mean Expected Number 0.010 -strand -185 : -188 CCCC Totally 4 motifs of 4 different REs have been found Description of REs found 253. Group RE: RTBP1 BS /AC: RSP00260//OS: Oryza sativa /GENE: Synthetic OLIGO/RE: RTBP1 BS /TF: unknown 294. Group RE: GCCAAG motif /AC: RSP00307//OS: Hordeum vulgare /GENE: Chi26/RE: GCCAAG motif /TF: unknown 387. Group RE: adjb /AC: RSP00405//OS: Nicotiana tabacum /GENE: RNP2/RE: adjb /TF: unknown 459. Group RE: GC-1 /AC: RSP00481//OS: Zea mays /GENE: Adh1/RE: GC-1 /TF: unknown ||Identical REs AC: RSP00715 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: AGT |LOCUS: AT2G13360 |PROD: serine-glyoxylate aminotransferase-related |complement(5546326..5548396) |SUPPORT | 5 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +412 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.45 G - 0.17 T - 0.22 C - 0.15 1 gaagggcaaa tatgcaaagg taacacaaat gcattgtgag ccatacgtaa 51 gctcaaagat ttttcacgtt gctcttatct gccacgcggc caagattcca 101 ataaggcaag ctacttgATT GGgataaact aaataacaaa ataaactact 151 tacaaaaaca tcatgtaatt taaAATAAAT Aaataaaata aaaaaaagaa 201 AAAGAAGAAG ATATATTAAA GAGGTTTGTG AAGACGAAGG AGTCCAAAAC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00044 Mean Expected Number 0.000 -strand -110 : -120 GGcCGCGTGGC AC RSP00063 Mean Expected Number 0.000 -strand -111 : -120 GCCGCGTGGC AC RSP00073 Mean Expected Number 0.001 +strand -120 : -111 GCCACGcGGC AC RSP00073 Mean Expected Number 0.001 -strand -111 : -120 GCCgCGTGGC AC RSP00153 Mean Expected Number 0.000 +strand -119 : -110 CCACGcGGCC AC RSP00231 Mean Expected Number 0.006 -strand -79 : -85 CCAATCA AC RSP00629 Mean Expected Number 0.005 -strand -137 : -144 AAAAATCT AC RSP00722 Mean Expected Number 0.006 -strand -122 : -128 GATAAGA AC RSP01075 Mean Expected Number 0.000 -strand -111 : -120 gCCGCGTGGC Totally 9 motifs of 8 different REs have been found Description of REs found 43. Group TF: ASF1 /AC: RSP00044//OS: Triticum aestivum /GENE: H3/RE: hex3 /TF: ASF1 62. Group RE: Motif III /AC: RSP00063//OS: Oryza sativa /GENE: rab16B/RE: Motif III /TF: unknown 72. Group TF: TAF-1 /AC: RSP00073//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: PA /TF: TAF-1 ||Identical REs AC: RSP00274 149. Group RE: Box II /AC: RSP00153//OS: Petroselinum crispum /GENE: CHS/RE: Box II /TF: CPRF-1; CPRF-2; CPRF-3; ||Identical REs AC: RSP00154 224. Group RE: CCAAT box 1 /AC: RSP00231//OS: Arabidopsis thaliana /GENE: AGAMAOUS (AG)/RE: CCAAT box 1 /TF: unknown 605. Group TF: CCA1 /AC: RSP00629//OS: Arabidopsis thaliana /GENE: Lhcb1*3/RE: CCA1 BS2 /TF: CCA1 687. Group RE: I-box /AC: RSP00722//OS: Nicotiana plumbaginifolia /GENE: rbcS 8B/RE: I-box /TF: unknown 993. Group TF: CpbZIP1; CpbZIP2 (short) /AC: RSP01075//OS: Craterostigma plantagineum (Scrophulariaceae) /GENE: CpC2/RE: ABRE II /TF: CpbZIP1; CpbZIP2 (short) ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: leucine-rich repeat family protein |LOCUS: AT2G15320 |PROD: the same as GENE |complement(6673398..6674786) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +29 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.14 T - 0.31 C - 0.22 1 gtcacaagat gttaacaaaa aagcaaattt agtagccatt ttagactatt 51 agttcctaat gattgtacaa acatttgatt ttggcttaag ctaagcattg 101 aaccttgtac gtatggagag aggcgaccaa aaggcaaagc cgacctccac 151 cacgtacttt gcctttaTAT AAAGAtttaa cacactttta aagtcttgac 201 ATCATTCATT CACACAAACA CTTCAAACAA TGACTTGCCT TCTTCTTCTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00064 Mean Expected Number 0.004 -strand -43 : -52 AGTACGTGGt AC RSP00075 Mean Expected Number 0.003 -strand -44 : -53 GTACGTGGtG AC RSP00778 Mean Expected Number 0.005 -strand +12 : +3 TGAATGAATG AC RSP01071 Mean Expected Number 0.005 -strand -86 : -95 CAtACGTACA AC RSP01276 Mean Expected Number 0.003 -strand -44 : -51 GTACGTGG AC RSP01687 Mean Expected Number 0.009 -strand -59 : -65 CGGCTTT AC RSP01757 Mean Expected Number 0.002 -strand -1 : -8 GTCAAGAC Totally 7 motifs of 7 different REs have been found Description of REs found 63. Group RE: Motif I /AC: RSP00064//OS: Oryza sativa /GENE: rab16B/RE: Motif I /TF: unknown 74. Group TF: TAF-1 /AC: RSP00075//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: Iwt /TF: TAF-1 733. Group RE: Box III /AC: RSP00778//OS: Arabidopsis thaliana /GENE: AtS1/RE: Box III /TF: unknown 989. Group TF: PvAlf /AC: RSP01071//OS: Arachis hypogea; Phaseolus vulgaris /GENE: Em/RE: Em1c /TF: PvAlf ||Identical REs AC: RSP01153 1175. Group RE: Box III /AC: RSP01276//OS: Petroselinum crispum /GENE: CHS/RE: Box III /TF: unknown 1505. Group RE: CARE E /AC: RSP01687//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE E /TF: unknown 1562. Group TF: B /AC: RSP01757//OS: Glycine max /GENE: a2/RE: BBS /TF: B ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G15580 |PROD: the same as GENE |6804723..6806021 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +46 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.12 T - 0.35 C - 0.20 1 cacatgttta aacaattttc actaacccgt tatttacaca tgtaagagaa 51 aaaaagatag ccaaaaggac ttatagtgtt atctatttaa aaactaaact 101 tgtggtgtct acctaattaa cccatctttg tacgtaCCAA Tatcgctttc 151 ttcaattatt agtaataTAT AAATAtaaat gtttgtagta gctgccggtc 201 ATTTTTTCTT TCTCTCTCTC CTCCCTAAGC AAAACTAAAA CAAGCTATGG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00035 Mean Expected Number 0.009 +strand -139 : -133 CAAAAGG AC RSP00653 Mean Expected Number 0.004 +strand +12 : +22 cTCTCTCTCCT AC RSP00860 Mean Expected Number 0.006 -strand +13 : +5 AGAAAGAAA AC RSP00864 Mean Expected Number 0.002 -strand +19 : +11 AGAGAGAGA AC RSP00865 Mean Expected Number 0.001 -strand +21 : +13 GGAGAGAGA AC RSP00953 Mean Expected Number 0.009 +strand -48 : -40 CAATTATTA AC RSP01175 Mean Expected Number 0.000 +strand -11 : -1 AGCTGCCgGTC AC RSP01469 Mean Expected Number 0.007 -strand -156 : -165 TtACATGTGT Totally 8 motifs of 8 different REs have been found Description of REs found 34. Group RE: D1 /Group TF: Dof family /AC: RSP00035//OS: Hordeum vulgare /GENE: Al21/RE: D1 /TF: Dof family 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 880. Group TF: ATHB6 /AC: RSP00953//OS: Arabidopsis thaliana /GENE: ATHB6/RE: ATHB6 BS /TF: ATHB6 1086. Group TF: Zmhox1a /AC: RSP01175//OS: Zea mays /GENE: Sh/RE: Zmhox1a BS 2 /TF: Zmhox1a 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ROC3 |LOCUS: AT2G16600 |PROD: peptidyl-prolyl cis-trans isomerase |7207889..7208650 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +55 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.08 T - 0.25 C - 0.28 1 tatccagtaa aaaggtagag aaaaaaaaaa cacaatattc tctctctgcc 51 tcggatccac gcaactatta accctagtta gattcaacac taaccacagt 101 taacacgaac ccttTCAATc ttcctccacg tgtcaaaatc aacggtcaca 151 aaaatcattt ccttctcttT ATAAAACact accaaaaccc taatctcttt 201 CACACAATCA CAGAACCTAA TCTTCTTCTC CAATCAATCT CAGAGAAAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00057 Mean Expected Number 0.008 +strand -76 : -67 TCCACGTgTC AC RSP00068 Mean Expected Number 0.003 -strand -67 : -76 GACACGTgGA AC RSP00188 Mean Expected Number 0.002 +strand -76 : -67 TCcACGTGTC AC RSP00204 Mean Expected Number 0.001 -strand -67 : -76 GACACGTGGa AC RSP00340 Mean Expected Number 0.003 +strand -76 : -67 TCCACGTGTC AC RSP00524 Mean Expected Number 0.003 -strand -68 : -74 ACACGTG AC RSP00631 Mean Expected Number 0.005 -strand -103 : -115 TGTGGTTAgTGTT AC RSP00682 Mean Expected Number 0.001 -strand -67 : -76 GaCACGTGGA AC RSP00842 Mean Expected Number 0.001 +strand -151 : -144 CTCGGATC AC RSP00864 Mean Expected Number 0.002 -strand -154 : -162 AGAGAGAGA AC RSP00985 Mean Expected Number 0.001 +strand -125 : -116 AGTTAGaTTC AC RSP01035 Mean Expected Number 0.003 +strand -73 : -67 ACGTGTC AC RSP01255 Mean Expected Number 0.001 -strand -68 : -75 ACACGTGG AC RSP01274 Mean Expected Number 0.005 +strand -76 : -67 TCCACGTgTC Totally 14 motifs of 14 different REs have been found Description of REs found 56. Group TF: ABF /AC: RSP00057//OS: Zea mays /GENE: rab28/RE: ABRE B /TF: ABF 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 182. Group TF: ABI5 /AC: RSP00188//OS: Arabidopsis thaliana /GENE: AtEm1/RE: ABRE/1.2 /TF: ABI5 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 607. Group TF: S2F /AC: RSP00631//OS: Spinacia oleracea /GENE: RPL21/RE: CII /TF: S2F 651. Group TF: GBF3 /AC: RSP00682//OS: Arabidopsis thaliana /GENE: Adh/RE: -214 G-box (core) /TF: GBF3 787. Group RE: dOCT /AC: RSP00842//OS: Zea mays /GENE: H3C4/RE: dOCT /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 906. Group TF: PBP (Myb305) /AC: RSP00985//OS: Antirrhinum majus /GENE: gPAL2/RE: P-box /TF: PBP (Myb305) 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1158. Group TF: GBF1 /AC: RSP01255//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS2 /TF: GBF1 1173. Group RE: ACE 1 /AC: RSP01274//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ADF5 |LOCUS: AT2G16700 |PROD: actin-depolymerizing factor 5 (ADF5) |7251704..7252823 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +95 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.45 G - 0.17 T - 0.24 C - 0.14 1 tattagatat ttatcagaaa aagacaagat ttattagtgc agaacacacg 51 gtgacgttaa tatgccgacg agaaaaagaa caaaaatatt cgtctctaac 101 aaaaaagttt acaagggtga gtttgtaata agagtaaata gtgatcgcat 151 ttgtataggc ataacttttt aTATAAAGAc ctcaaagtct taccatttga 201 ACAGAAAAAA GCTCTCCACG CCTAAAAAAA AAGAAAAAAG AGACAGAAGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00359 Mean Expected Number 0.009 +strand -137 : -132 GCCGAC AC RSP00857 Mean Expected Number 0.003 +strand -8 : +2 CCATtTGAAC AC RSP00918 Mean Expected Number 0.003 +strand -151 : -142 GgTGACGTTA AC RSP01167 Mean Expected Number 0.006 -strand -188 : -196 TAAATATCT AC RSP01654 Mean Expected Number 0.005 +strand -151 : -142 GGTGACGTTA Totally 5 motifs of 5 different REs have been found Description of REs found 344. Group TF: HvCBF1 /AC: RSP00359//OS: Hordeum vulgare /GENE: HVA1s/RE: GCCGAC motif /TF: HvCBF1 ||Identical REs AC: RSP00952 793. Group RE: NON /AC: RSP00857//OS: Zea mays /GENE: H4C7/RE: NON /TF: unknown 849. Group TF: Opaque-2 /AC: RSP00918//OS: Zea mays /GENE: O2/RE: B5-like motif /TF: Opaque-2 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins 1472. Group TF: STF1/HY5 /AC: RSP01654//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: STF1/HY5 BS (cons) /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: GCIP-interacting family protein |LOCUS: AT2G16860 |PROD: the same as GENE |complement(7311002..7313735) |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +694 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.09 T - 0.33 C - 0.18 1 ataaatttcc aaaaacaaaa ttaactttta aaattgtttt ctcttaaaaa 51 aaaatcaaat tgtatactct ggctagaatt aatgtcaaat tccttaaact 101 taccaaaaac aaatgtcaaa ttccttaaaa aatttgttgg cccaagtcaa 151 atttaagagg cccatcTATA ATTAatattt tccaatattt tttctcctct 201 ATTCTTCTCC ACTGAGCGGA GAAAAAAAAA ATCATTATCG TCCGCGAGAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00850 Mean Expected Number 0.004 -strand -60 : -65 GCCAAC AC RSP01195 Mean Expected Number 0.001 +strand -17 : -5 AATATTTTTTCTc Totally 2 motifs of 2 different REs have been found Description of REs found 790. Group RE: CAT /AC: RSP00850//OS: Zea mays /GENE: H4C7/RE: CAT /TF: unknown 1106. Group RE: Region II /AC: RSP01195//OS: Zea mays /GENE: cab-ml/RE: Region II /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G16890 |PROD: the same as GENE |7323971..7326263 |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +49 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.13 T - 0.31 C - 0.17 1 aataatggtt ccctcagttt ggttttcaaa ctcgagtttt agcttaactt 51 gtgtcgatga aaataaactg tacacgtatg tattaaaata tttatttaaa 101 gcaccaacta aaatgttatg ctatttgata atatccaaat aattaaatca 151 atatcacgat tcacttccTA TATATAtagg gcttgcggac cgaacaacat 201 ATCGTGAGAA CTAAGAAACA CCCAAGAAAA CAAACAAACT TTTTAAAAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01288 Mean Expected Number 0.005 -strand -122 : -129 ATACGTGT Totally 1 motifs of 1 different REs have been found Description of REs found 1185. Group RE: Z-DNA-motif /AC: RSP01288//OS: Arabidopsis thaliana /GENE: cab1/RE: Z-DNA-motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: peroxidase, putative |LOCUS: AT2G18150 |PROD: the same as GENE |complement(7899216..7900735) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +67 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.25 G - 0.08 T - 0.40 C - 0.27 1 catttggata ccaaacccaa gatttagtct ctttgatttc aaaccatttt 51 ttcaatacat tgtcattttt taatatatct cttaattgat taaaccccaa 101 tcaagttacc aactctATTG Ccttgctttt tcctcttcat gacgctataa 151 tccacgaacc ctctggccTA TATATActtt cgattcttct tctaatcctt 201 CATATCTCCT ACCATCACAA AGTCATCTCC TTCTTCTTTC TTGATCTAGC 251 T Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G18370 |PROD: the same as GENE |7987711..7988826 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +58 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.05 T - 0.37 C - 0.22 1 ccaaactgac aagaaatctc tataacctaa ctacctagat caaataatat 51 ttatttttaa gtatatcata ccaaaatgtt gaaacttata ttttcatttc 101 actccatcaa cccaaactaa catctactaa ttctcttatt ttaatataaa 151 tttcctagtc cgccaTATAT ATAaacgctt cgtctccact ctacatattt 201 AGCAACAACA AAGAAACCCC TAAGATTTTT ATTTATTTTT TTCTCAATTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01475 Mean Expected Number 0.001 +strand -130 : -122 CCAAAATGT Totally 1 motifs of 1 different REs have been found Description of REs found 1343. Group RE: GCAA-like motif /AC: RSP01475//OS: Oryza sativa /GENE: GluA-3/RE: GCAA-like motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: EMB2444 |LOCUS: AT2G18510 |PROD: pre-mRNA splicing factor, putative |complement(8038264..8040700) |SUPPORT | 9 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +101 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.13 T - 0.30 C - 0.20 1 aaatttcata tcgtttaaca atttaggttt acagttattt gtaaaaccaa 51 ttcccaaaat gattagtaaa aaaaactcaa aatctctaga ctctaaatag 101 gctaaatatc ttaatggata taaaagagct taatgggctt ataggcccat 151 tagagacggc accacTCTAA ATAaacccct ctttcttcac cgtccgttct 201 AACTTCTAGA AAAATCGCCA GAAGTGACGA AATTGAAAAT CTCAGATTTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00377 Mean Expected Number 0.007 +strand -156 : -147 AACCAATtCC AC RSP01167 Mean Expected Number 0.007 +strand -98 : -90 TAAATATCT Totally 2 motifs of 2 different REs have been found Description of REs found 362. Group RE: LS5 /AC: RSP00377//OS: Lemna gibba /GENE: Lhcb2 (cabAB19)/RE: LS5 /TF: unknown 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G19000 |PROD: the same as GENE |8248186..8248866 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +85 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.08 T - 0.32 C - 0.22 1 ttcttagttg cataaaacta ctccgaccaa ttatctagct agtcctctac 51 aattaatcta aaattagaga gctttctcaa ataattgtag tctacctaaa 101 ttttctcATT GCctctttct ttaaatagct taacaaaaat cactggtcac 151 atatgtagtc agagtatgtT ATATATAtgc atatattgaa acatcatcct 201 ATTCAATCTC ACAACAACCA ATCTACACAC AAAACAATAA CAACAACAAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00503 Mean Expected Number 0.001 +strand -166 : -159 CTAGCTAG AC RSP00503 Mean Expected Number 0.001 -strand -159 : -166 CTAGCTAG AC RSP00631 Mean Expected Number 0.002 -strand +45 : +33 TGTtGTTATTGTT AC RSP01469 Mean Expected Number 0.005 +strand -54 : -45 TCACATaTGT Totally 4 motifs of 3 different REs have been found Description of REs found 479. Group TF: RITA-1 /AC: RSP00503//OS: Nicotiana tabacum /GENE: Ntltp1/RE: D1 box /TF: RITA-1 607. Group TF: S2F /AC: RSP00631//OS: Spinacia oleracea /GENE: RPL21/RE: CII /TF: S2F 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G19180 |PROD: the same as GENE |8331798..8333040 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +26 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.12 T - 0.31 C - 0.18 1 aaagaaataa atttaccatc aaaaaagaaa aaaaattgac caaagaaaaa 51 aaaaaattga ccaagaaaaa aaggttattt gtttttctat taattttcta 101 taattggatc ggatctcagg gattcggatc CCAATttgta cccgtttcag 151 tttcacgaac tctgtcatcg ttTATAAATG taaaaaaaat ctcaaacttt 201 CTCTTTCTTG ACTCTCTCTC CTAAAAATGT CTCGATTGCT CTCAAAAACC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00428 Mean Expected Number 0.003 +strand -135 : -124 AAAAAAaGGTTA AC RSP00467 Mean Expected Number 0.003 -strand -138 : -147 TGGTCAATTT AC RSP00467 Mean Expected Number 0.003 -strand -159 : -168 TGGTCAATTT AC RSP00468 Mean Expected Number 0.001 -strand -137 : -147 TTGGTCAATTT AC RSP00468 Mean Expected Number 0.001 -strand -158 : -168 TTGGTCAATTT AC RSP00653 Mean Expected Number 0.002 +strand +12 : +22 cTCTCTCTCCT AC RSP00745 Mean Expected Number 0.001 +strand -132 : -121 aAAAGGTTATTT AC RSP00861 Mean Expected Number 0.001 -strand +8 : -1 AGAAAGAGA AC RSP00865 Mean Expected Number 0.000 -strand +21 : +13 GGAGAGAGA AC RSP01482 Mean Expected Number 0.001 +strand -168 : -158 aAATTGACCAA AC RSP01482 Mean Expected Number 0.001 +strand -147 : -137 aAATTGACCAA AC RSP01517 Mean Expected Number 0.000 -strand -71 : -98 GATCCGAA-- ** bp --CCAAT AC RSP01642 Mean Expected Number 0.005 +strand +25 : +34 AAATGTCTCg Totally 13 motifs of 10 different REs have been found Description of REs found 409. Group TF: Myb26 /AC: RSP00428//OS: Pisum sativum /GENE: Synthetic OLIGO/RE: Myb1 /TF: Myb26 ||Identical REs AC: RSP00919 445. Group RE: ERE1 /AC: RSP00467//OS: Dianthus caryophyylus /GENE: hcbt2/RE: ERE1 /TF: unknown 446. Group RE: ERE2 /AC: RSP00468//OS: Dianthus caryophyylus /GENE: hcbt2/RE: ERE2 /TF: unknown 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 707. Group TF: GT-1 /AC: RSP00745//OS: Nicotiana plumbaginifolia /GENE: Cab-E/RE: box 5 /TF: GT-1 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 1350. Group RE: ERE2 /AC: RSP01482//OS: carnation (Dianthus caryophillus) /GENE: hcbt2/RE: ERE2 /TF: unknown ||Identical REs AC: RSP01483 1368. Group RE: Type III element /AC: RSP01517//OS: Triticum aestivum /GENE: H2B (TH 123)/RE: Type III element /TF: unknown 1462. Group RE: ARE /AC: RSP01642//OS: Nicotiana tabacum /GENE: WIPK/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: MIOX2 |LOCUS: AT2G19800 |PROD: expressed protein |complement(8537986..8540533) |SUPPORT | 11 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +97 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.28 G - 0.16 T - 0.35 C - 0.21 1 attacacgct tctaaaacga gcgtgagttt tggttataac gaagatacgg 51 tgaagtgtga cacctttcta cgttaatttc agtttgagga cacaactcaa 101 gttatgtttg atatctaagg acttgcactg tctccaaatc tgcaggaagg 151 actttttgat tggatcaaTA TAAATAccat ctccattctc gtctccttcc 201 AACAACATCT TTCACACAAC AATTCACACA ATTTCTCGTT TTTTTTTGTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00332 Mean Expected Number 0.009 -strand -21 : -28 ATGGTATT AC RSP00354 Mean Expected Number 0.006 -strand -126 : -133 TAACGTAG AC RSP00509 Mean Expected Number 0.001 +strand -32 : -21 TATAAATACCAt Totally 3 motifs of 3 different REs have been found Description of REs found 318. Group TF: S1F /AC: RSP00332//OS: Spinacia oleracea /GENE: RPL21/RE: S1 /TF: S1F 339. Group RE: GARE1 /AC: RSP00354//OS: Oryza sativa /GENE: Rep-1/RE: GARE1 /TF: unknown 485. Group RE: TATA box /AC: RSP00509//OS: Avena fatua /GENE: alpha-Amy2/A/RE: TATA box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: COV1 |LOCUS: AT2G20120 |PROD: expressed protein, contains Pfam domain |complement(8694435..8696551) |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +149 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.47 G - 0.14 T - 0.27 C - 0.11 1 acgatgaatg tatatgattt caagtagaac aaataaattt ttgatatatt 51 aattcacaac aataaaatta atcttttcat cttttgaaaa taatttgtat 101 acagtaattt gaaacaaaaa ttaatcatgt tataattaag aaaaggataa 151 ataaaagaag acagaTATAA AAAgaaaaat ccaaaaacga cagagagctc 201 AAGTTGGAGT TAGCTAAGCT TAGCTACAAA AGAACAGTCG CCGGCAAAAG 251 T Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: glutaredoxin family protein |LOCUS: AT2G20270 |PROD: the same as GENE |complement(8744786..8746741) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +43 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.16 T - 0.31 C - 0.10 1 tttctttgtt gttgttaatt ttatcatgat gtgtaaataa aaggtcgtaa 51 acttactaga gaaaataaaa actacagaaa tgtattaaaa acaaagaatt 101 ttaaTCAATt cttatgaata tttagttgtt ttattgatat ttataaataa 151 agaacaaaaa atatcggcga TATAAAAAga ggtaaattaa tctgagggca 201 AAAATAAGAA AAGCATCCAA TTTCGTCGGA AGAAGAAATC GCCATGGTAG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00934 Mean Expected Number 0.003 +strand -83 : -74 ATATTTAGTT Totally 1 motifs of 1 different REs have been found Description of REs found 863. Group RE: AT-2b /AC: RSP00934//OS: Pinus sylvestris /GENE: GS1a/RE: AT-2b /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G20670 |PROD: the same as GENE |complement(8918941..8920615) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +62 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.25 G - 0.12 T - 0.36 C - 0.27 1 agctcacgag attagtcatg ctgacatggg aactagctgt cttgagcaat 51 cattcatctc tcagatctta cacgtcctcc aatcacagtt tcacacgtca 101 ccattcgcgg cgccatgtat ctgcttctct gatttctgat aggtcccatt 151 ttattctctc ccacctacta TATAAACTcc catttttcct ttgtttttct 201 TCAACCCAAA CAAAAAAACA TTTTTTCTCT ATAAATCCTT TATTATTGTT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00110 Mean Expected Number 0.003 +strand -109 : -102 CACACGTC AC RSP00142 Mean Expected Number 0.001 -strand -89 : -95 CGCCGCG AC RSP00635 Mean Expected Number 0.002 +strand -59 : -52 GGTCCCAT AC RSP00817 Mean Expected Number 0.004 +strand -132 : -123 TACACGTcCT AC RSP00913 Mean Expected Number 0.000 +strand -181 : -172 GCTGACATGG AC RSP00931 Mean Expected Number 0.009 -strand -58 : -63 CCTATC AC RSP00997 Mean Expected Number 0.006 -strand -99 : -108 GGTGACGTGT AC RSP01007 Mean Expected Number 0.003 -strand -57 : -63 ACCTATC AC RSP01258 Mean Expected Number 0.003 -strand -101 : -108 TGACGTGT AC RSP01654 Mean Expected Number 0.009 -strand -99 : -108 GGTGACGTGT Totally 10 motifs of 10 different REs have been found Description of REs found 108. Group RE: ACGT motif /AC: RSP00110//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: ACGT motif /TF: unknown 138. Group RE: GC-rich motif /AC: RSP00142//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: GC-rich motif /TF: unknown 611. Group RE: NDE Box 3 /AC: RSP00635//OS: Glycine max /GENE: SAUR 15A/RE: NDE Box 3 /TF: unknown 763. Group TF: ACE-binding TF /AC: RSP00817//OS: Arabidopsis thaliana /GENE: CFI/RE: ACE-core (AtCFI) /TF: ACE-binding TF 844. Group TF: Opaque-2 /AC: RSP00913//OS: Zea mays /GENE: b-32/RE: B1 /TF: Opaque-2 860. Group RE: H-box IV /AC: RSP00931//OS: French Phaseolus vulgaris /GENE: CHS/RE: H-box IV /TF: unknown 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 932. Group TF: PtMYB1; PtMYB4 /AC: RSP01007//OS: Pinus sylvestris /GENE: PsGS1b/RE: GS1b AC box 2 (AC-I) /TF: PtMYB1; PtMYB4 1160. Group TF: GBF1 /AC: RSP01258//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS5 /TF: GBF1 1472. Group TF: STF1/HY5 /AC: RSP01654//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: STF1/HY5 BS (cons) /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G21130 |PROD: the same as GENE |complement(9062479..9063313) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +89 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.17 T - 0.25 C - 0.24 1 ggaaataagt aaaaaagtaa attggggttt gcaacattac agagcaacaa 51 cacgtgtcga cctcgggatg gacaattcga gagcatttac cgtggtcaaa 101 aactcaacct aaccacggtt caagaaACAA Tggagatatc gacacgtgtc 151 tcaaTCTAAA TAcccgatga tattatctca cagatattcg cttcctctat 201 AAATATCTTC TCTTCGTCCT CAACAGCTTC TCCAGAAAAT CTAGGTCACA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.005 +strand -197 : -186 AAtAAGTAAAAA AC RSP00143 Mean Expected Number 0.002 +strand -60 : -51 GACaCGTGTC AC RSP00143 Mean Expected Number 0.004 -strand -51 : -60 GACaCGTGTC AC RSP00204 Mean Expected Number 0.002 +strand -60 : -51 GACACGTGtC AC RSP00204 Mean Expected Number 0.002 -strand -51 : -60 GACACGTGtC AC RSP00206 Mean Expected Number 0.001 -strand -20 : -31 GTGAGaTAATAT AC RSP00233 Mean Expected Number 0.007 +strand +40 : +49 TCTAgGTCAC AC RSP00524 Mean Expected Number 0.009 -strand -52 : -58 ACACGTG AC RSP00524 Mean Expected Number 0.009 -strand -144 : -150 ACACGTG AC RSP01035 Mean Expected Number 0.009 +strand -149 : -143 ACGTGTC AC RSP01035 Mean Expected Number 0.009 +strand -57 : -51 ACGTGTC AC RSP01167 Mean Expected Number 0.003 +strand -1 : +8 TAAATATCT AC RSP01190 Mean Expected Number 0.003 +strand -88 : -79 CCACGGTTCA AC RSP01256 Mean Expected Number 0.003 +strand -151 : -144 ACACGTGT AC RSP01256 Mean Expected Number 0.003 +strand -59 : -52 ACACGTGT AC RSP01256 Mean Expected Number 0.003 -strand -52 : -59 ACACGTGT AC RSP01256 Mean Expected Number 0.003 -strand -144 : -151 ACACGTGT AC RSP01296 Mean Expected Number 0.004 +strand -4 : +5 CTATAAATA AC RSP01602 Mean Expected Number 0.006 +strand -52 : -45 TCTCAATC Totally 19 motifs of 12 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 139. Group TF: TRAB1 /AC: RSP00143//OS: Oryza sativa /GENE: Osem/RE: CE3 /TF: TRAB1 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 199. Group TF: GT-1 /AC: RSP00206//OS: Pisum sativum /GENE: rbcS-3A/RE: BOX II* /TF: GT-1 226. Group RE: LS5 /Group TF: TGA2 & NPR1/NIM1 /AC: RSP00233//OS: Arabidopsis thaliana /GENE: PR-1/RE: LS5 /TF: TGA2 & NPR1/NIM1 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins 1101. Group RE: C-box /Group TF: C factor /AC: RSP01190//OS: Nicotiana tabacum /GENE: Adhl/RE: C-box /TF: C factor 1159. Group TF: GBF1 /AC: RSP01256//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS3 /TF: GBF1 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1423. Group RE: Inr /AC: RSP01602//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G21270 |PROD: the same as GENE |9114631..9117342 |SUPPORT | 10 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +576 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.20 T - 0.31 C - 0.20 1 tatctgctca gaattgagag tttcccagta tggtaagttg gtaacgcaca 51 cgtcaatata aagtggtcat gattcctcac tattcgaggc ccaatgggct 101 agtaccgttt tttgtgaagc ccaaactgtt ttacaaagac atgaaTCAAT 151 acgcaccgta tgggTATATA TAtatacaag caacgttatc acaggtcctc 201 AAAGTTTGCA TCTTTACTTG GGTTGTGTCT GGAATCAATT ACTTCCTAAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00110 Mean Expected Number 0.002 +strand -154 : -147 CACACGTC AC RSP01258 Mean Expected Number 0.003 -strand -146 : -153 TGACGTGT Totally 2 motifs of 2 different REs have been found Description of REs found 108. Group RE: ACGT motif /AC: RSP00110//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: ACGT motif /TF: unknown 1160. Group TF: GBF1 /AC: RSP01258//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS5 /TF: GBF1 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G21655 |PROD: the same as GENE |9270617..9271178 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +47 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.49 G - 0.13 T - 0.30 C - 0.08 1 aaattgaaat gcattaaaga ataatattta taagggtata aaacgtcaaa 51 agatgtaaat tatgttgata actaataaga tattgttggt gagagataaa 101 taaaaaaaga tgttattttt actattaaag agttactaaa taataatgtt 151 aatgaacatt cgacacTATA AATAcacgca taaatcctca ttggtaaaac 201 AAAAACAAAG AAAATCAATT AAGAATAAAA TATCAAAATA TTTTAAAATG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00615 Mean Expected Number 0.010 -strand -108 : -113 CTCACC AC RSP00932 Mean Expected Number 0.001 +strand -63 : -48 AAATAATAaTGTTAAT AC RSP01301 Mean Expected Number 0.001 +strand -35 : -26 CTATAAATAC AC RSP01632 Mean Expected Number 0.001 -strand -182 : -192 CTTTAATGCAT Totally 4 motifs of 4 different REs have been found Description of REs found 591. Group RE: C-rich GG1 /AC: RSP00615//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: C-rich GG1 /TF: unknown 861. Group RE: AT-1 /AC: RSP00932//OS: Pinus sylvestris /GENE: GS1a/RE: AT-1 /TF: unknown 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 1452. Group RE: TERE /AC: RSP01632//OS: Arabidopsis thaliana /GENE: At5g51890/RE: TERE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ATGRP7 |LOCUS: AT2G21660 |PROD: glycine-rich RNA-binding protein (GRP7) |complement(9272329..9273453) |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +57 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.11 T - 0.30 C - 0.27 1 gcatcgtcgt ctttccattt gcgcattaaa ccaaaaagtg tcacgtgata 51 tgtccccaac cactacgaat tttaactaca gatttaacca tggttaaacc 101 agaattcacg taaaccgact ctaaacctag aaaatatcta aaccttggtt 151 aatatctcag ccccctTATA AATAacgaga cttcgtctac atcgttctac 201 ACATCTCACT GCTCACTACT CTCACTGTAA TCCCTTAGAT CTTCTTTTCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00892 Mean Expected Number 0.005 +strand -52 : -44 TTAATATCT AC RSP00947 Mean Expected Number 0.008 +strand -54 : -48 GGTTAAT AC RSP00966 Mean Expected Number 0.001 +strand -161 : -152 GtCACGTGAT AC RSP01013 Mean Expected Number 0.009 -strand -180 : -189 CAAATGGAaA AC RSP01435 Mean Expected Number 0.001 +strand -148 : -139 TCCCCAACCA AC RSP01699 Mean Expected Number 0.007 +strand -158 : -152 ACGTGAT Totally 6 motifs of 6 different REs have been found Description of REs found 824. Group TF: Dof family /AC: RSP00892//OS: Solanum melongena /GENE: SmCP/RE: EE 2 /TF: Dof family 876. Group TF: GT-2 /AC: RSP00947//OS: Oryza sativa /GENE: PHYA/RE: GT1-bx /TF: GT-2 889. Group RE: G-box /Group TF: GBF /AC: RSP00966//OS: Antirrhinum majus /GENE: pallida/RE: G-box /TF: GBF 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 1308. Group TF: RNFG2 /AC: RSP01435//OS: Oryza sativa /GENE: RSs1/RE: BoxII /TF: RNFG2 1510. Group RE: CARE B1 /AC: RSP01699//OS: Arabidopsis thaliana /GENE: At2g21640/UPOX/RE: CARE B1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G22122 |PROD: the same as GENE |9410344..9410888 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +98 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.14 T - 0.30 C - 0.18 1 tttttaacta ttttaaattc ggcgaaatgg gtcaaagtca gacaatgaat 51 cgattaaagt taaggaaaat aaaaaaattc aagggataaa gagaatgagc 101 atggagaagc ataatgatga gaatggaatc atatccaacg gccataaagc 151 ataagtcctt tctcTATAAA TTacgacaac ttctcttcat cattataacc 201 AAACTCATCC TTCACTTCAT TATTCCTTTA ACCACACATT CTCTTTGTTC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00255 Mean Expected Number 0.001 +strand +3 : +11 ACTCATCCT AC RSP00445 Mean Expected Number 0.009 -strand +49 : +40 AAcAAAGAGA AC RSP00534 Mean Expected Number 0.001 +strand -90 : -78 ATAATGATGAgAA AC RSP01497 Mean Expected Number 0.001 -strand -59 : -68 GCCGTtGGAT Totally 4 motifs of 4 different REs have been found Description of REs found 248. Group RE: ACTCAT motif /AC: RSP00255//OS: Arabidopsis thaliana /GENE: ProDH/RE: ACTCAT motif /TF: unknown 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 510. Group RE: LRE-TATA O2 /AC: RSP00534//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: LRE-TATA O2 /TF: unknown 1359. Group RE: CS5 /AC: RSP01497//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS5 /TF: unknown ||Identical REs AC: RSP01498 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G22475 |PROD: the same as GENE |9548481..9552090 |SUPPORT | 4 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +122 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.44 G - 0.12 T - 0.27 C - 0.17 1 tcaaaacatc aaaggtattg atcttacata gaaaaaaaca tagactctta 51 tgttcatgtc cctattgatc ttagtcatac ctcataattg tctaacaaag 101 aaaatcaaag gtatcataat tatcatcata tgtaatgtag ggaacaaatc 151 tgtatttact ggTATATATA tataacacaa aaaaaattac caaagaaaaa 201 AAAAGAGCAA AGGGAACGAT ACCATTAGTC CCAATACCAA TCCTTGCAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00509 Mean Expected Number 0.001 -strand -31 : -42 TATAtATACCAG Totally 1 motifs of 1 different REs have been found Description of REs found 485. Group RE: TATA box /AC: RSP00509//OS: Avena fatua /GENE: alpha-Amy2/A/RE: TATA box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G24440 |PROD: the same as GENE |10398169..10400326 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +35 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.19 T - 0.30 C - 0.17 1 cacgcctttt attatcacag cgaccataat cgaacagtgt cagtgtcttt 51 attattcatc agttaatctt gactgtccat taaaaatttg atgacgtgtc 101 cttccaaggt aacttttaac cttctaacgt ctttttaact aaagtaaaag 151 taaaaaTATA AAAAaagtga aatatctaga gagagacaga gagcccattt 201 GGTGCGGAGG TTGACAGAGC TTTAGTTCCG TACAAATGGC GAGTAAGAAG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.006 +strand -56 : -45 tAAAAGTAAAAA AC RSP00022 Mean Expected Number 0.006 -strand -186 : -194 ATAATAAAA AC RSP00460 Mean Expected Number 0.005 -strand -101 : -110 GACAcGTCAT AC RSP00741 Mean Expected Number 0.001 -strand -76 : -87 AgAAGGTTAAAA AC RSP00864 Mean Expected Number 0.001 +strand -23 : -15 AGAGAGAGA AC RSP00916 Mean Expected Number 0.003 +strand -111 : -102 GATGACGTGT AC RSP00987 Mean Expected Number 0.005 +strand -183 : -174 CAGCgACCAT AC RSP00997 Mean Expected Number 0.003 +strand -111 : -102 GATGACGTGT AC RSP01035 Mean Expected Number 0.008 +strand -107 : -101 ACGTGTC AC RSP01258 Mean Expected Number 0.003 +strand -109 : -102 TGACGTGT AC RSP01640 Mean Expected Number 0.007 -strand -10 : -19 CTcTGTCTCT AC RSP01654 Mean Expected Number 0.007 +strand -111 : -102 GATGACGTGT AC RSP01658 Mean Expected Number 0.000 +strand -111 : -100 GATGACGTGTCc AC RSP01767 Mean Expected Number 0.009 +strand -120 : -112 TAAAAATTT Totally 14 motifs of 14 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 21. Group TF: PCF1 /AC: RSP00022//OS: Pisum sativum /GENE: petE/RE: A/T-rich BOX1 /TF: PCF1 438. Group TF: O2 /AC: RSP00460//OS: coix /GENE: alpha-coixin/RE: O2d /TF: O2 703. Group RE: box 1 /Group TF: GT-1 /AC: RSP00741//OS: Nicotiana plumbaginifolia /GENE: Cab-E/RE: box 1 /TF: GT-1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 908. Group RE: H-box-like motif /AC: RSP00987//OS: Antirrhinum majus /GENE: CHS/RE: H-box-like motif /TF: unknown 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1160. Group TF: GBF1 /AC: RSP01258//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS5 /TF: GBF1 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown 1472. Group TF: STF1/HY5 /AC: RSP01654//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: STF1/HY5 BS (cons) /TF: STF1/HY5 1476. Group TF: HY5 /AC: RSP01658//OS: Arabidopsis thaliana /GENE: SAUR-AC1-like (At4g38810)/RE: C/G-box /TF: HY5 1570. Group RE: AT-rich element /AC: RSP01767//OS: Zea mays /GENE: Bz1/RE: AT-rich element /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: WRKY60 |LOCUS: AT2G25000 |PROD: WRKY family transcription factor |10636829..10638485 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +62 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.12 T - 0.34 C - 0.18 1 taaaaacttt taaaggtttt aaagaaagtt tatgagaatt tacaagaatt 51 gtaaaagatt tataataatt tttttagaat tagaaaggag accctcattt 101 tccacccaaa tcgtcaacct tctcataATT GAcaagttat tacactctct 151 ccacttacta gttacTATAA AACcaaagga gaccaaatct cttagcaatt 201 ATGAATTTGG TCTTCGCTAT AATCTCACGT TACATTAAAT TGGCTCCTGT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00029 Mean Expected Number 0.007 +strand -151 : -144 TGTAAAAG Totally 1 motifs of 1 different REs have been found Description of REs found 28. Group RE: P-box 1 /AC: RSP00029//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: protein phosphatase 2C, putative / PP2C, putative |LOCUS: AT2G25070 |PROD: the same as GENE |complement(10670319..10673043) |SUPPORT | 10 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +598 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.14 T - 0.34 C - 0.15 1 gctgtttaca atgacgatta cacacattct taaagctgtg atgacgaatc 51 agagaaagct ttaaacagct gtaaagatta cacatctcaa gttttagtta 101 agtaagttat taacaagaaa aagttttgaa aaaagtaaag acctttaata 151 gttttctttt ctcggacaaa acAATAAATA aaaagaacac acttttttta 201 TCTTTTGTCC TTAGGATTTG ATTGTACATA CATCTGATCT CAAGTGATTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00441 Mean Expected Number 0.009 -strand -3 : -12 AAaAAAGTGT AC RSP01618 Mean Expected Number 0.000 +strand -177 : -164 ACaTTCTTAAAGCT Totally 2 motifs of 2 different REs have been found Description of REs found 421. Group TF: Dof1 /AC: RSP00441//OS: Zea mays /GENE: cyPPDK1/RE: box a /TF: Dof1 1438. Group TF: GmDof4 /AC: RSP01618//OS: Glycine max /GENE: Synthetic OLIGO/RE: E1 /TF: GmDof4 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G25510 |PROD: the same as GENE |10863505..10864234 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +345 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.12 T - 0.34 C - 0.20 1 cttttcacca aataatacaa caaaaacttc gagactcata aaataagtga 51 tccaactaag tcgtcgatga ctataagctt ttaagtctct cgctagactg 101 tccacagatt tcttcatctt ctttgtctct tagcctttct atattatcca 151 ccatatcTTT AAATTtcttt tataatttgc tgtatagcct atataaatgc 201 ATAACCATGA GTGACACTAA TAAGCAAAAT AAGAGGGAAT ATTAAGATGA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00642 Mean Expected Number 0.009 +strand -7 : +1 TAAATGCA AC RSP01640 Mean Expected Number 0.006 +strand -80 : -71 CTtTGTCTCT Totally 2 motifs of 2 different REs have been found Description of REs found 617. Group RE: L1-box /AC: RSP00642//OS: Arabidopsis thaliana /GENE: PDF1/RE: L1-box /TF: unknown 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: DNA-binding storekeeper protein-related |LOCUS: AT2G25650 |PROD: the same as GENE |10921664..10923294 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +179 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.16 T - 0.33 C - 0.20 1 attttctgtt gcaggcaaca ctgctttcca aattttgtga ttttctctca 51 acagtcaccg atatttggca ctttattagt aagatgggct tgcgcagccc 101 gctaatatAT TGCtcctttc tgtaacaaaa agtacaaaag taacaaaatc 151 cactcctatc gattatacTA TAAAACagaa gtgcagagaa aatttcagtc 201 ATGATATTTT TTGACCAGCT CGATTCAGAA ATTTGGAAAG ACTAGCTTTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.003 +strand -74 : -63 AAAAAGTAcAAA Totally 1 motifs of 1 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G25670 |PROD: the same as GENE |complement(10935742..10938135) |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +438 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.12 T - 0.34 C - 0.22 1 taagtatttt actattttcc caatttgaat cctttgtatt tccaatagtt 51 tcttttaacc cccagaaatg tttgggctaa actgtatcat cctaaaacac 101 attgatcaaa accaagaaaa cataaATTGT taggtatcaa aacgtaaatt 151 aacataacca aTATAAATTc agagacacga gctttttaat ggcttctctc 201 CTCGCGTTAT CTCCTTTTGT CGATTTAGCC CTAACCTATA CGGCTGCTAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00489 Mean Expected Number 0.003 -strand -65 : -74 TACCTAaCAA AC RSP00716 Mean Expected Number 0.003 +strand -94 : -86 CAAAACCAA AC RSP01008 Mean Expected Number 0.005 -strand -66 : -72 ACCTAAC AC RSP01086 Mean Expected Number 0.005 -strand -53 : -62 TTTACGTTTt AC RSP01641 Mean Expected Number 0.002 -strand -21 : -30 TCgTGTCTCT Totally 5 motifs of 5 different REs have been found Description of REs found 465. Group RE: UVLRE2 /AC: RSP00489//OS: Glycine max /GENE: chs1/RE: UVLRE2 /TF: unknown 681. Group RE: GT motif /AC: RSP00716//OS: Arabidopsis thaliana /GENE: Adh/RE: GT motif /TF: unknown 933. Group TF: PtMYB1; PtMYB4 /AC: RSP01008//OS: Pinus sylvestris /GENE: PsGS1b/RE: GS1b AC box 3 (AC-III) /TF: PtMYB1; PtMYB4 ||Identical REs AC: RSP01455 1004. Group TF: bZIP TF /AC: RSP01086//OS: Helianthus annuus /GENE: sHSP/RE: bZIP BS /TF: bZIP TF 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: patatin, putative |LOCUS: AT2G26560 |PROD: the same as GENE |complement(11300847..11302881) |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +95 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.16 T - 0.25 C - 0.19 1 gaagtaaaga ggctcacgaa aagtccatgt tgtctacaaa ggaagaaaca 51 agaaccaata gaattagagt tcaaaccaaa ggacgaagta tgcaagttaa 101 tttgacaagc taatatccta agaatgaaga catggtctaa ctttgaaaca 151 gcagccacta gtgtccTATA AATAcataga gttcattaac ctctcataat 201 ATCTCACAAT CAAAGTTCTA TCTCCTCAAG TATCAATACA TTGATATCCA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00440 Mean Expected Number 0.001 -strand -175 : -183 GGACTTTTC AC RSP00442 Mean Expected Number 0.006 +strand -63 : -54 TAACTTTGaA AC RSP00653 Mean Expected Number 0.001 +strand +16 : +26 TTCTaTCTCCT AC RSP01296 Mean Expected Number 0.008 +strand -35 : -27 CTATAAATA AC RSP01301 Mean Expected Number 0.001 +strand -35 : -26 CTATAAATAC AC RSP01600 Mean Expected Number 0.007 -strand -53 : -60 TTTCAAAG Totally 6 motifs of 6 different REs have been found Description of REs found 420. Group RE: -NF-kB-box /AC: RSP00440//OS: Arabidopsis thaliana /GENE: PR-1/RE: -NF-kB-box /TF: unknown 422. Group TF: Dof1 /AC: RSP00442//OS: Zea mays /GENE: cyPPDK1/RE: box b /TF: Dof1 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: 60S acidic ribosomal protein P2 (RPP2B) |LOCUS: AT2G27710 |PROD: the same as GENE |11823849..11824944 |SUPPORT | 4 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +157 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.14 T - 0.29 C - 0.22 1 tataaagttt gcaaaagaaa taggttttta ttgactgaag aattgagaaa 51 ttttctcatc acctttaaaa ttaatattgg gcctagcgat gaaccgggcc 101 aacgcccatt aaacatatcc gataatagtt taaacccgga gagactcaaa 151 gtagagaaaa ccctaattgt aTATAAACTa aaaatacttc cttaattctt 201 CACTTCTTCA TCGCCGTCTG CACAAAACCC TAATCTCACA ATCTCCTACG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00211 Mean Expected Number 0.006 +strand -38 : -28 CTAATTGTaTA AC RSP00279 Mean Expected Number 0.004 -strand +33 : +25 TTAGGGTTT AC RSP00279 Mean Expected Number 0.004 -strand -35 : -43 TTAGGGTTT AC RSP00369 Mean Expected Number 0.004 +strand -43 : -35 AAACCCTAA AC RSP00369 Mean Expected Number 0.004 +strand +25 : +33 AAACCCTAA AC RSP00961 Mean Expected Number 0.005 +strand -191 : -184 TGCAAAAG AC RSP01303 Mean Expected Number 0.009 +strand -44 : -35 aAAACCCTAA AC RSP01303 Mean Expected Number 0.009 +strand +24 : +33 aAAACCCTAA Totally 8 motifs of 5 different REs have been found Description of REs found 204. Group TF: HD /AC: RSP00211//OS: Petroselinum crispum /GENE: pr2/RE: HD-BS /TF: HD 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 886. Group TF: BPBF /AC: RSP00961//OS: Hordeum vulgare /GENE: ITR1/RE: PB1 /TF: BPBF 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: 60S acidic ribosomal protein P2 (RPP2A) |LOCUS: AT2G27720 |PROD: the same as GENE |11825568..11826655 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +205 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.16 T - 0.31 C - 0.17 1 aggtgctata gaagacgagg ttagaggtga aatcccatcc atcaaacaaa 51 ataaaactag agaattgtat aatctggtcg ttctcttctc aacatcaata 101 ttacccgTCA ATcgaaatat tgagcccata taaatatggg cttgaaagaa 151 ctgggcctaa ataaaatTTT AAATTcggag atacattgat aagattaaaa 201 ACCCTAAGCG TATATAAATC ATATAGTTTT CATTTTTTCG TACTTCTTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.002 -strand +7 : -2 TTAGGGTTT AC RSP00369 Mean Expected Number 0.002 +strand -2 : +7 AAACCCTAA AC RSP01303 Mean Expected Number 0.005 +strand -3 : +7 aAAACCCTAA AC RSP01458 Mean Expected Number 0.004 -strand -27 : -39 ATTTAAAAtTTTA Totally 4 motifs of 4 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1328. Group RE: AT-rich ELS /AC: RSP01458//OS: Glycine max /GENE: BiP9/RE: AT-rich ELS /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: auxin-responsive family protein |LOCUS: AT2G28085 |PROD: the same as GENE |complement(11975197..11975697) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +64 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.09 T - 0.31 C - 0.24 1 aaatgaaaac aaattttcaa cttaagaaat ggaaaccgct gtcatggaaa 51 attcaaaaga aggcaaatta agcaaccaac gcagccacat gctttggtct 101 cccttactca cttctccttc ttatttcttc ctcttctttc ttatcctctt 151 tgtaccattc ctactTATAT ATActccttc ttacatgtct atattcgaac 201 ATATACTTTT CAAACAAACA AAAAAAAACC TCAAAAAAAG GAAAATATCA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01033 Mean Expected Number 0.004 -strand +41 : +32 CCTTTTTTTG Totally 1 motifs of 1 different REs have been found Description of REs found 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G28305 |PROD: the same as GENE |12088190..12091741 |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +73 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.11 T - 0.35 C - 0.17 1 tcttaaccat ttctaatcta tttattatgg aagaatgtca aactcgtgtt 51 ataaaaaaaa gaatgtcaaa ctcatgtagc cactatttat ttattttaaa 101 agtttctttt tatgatatta ctattaggaa gcgtatgagc taggtatata 151 ccccaccgcc caatattcTA TATATAtgag caaagaacat tcataccaac 201 ATCACAACGA GAAAGATAGA TTCATCTTTC AATCTTTTTT TATCTTAAAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01030 Mean Expected Number 0.010 -strand -94 : -101 AGAAACTT Totally 1 motifs of 1 different REs have been found Description of REs found 955. Group TF: AEF /AC: RSP01030//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 1 /TF: AEF ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: LCR5 |LOCUS: AT2G28355 |PROD: expressed protein |12126397..12127331 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +68 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.12 T - 0.33 C - 0.12 1 taagtagtgt gttgttttaa tttaattaaa aaatatttat agtgaaggag 51 aaagcaggag cgagtttaaa gctctaagcc tctaacctat ataagaaata 101 tttaaggtca aactagatcc ctaaattcag acatatagct taaaatagaa 151 acatccaatt gatTATAAAT Atcaccacat tttgttaagt taaaaaaact 201 ATATAAAAAA AAAACTTATT TTGTTCATTC TTTTAAGTTT AAAAACAGTC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00535 Mean Expected Number 0.001 +strand -123 : -108 GCCT-- +6 bp --TATATA AC RSP01296 Mean Expected Number 0.009 -strand -159 : -167 CTATAAATA Totally 2 motifs of 2 different REs have been found Description of REs found 511. Group RE: LRE-TATA AA1 /AC: RSP00535//OS: Lycopersicon esculentum /GENE: rbcS3C/RE: LRE-TATA AA1 /TF: unknown 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G28410 |PROD: the same as GENE |12163207..12164006 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +72 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.10 T - 0.29 C - 0.22 1 caaaagattt caggaccatg gaaacagaga aaaagtaaaa attatgttgg 51 gaaaaggtag agaaatcatg agaaatcata ttgttccctt atgtaaatgt 101 cttatctttt tcacccacca gattattatt aTCAATccca agcaacaacc 151 actttatttc acatcacctT ATAAATAcca actttcttca tagtctcaac 201 AAATACACTA CACTACTCAA CTTATAACCT TTCTACACTT TCAAGAAACC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.009 +strand -171 : -160 AAAAAGTAAAAA AC RSP00227 Mean Expected Number 0.003 -strand -93 : -101 AAGATAAGA AC RSP00254 Mean Expected Number 0.005 -strand -144 : -150 CCTTTTC AC RSP00331 Mean Expected Number 0.004 -strand -176 : -184 GTTTCCATG AC RSP00509 Mean Expected Number 0.003 +strand -31 : -20 TATAAATACCAa AC RSP00792 Mean Expected Number 0.000 +strand -63 : -54 CCAAGCAACA Totally 6 motifs of 6 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 220. Group TF: GT-1 /AC: RSP00227//OS: Pisum sativum /GENE: rbcS-3A/RE: BOX III* /TF: GT-1 247. Group RE: Py box /AC: RSP00254//OS: Hordeum vulgare /GENE: Amy pHV19/RE: Py box /TF: unknown ||Identical REs AC: RSP00676 317. Group TF: S1F /AC: RSP00331//OS: Spinacia oleracea; Pisum sativum; Arabidopsis thaliana; /GENE: prs 1 and RPL21 (spinach), rbcS-3a (pea, tomato, Arabidopsis),/RE: S1, consensus /TF: S1F 485. Group RE: TATA box /AC: RSP00509//OS: Avena fatua /GENE: alpha-Amy2/A/RE: TATA box /TF: unknown 745. Group RE: DAE /AC: RSP00792//OS: Hordeum vulgare /GENE: Amy32b/RE: DAE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ATEXPA6 |LOCUS: AT2G28950 |PROD: expansin, putative (EXP6) |complement(12438418..12440672) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +113 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.12 T - 0.30 C - 0.20 1 ggatttgtac gcatgacttt ttttacacat acaaataatt gtaaaacttt 51 tgtcaaaaac ccaaatcgtg tttagtaatc tctattcata agctagagaa 101 ctatgacccc tagaggttaa acttttgtaa tgataaagaa agagaataat 151 acaaagcaag agaAATAAAT Aaatgcttaa gtcccaattt atatatagtc 201 ACCTCTCTAT ACCCTTCCCT ACACACATGG AGACACTCCA ATAAACTCTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00861 Mean Expected Number 0.001 +strand -64 : -56 AGAAAGAGA AC RSP01013 Mean Expected Number 0.005 +strand +24 : +33 CAcATGGAGA AC RSP01621 Mean Expected Number 0.008 +strand -83 : -74 TAaACTTTTG Totally 3 motifs of 3 different REs have been found Description of REs found 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 1441. Group TF: GmDof4; GmDof22 /AC: RSP01621//OS: Glycine max /GENE: Synthetic OLIGO/RE: E4 /TF: GmDof4; GmDof22 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ATGSTU7 |LOCUS: AT2G29420 |PROD: glutathione S-transferase, putative |complement(12625013..12625976) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +28 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.14 T - 0.31 C - 0.23 1 agcagactca tctcctaggt tcccacaccc cttaacttat ttgaccaaac 51 ctttcttcat ttaaacaact caacttcaat ctctatcttc cgatgtggga 101 caaagtgctt tcttactgaa gcatttATTG Taacttgttc gtcactggtg 151 acgtcaccat tctttctTAT AAATAaatca taacctatta accttagtcc 201 ATAAAGAAGA AGAAGCTAAC GAAAAATAAT GGCGGAGAGA TCAAATTCAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01014 Mean Expected Number 0.009 -strand -138 : -147 tAAATGAAGA AC RSP01654 Mean Expected Number 0.004 +strand -54 : -45 GGTGACGTCA AC RSP01654 Mean Expected Number 0.009 -strand -43 : -52 GGTGACGTCA AC RSP01680 Mean Expected Number 0.000 -strand -100 : -110 GTCCCACATCG AC RSP01730 Mean Expected Number 0.000 +strand -54 : -43 GGTGACGTCACC AC RSP01730 Mean Expected Number 0.000 -strand -43 : -54 GGTGACGTCAcC Totally 6 motifs of 4 different REs have been found Description of REs found 939. Group TF: GAPF /AC: RSP01014//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 2 /TF: GAPF 1472. Group TF: STF1/HY5 /AC: RSP01654//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: STF1/HY5 BS (cons) /TF: STF1/HY5 1498. Group TF: PpSBP2 /AC: RSP01680//OS: Arabidopsis thaliana; Glycine max /GENE: U2 & U5 (At); U1a & U1b (Gm)/RE: -80 element (cons) /TF: PpSBP2 1538. Group TF: STF1/HY5 /AC: RSP01730//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: CRE (G/A): /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ATGSTU5 |LOCUS: AT2G29450 |PROD: glutathione S-transferase (103-1A) |complement(12631663..12632711) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +68 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.13 T - 0.24 C - 0.20 1 cttactaaaa aagagataaa aaaaaattat aaagggaacg ttataaatat 51 gttgtaaagt caacatctgt ttccttctag actcttcgca tttacatcac 101 actgccgacc atataaaacg gcaaagttcg tcgtcgtttt atcacaagac 151 catcaacacc ataaggcTAT AAATCcaagc taaaaggtag tgattaactc 201 CACAAAACCA GAAAAAACTA CATTTCTAAC ATATAGAAGA AACAGAGAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00445 Mean Expected Number 0.005 +strand -194 : -185 AAAAAAGAGA AC RSP00495 Mean Expected Number 0.005 +strand -148 : -141 TGTAAAGT AC RSP00918 Mean Expected Number 0.009 -strand -137 : -146 GTTGACTTTA AC RSP00933 Mean Expected Number 0.001 -strand -168 : -180 TTTATAATTTTTT Totally 4 motifs of 4 different REs have been found Description of REs found 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 471. Group RE: P-box 2 /AC: RSP00495//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 2 /TF: unknown ||Identical REs AC: RSP00686 849. Group TF: Opaque-2 /AC: RSP00918//OS: Zea mays /GENE: O2/RE: B5-like motif /TF: Opaque-2 862. Group RE: AT-2a /AC: RSP00933//OS: Pinus sylvestris /GENE: GS1a/RE: AT-2a /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G29500 |PROD: the same as GENE |complement(12640180..12640882) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +65 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.13 T - 0.29 C - 0.22 1 tatttgtcta aagcccatga aggcccatta aacccaacga acacaaacaa 51 tcttcaaaat gctcctagaa ttttctggat tcacctgatt tttctcatag 101 acgtcctcta gatgtttctg tattccccat aacaactcga gaagctcgag 151 aaatttcggt tagtaccTTT AAATAgcttc aaaaatcctt cgtgtgttct 201 ATCAGAAATC GAAAAATCAA AGTTCTCAAG AAGATATCAA CAAAAAAAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00735 Mean Expected Number 0.006 -strand -108 : -115 AAAAATCA AC RSP01016 Mean Expected Number 0.005 -strand -82 : -89 AGAAACAT Totally 2 motifs of 2 different REs have been found Description of REs found 698. Group TF: DET1; CCA1 /AC: RSP00735//OS: Arabidopsis thaliana /GENE: CAB2/RE: CCA1 BS /TF: DET1; CCA1 941. Group TF: AEF /AC: RSP01016//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 1 /TF: AEF ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: TUB7 |LOCUS: AT2G29550 |PROD: tubulin beta-7 chain (TUB7) |complement(12651124..12653114) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +105 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.09 T - 0.37 C - 0.27 1 gtcattcaca cgaacatatt tttttacgaa attcaaaaaa actttttatc 51 acgagccatt aatttttgaa ttttgccacc cgttgccacc tcgatttacg 101 tggcattatc taaaccgtcg attcgatttc gaattaccaa atattagccg 151 ttaaaacctc cttttcttTA TAAATGgacc ctcctcttct tctctctctc 201 ATAAAACAAA AGATCCTCTC TGCTTCTCCT TTCCCTTTTT CAAAATCTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00043 Mean Expected Number 0.000 +strand -104 : -97 TACGTGGC AC RSP00051 Mean Expected Number 0.001 -strand -97 : -106 GCCACGTAaA AC RSP00132 Mean Expected Number 0.003 +strand -116 : -109 GCCACCTC AC RSP00247 Mean Expected Number 0.002 -strand -97 : -106 GCCACGTAAa AC RSP00864 Mean Expected Number 0.009 -strand -2 : -10 AGAGAGAGA AC RSP01034 Mean Expected Number 0.001 +strand -103 : -97 ACGTGGC AC RSP01104 Mean Expected Number 0.009 +strand -47 : -40 AAACCTCC Totally 7 motifs of 7 different REs have been found Description of REs found 42. Group TF: TAF-1 /AC: RSP00043//OS: Oryza sativa /GENE: rab16A-D/RE: Motif I core /TF: TAF-1 50. Group RE: A3 /AC: RSP00051//OS: Hordeum vulgare /GENE: HVA22/RE: A3 /TF: unknown 130. Group TF: ROM1; ROM2 /AC: RSP00132//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: vicilin box /TF: ROM1; ROM2 240. Group TF: REB /AC: RSP00247//OS: Oryza sativa /GENE: alpha-globulin/RE: REB1 /TF: REB ||Identical REs AC: RSP00738 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1022. Group RE: AC2 /AC: RSP01104//OS: Spinacia oleracea /GENE: rps22/RE: AC2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G29995 |PROD: the same as GENE |complement(12803987..12806496) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +76 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.19 T - 0.32 C - 0.11 1 atttttaaaa tttttgttaa agttaattct aaagtatttg gggggtttac 51 gtcaatcttg gcatacctac caaatgtaaa tgcatcatgt tgttaaaaaa 101 aagcaaaata tgtcttaaaa tgttataaag ttatgcgctt gaagcaacta 151 taataaataa aaaaagTATA TATAatttaa caaagtcttc gagactaaag 201 GCCGGTGTGA GACGTTTTGT GGCGTCTATA AATATACAAG AGGTGAGAGA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00112 Mean Expected Number 0.003 -strand -147 : -154 TGACGTAA AC RSP00163 Mean Expected Number 0.004 -strand +1 : -10 CCTTTaGTCTC AC RSP00489 Mean Expected Number 0.003 +strand -137 : -128 TACCTACCAA AC RSP00680 Mean Expected Number 0.008 +strand -23 : -14 TAACAaAGTC AC RSP01296 Mean Expected Number 0.007 +strand +26 : +34 CTATAAATA AC RSP01453 Mean Expected Number 0.002 +strand -136 : -130 ACCTACC AC RSP01657 Mean Expected Number 0.000 -strand -145 : -156 aTTGACGTAAAC Totally 7 motifs of 7 different REs have been found Description of REs found 110. Group RE: TGA1 /AC: RSP00112//OS: Glycine max /GENE: GH3/RE: TGA1 /TF: unknown 158. Group TF: ARF1 /AC: RSP00163//OS: Glycine max /GENE: Synthetic OLIGO/RE: DR5 /TF: ARF1 465. Group RE: UVLRE2 /AC: RSP00489//OS: Glycine max /GENE: chs1/RE: UVLRE2 /TF: unknown 649. Group RE: GARE/Box 2 /AC: RSP00680//OS: Hordeum vulgare /GENE: Amy32b/RE: GARE/Box 2 /TF: unknown 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1324. Group RE: AC-I /Group TF: PtMYB4 /AC: RSP01453//OS: Pinus taeda /GENE: Synthetic OLIGO/RE: AC-I /TF: PtMYB4 1475. Group TF: HY5 /AC: RSP01657//OS: Arabidopsis thaliana /GENE: MP/ARF5 (At1g19850)/RE: C/A-box /TF: HY5 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ASL5 |LOCUS: AT2G30130 |PROD: |12875707..12876801 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +110 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.10 T - 0.30 C - 0.20 1 tgagaagaac aagaaaaact aagaataggt gttttcatat ttaggttaaa 51 taataaaaca tttaaagtta agacattaat tataacacac aaaaaattaa 101 agttggaatt aaatgaacac atgtgaacac caacctcgct ctctctagaa 151 agccttcaaa accctatTAT AAATAcacac ctctcaaact ctctcccttt 201 AACTCTAAGT TTTTCTTTCT TCTTTCTCTG CTCTCAAAGC TCAAGAGAAC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00860 Mean Expected Number 0.002 -strand +20 : +12 AGAAAGAAA AC RSP01469 Mean Expected Number 0.008 -strand -75 : -84 TCACATGTGT Totally 2 motifs of 2 different REs have been found Description of REs found 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: glutaredoxin family protein |LOCUS: AT2G30540 |PROD: the same as GENE |complement(13018182..13018861) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +217 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.13 T - 0.35 C - 0.20 1 tgattatgca acttttgttg gtccttcctt actaatataa tatgaattaa 51 agaggaaaac aaaatattaa caaagtcact ttaatgtact tggggaacct 101 ttagctagat ctcctgtgat ctctcttttt ttggtctcta acattctttt 151 cttctttctt tctttgctTA TAAATAgcat atggttcaag aaactcaagt 201 CTCAGGCAAC ACTGAGCTTA ATACTGTAGT ACACACACAC ACACACACAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00444 Mean Expected Number 0.000 -strand -37 : -50 AAGAAAGAAAGAAG AC RSP00445 Mean Expected Number 0.002 -strand -70 : -79 AAAAAAGAGA AC RSP00447 Mean Expected Number 0.008 -strand -33 : -42 AGCAAAGaAA AC RSP00680 Mean Expected Number 0.007 +strand -133 : -124 TAACAaAGTC AC RSP00860 Mean Expected Number 0.007 -strand -38 : -46 AGAAAGAAA AC RSP01032 Mean Expected Number 0.007 -strand -67 : -76 CCAAAAAAAG AC RSP01093 Mean Expected Number 0.003 -strand -29 : -39 TaTAAGCAAAG AC RSP01209 Mean Expected Number 0.007 +strand -189 : -180 CTTTTGTTGG AC RSP01209 Mean Expected Number 0.007 +strand -76 : -67 CTTTTTTTGG AC RSP01527 Mean Expected Number 0.002 +strand -15 : -4 TCAAgAAACTCA Totally 10 motifs of 9 different REs have been found Description of REs found 424. Group TF: Dof1 /AC: RSP00444//OS: Zea mays /GENE: cyPPDK1/RE: box d /TF: Dof1 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 649. Group RE: GARE/Box 2 /AC: RSP00680//OS: Hordeum vulgare /GENE: Amy32b/RE: GARE/Box 2 /TF: unknown 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 957. Group TF: FLC /AC: RSP01032//OS: Arabidopsis thaliana /GENE: SOC1/RE: CArG box /TF: FLC 1011. Group RE: box 2 /AC: RSP01093//OS: Pisum sativum /GENE: GS2/RE: box 2 /TF: unknown 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs 1375. Group RE: Box II /AC: RSP01527//OS: Pisum sativum /GENE: PsCHS2/RE: Box II /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ATGSTF10 |LOCUS: AT2G30870 |PROD: glutathione S-transferase, putative |13148527..13150296 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +40 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.18 T - 0.26 C - 0.22 1 atttcgtgct gagaaaagtc aaatatgacg tgaaacgttg ccgccactag 51 ctagccgcca cctataccga cacgtataaa taataatata ctaataagtg 101 cgactgcgtt tagcctacta ccgcaaacgc agctaaccag atcccttttt 151 ctctctcttt tctttccctc TATAAAATcg cgtcctgcta tagtgagttt 201 AGAAAGAAAC TGATAGTAGA AAAAAAAAGA GAGAAGAAAA ATGGTGTTGA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00030 Mean Expected Number 0.006 +strand -148 : -142 AGCCGCC AC RSP00068 Mean Expected Number 0.008 +strand -132 : -123 GACACGTAtA AC RSP00070 Mean Expected Number 0.004 -strand -125 : -132 TACGTGTC AC RSP00397 Mean Expected Number 0.002 -strand -153 : -160 AGTGGCGG AC RSP00445 Mean Expected Number 0.001 +strand +23 : +32 AAAAAAGAGA AC RSP00445 Mean Expected Number 0.005 -strand -38 : -47 AgAAAAGAGA AC RSP00503 Mean Expected Number 0.003 +strand -154 : -147 CTAGCTAG AC RSP00503 Mean Expected Number 0.003 -strand -147 : -154 CTAGCTAG AC RSP00653 Mean Expected Number 0.001 +strand -52 : -42 TTCTCTCTCtT AC RSP00860 Mean Expected Number 0.004 +strand +1 : +9 AGAAAGAAA AC RSP00864 Mean Expected Number 0.001 -strand -43 : -51 AGAGAGAGA AC RSP01275 Mean Expected Number 0.003 -strand -167 : -176 TtCACGTCAT AC RSP01288 Mean Expected Number 0.006 -strand -124 : -131 ATACGTGT Totally 13 motifs of 11 different REs have been found Description of REs found 29. Group TF: EREBP /AC: RSP00030//OS: Nicotiana sylvestris /GENE: OLP/RE: ERRE /TF: EREBP ||Identical REs AC: RSP00082 RSP01344 RSP01523 RSP01764 RSP01775 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 69. Group TF: TRAB1 /AC: RSP00070//OS: Oryza sativa /GENE: Osem/RE: ABRE motif A /TF: TRAB1 379. Group RE: CDE /AC: RSP00397//OS: Nicotiana tabacum /GENE: RNP2/RE: CDE /TF: unknown 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 479. Group TF: RITA-1 /AC: RSP00503//OS: Nicotiana tabacum /GENE: Ntltp1/RE: D1 box /TF: RITA-1 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1174. Group RE: ACE 2 /AC: RSP01275//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 2 /TF: unknown 1185. Group RE: Z-DNA-motif /AC: RSP01288//OS: Arabidopsis thaliana /GENE: cab1/RE: Z-DNA-motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: CLE6 |LOCUS: AT2G31085 |PROD: Clavata3 / ESR-Related-6 (CLE6) |13261255..13261783 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +85 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.26 G - 0.11 T - 0.39 C - 0.24 1 gcatatatga tgagtttctc ttttcaactc atgcatgagt tttataatcc 51 aaaatatgcg taggattcgg ctttcattaa tttctgttgt ggatcccatc 101 atgttctctc cactggccca aactatatcc ttaacctgtt cccgttttat 151 gtttgtgtct ttaattatcT ATAAATAgaa aatctcaaca catacaagtc 201 ATCATACTCT CTCAACTTCA TCTCTCTCTC TCTCTCAATC TCTTAAGATC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00085 Mean Expected Number 0.003 +strand -35 : -20 TaTCTATAAATAGAAA AC RSP00085 Mean Expected Number 0.003 -strand -20 : -35 TTTCTATTTATAGAtA AC RSP00108 Mean Expected Number 0.002 +strand -171 : -164 CATGCATG AC RSP00108 Mean Expected Number 0.002 -strand -164 : -171 CATGCATG AC RSP00450 Mean Expected Number 0.001 +strand -153 : -142 TCcAAAATATGC AC RSP00864 Mean Expected Number 0.007 -strand +35 : +27 AGAGAGAGA AC RSP00864 Mean Expected Number 0.007 -strand +33 : +25 AGAGAGAGA AC RSP00864 Mean Expected Number 0.007 -strand +31 : +23 AGAGAGAGA AC RSP00864 Mean Expected Number 0.007 -strand +29 : +21 AGAGAGAGA AC RSP00997 Mean Expected Number 0.005 -strand +3 : -7 GATGACTTGT AC RSP01032 Mean Expected Number 0.004 +strand -152 : -143 CCAAAATATG AC RSP01283 Mean Expected Number 0.000 -strand +36 : +20 GAGAGAGAGAGAGAGAt AC RSP01296 Mean Expected Number 0.004 +strand -32 : -24 CTATAAATA AC RSP01470 Mean Expected Number 0.009 +strand -172 : -163 TCATGCATGa AC RSP01470 Mean Expected Number 0.005 -strand -163 : -172 TCATGCATGa Totally 15 motifs of 9 different REs have been found Description of REs found 83. Group TF: AGL3 /AC: RSP00085//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AGL3-BE /TF: AGL3 106. Group RE: RY4 /AC: RSP00108//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY4 /TF: unknown ||Identical REs AC: RSP01169 RSP01452 429. Group RE: AIV /AC: RSP00450//OS: Phaseolus vulgaris /GENE: CHS/RE: AIV /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 957. Group TF: FLC /AC: RSP01032//OS: Arabidopsis thaliana /GENE: SOC1/RE: CArG box /TF: FLC 1180. Group RE: GAGA element /AC: RSP01283//OS: OS: Glycine max /GENE: gsa1/RE: GAGA element /TF: unknown 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1340. Group TF: Opaque-2 (O2) /AC: RSP01470//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z2 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G31345 |PROD: the same as GENE |complement(13372309..13372877) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +92 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.44 G - 0.11 T - 0.29 C - 0.16 1 ctaagtgaat tttatatttc aaaatccttc aaatttggtt caaaatgttg 51 aaaacgaatt cttttgtagt aaagtcaaag tcaaatttca tgtatgtgtg 101 tgtatacata aacataagat agtgagacca aactagcaca agtcaaacaa 151 tgacatctca aaaacccTAT ATATAtgagt cattatcgaa tttattacac 201 ATACAAAACA AAAACAAAAA AAACTCTACA TTCACCAATA AAAAAGCTCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00190 Mean Expected Number 0.007 +strand -25 : -19 TGAGTCA AC RSP00460 Mean Expected Number 0.003 -strand -42 : -51 GAgATGTCAT AC RSP00664 Mean Expected Number 0.001 +strand -26 : -18 ATGAGTCAT AC RSP00999 Mean Expected Number 0.003 -strand -76 : -86 TCACTATCTtA AC RSP01278 Mean Expected Number 0.002 +strand -26 : -18 ATGAGTCAT AC RSP01278 Mean Expected Number 0.002 -strand -18 : -26 ATGACTCAT AC RSP01470 Mean Expected Number 0.004 +strand -113 : -104 TCATGtATGT AC RSP01686 Mean Expected Number 0.007 -strand -99 : -104 CACACA AC RSP01686 Mean Expected Number 0.007 -strand -101 : -106 CACACA Totally 9 motifs of 7 different REs have been found Description of REs found 184. Group RE: GCN4 box /AC: RSP00190//OS: Oryza sativa /GENE: GluB-1/RE: GCN4 box /TF: unknown ||Identical REs AC: RSP00666 RSP00959 438. Group TF: O2 /AC: RSP00460//OS: coix /GENE: alpha-coixin/RE: O2d /TF: O2 636. Group RE: C-box /Group TF: Opaque-2 (O2); TGA1 /AC: RSP00664//OS: Pisum sativum /GENE: psl/RE: C-box /TF: Opaque-2 (O2); TGA1 ||Identical REs AC: RSP00687 920. Group TF: 3AF3 /AC: RSP00999//OS: Nicotiana tabacum /GENE: rbcS-3A/RE: 3'-III element /TF: 3AF3 1177. Group TF: AP1/GCN4 /AC: RSP01278//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: B consensus /TF: AP1/GCN4 1340. Group TF: Opaque-2 (O2) /AC: RSP01470//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z2 /TF: Opaque-2 (O2) 1504. Group RE: CARE D /AC: RSP01686//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE D /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: pfkB-type carbohydrate kinase family protein |LOCUS: AT2G31390 |PROD: the same as GENE |complement(13390140..13393286) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +93 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.09 T - 0.39 C - 0.21 1 caaatcaaat actcaggcaa aggtcgaaaa acgttaaaag attttttcat 51 tttattaaaa aaaccacaga aactcatggt tttttttacg agatatattt 101 gtatcttata taataaaata cgttaataat atatcagtag caagcctttg 151 tacaccagtc ccatcgttct ctaTATAAAC Cattcttctc cttcctctca 201 TTTTTATGTA TTCTTCTCCT TGTCCTTCCT TACTCTCTAT ATTTTTCTCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00741 Mean Expected Number 0.001 +strand -173 : -162 AAAAcGTTAAAA Totally 1 motifs of 1 different REs have been found Description of REs found 703. Group RE: box 1 /Group TF: GT-1 /AC: RSP00741//OS: Nicotiana plumbaginifolia /GENE: Cab-E/RE: box 1 /TF: GT-1 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: GDSL-motif lipase/hydrolase family protein |LOCUS: AT2G31540 |PROD: the same as GENE |complement(13437714..13439142) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +20 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.09 T - 0.29 C - 0.20 1 taacagcatt gtttttcagt tttattttta atcattgggt gaaaagctca 51 tcaatatctc tatttaaact aaaagattca aagctcttga cttatctatt 101 tgttagtcac ttaaaaagga aaaacaaact caacaaagcc agcaaggtaa 151 caaaagaaat ttcacctTAT AAATTcatca ccaaacaaca acatttcttc 201 AAATCCACCA AAAACAAAAA ATGTCGACTT CTAAAGCCAT AACCTTAACT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00144 Mean Expected Number 0.002 -strand -160 : -165 CACCCA AC RSP01205 Mean Expected Number 0.004 -strand -82 : -91 CCTTTTTAAG Totally 2 motifs of 2 different REs have been found Description of REs found 140. Group TF: SEF3 /AC: RSP00144//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: SEF3 BS 1 /TF: SEF3 1115. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01205//OS: Arabidopsis thaliana /GENE: AtCRC/RE: EM2 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G31945 |PROD: the same as GENE |13588658..13589203 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +110 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.14 T - 0.32 C - 0.22 1 acgtaaaata ttgaattttc atgttacatg ttctagcaac aatgtttttc 51 tagaaaaaat atgtatggcg tgtgctttca tttgaccgga taaggtcgaa 101 cgatatatgt cctttacttc cacgtctctg cctctggtca aatacgcaag 151 gcgctctctt tctcTATAAA TCttcaatct caaactcatc ttcaaatctt 201 GACACATCCT CAAGAGCGGA AAAAAAATAA AAAAATCTTT ACCACGACCT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00057 Mean Expected Number 0.006 +strand -82 : -73 TCCACGTCTC AC RSP00340 Mean Expected Number 0.004 +strand -82 : -73 TCCACGTcTC AC RSP00861 Mean Expected Number 0.003 -strand -38 : -46 AGAAAGAGA AC RSP01015 Mean Expected Number 0.001 -strand -117 : -126 CAAATGAAAG AC RSP01250 Mean Expected Number 0.001 -strand -182 : -191 AAAATTCAAT AC RSP01274 Mean Expected Number 0.005 +strand -82 : -73 TCCACGTcTC AC RSP01499 Mean Expected Number 0.006 +strand -83 : -74 TTCCaCGTCT Totally 7 motifs of 7 different REs have been found Description of REs found 56. Group TF: ABF /AC: RSP00057//OS: Zea mays /GENE: rab28/RE: ABRE B /TF: ABF 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 940. Group TF: GAPF /AC: RSP01015//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 3 /TF: GAPF 1154. Group TF: CBF-C /AC: RSP01250//OS: Arabidopsis thaliana /GENE: AtpC/RE: CBF-C BS /TF: CBF-C 1173. Group RE: ACE 1 /AC: RSP01274//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 1 /TF: unknown 1360. Group RE: CS6 /AC: RSP01499//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS6 /TF: unknown ||Identical REs AC: RSP01500 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: cysteine proteinase inhibitor-related |LOCUS: AT2G31980 |PROD: the same as GENE |complement(13616174..13616979) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +132 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.17 T - 0.24 C - 0.24 1 ggagcaattc acatatatac gttaaaaagg tgggggctca cttcacgtgg 51 agacttaatt ggatcagaaa agtaacttaa aagatgcgga accccgaagg 101 tgccgatggc atggggaccc attcacgtac acccaaacac aaacaccaac 151 attgcctaaa ctctttctct aTATAAACAc ttctctttct ttttctttct 201 CTCACACAAA AATACAACAA CTTAGATCAG TCTCAAAGGG GGAAAAAAAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00445 Mean Expected Number 0.003 -strand -10 : -19 AAgAAAGAGA AC RSP00640 Mean Expected Number 0.001 +strand -158 : -151 TCACGTGG AC RSP00860 Mean Expected Number 0.001 -strand -1 : -9 AGAAAGAAA AC RSP00861 Mean Expected Number 0.001 -strand -11 : -19 AGAAAGAGA AC RSP00874 Mean Expected Number 0.009 +strand +31 : +41 TCTcAAAGGGG AC RSP01734 Mean Expected Number 0.009 -strand -150 : -156 TCCACGT Totally 6 motifs of 6 different REs have been found Description of REs found 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 616. Group RE: G-box /Group TF: GBF /AC: RSP00640//OS: Zea mays /GENE: GRF1/RE: G-box /TF: GBF ||Identical REs AC: RSP00641 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 810. Group TF: Dof3 /AC: RSP00874//OS: Zea mays /GENE: Synthetic oligonucleotids/RE: Dof3 BSopt /TF: Dof3 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G32020 |PROD: the same as GENE |complement(13638139..13638845) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +24 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.16 T - 0.29 C - 0.17 1 aagtccaagg tcaaatatag acaattatcc actcacacga tgacacctca 51 tcttatgtcg tatatttaac actaaataca cttatctata gcaaatggta 101 atatttagtg tttttttagt caaaaGCAAT aagggagaat ctcaaagttt 151 ttcaagatcg cgatgtgTAT AAAGAcatcg cttagacgta gtgatatgat 201 ATCTAAAACA ATCACTAATC CTAAATGGAG ATGGACTCAG AAGAAACTAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00847 Mean Expected Number 0.003 +strand -158 : -149 aCACCTCATC AC RSP00997 Mean Expected Number 0.003 -strand -149 : -158 GATGAGGTGT AC RSP01013 Mean Expected Number 0.008 +strand +22 : +31 tAAATGGAGA Totally 3 motifs of 3 different REs have been found Description of REs found 789. Group RE: NON /AC: RSP00847//OS: Zea mays /GENE: H3C4/RE: NON /TF: unknown 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ubiquitin-conjugating enzyme, putative |LOCUS: AT2G32790 |PROD: the same as GENE |complement(13912567..13913403) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +55 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.11 T - 0.33 C - 0.17 1 gagttcctga atatcaaatt ctagctagat tccaccatat atgtaaatac 51 taacattcac cgtatacatc attgttttct ataaactctt taaagttctt 101 gTCAATgatt cgacaaagca ttatatgtaa tttatgtcgt ataagtaaat 151 aaaagaaata ctcaagaaaa aTATAAATAt gagcttaact ataatctaag 201 AAAAGCATAG TCTCTCTCTC TCTCTCTCTC ATAATACATA GAGGAGAATA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00115 Mean Expected Number 0.009 -strand -119 : -129 ATAGAAAaCAA AC RSP00503 Mean Expected Number 0.001 +strand -180 : -173 CTAGCTAG AC RSP00503 Mean Expected Number 0.001 -strand -173 : -180 CTAGCTAG AC RSP00864 Mean Expected Number 0.001 -strand +29 : +21 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand +27 : +19 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand +25 : +17 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand +23 : +15 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand +21 : +13 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand +19 : +11 AGAGAGAGA AC RSP01093 Mean Expected Number 0.003 +strand -6 : +5 TCTAAGaAAAG AC RSP01283 Mean Expected Number 0.000 -strand +30 : +14 GAGAGAGAGAGAGAGAg AC RSP01283 Mean Expected Number 0.000 -strand +28 : +12 GAGAGAGAGAGAGAGAg AC RSP01283 Mean Expected Number 0.000 -strand +26 : +10 GAGAGAGAGAGAGAGAc Totally 13 motifs of 5 different REs have been found Description of REs found 113. Group TF: ATBP-1 /AC: RSP00115//OS: Pisum sativum /GENE: GS2/RE: BOX 1 /TF: ATBP-1 479. Group TF: RITA-1 /AC: RSP00503//OS: Nicotiana tabacum /GENE: Ntltp1/RE: D1 box /TF: RITA-1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1011. Group RE: box 2 /AC: RSP01093//OS: Pisum sativum /GENE: GS2/RE: box 2 /TF: unknown 1180. Group RE: GAGA element /AC: RSP01283//OS: OS: Glycine max /GENE: gsa1/RE: GAGA element /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: 50S ribosomal protein L28, chloroplast (CL28) |LOCUS: AT2G33450 |PROD: the same as GENE |14180655..14181609 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +41 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.17 T - 0.29 C - 0.19 1 accacctgtg tctcgttact tttatgtatt agagaatcca agaagggaaa 51 gatgaaacca tactattgtg ttggtggcta tatggaccgg tttgcttact 101 gaaaaATTGT tgtgttaaaa gagaacgtaa ccttctgaat gagaaagcgt 151 ctttcatttt ctacaaaatA ATAAATAaaa tgaacccaat ctccttcttt 201 ATCCAAATCC TCCTTCGAAG CAGAAGTAAC AGCAACCAAA AATGACGACA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00969 Mean Expected Number 0.002 +strand +42 : +51 aTGACGACAA AC RSP01015 Mean Expected Number 0.006 -strand -41 : -50 aAAATGAAAG Totally 2 motifs of 2 different REs have been found Description of REs found 892. Group TF: STGA1 /AC: RSP00969//OS: Glycine max /GENE: GmAux28/RE: Aux28B2 /TF: STGA1 940. Group TF: GAPF /AC: RSP01015//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 3 /TF: GAPF ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: dormancy/auxin associated family protein |LOCUS: AT2G33830 |PROD: the same as GENE |complement(14316600..14317417) |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +55 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.15 T - 0.32 C - 0.13 1 ctatgtgcaa gtatataaac ttcatttggt aattaagtta tcaattactt 51 gtcaattatt tctagtctat tatagtattt ctctagatat tttgtgggtc 101 aaataaaaaa tgagagaact agtcgacaaa ggaaaagaga tatttttacg 151 aatagtttaa aaatgagtcT ATAAATTaga tgaaggaagc cctttagtaa 201 GTACTTCACA CTTGACACAA TTCTATCCAA AATCAACCCA AAAAAAGAAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00749 Mean Expected Number 0.007 +strand -177 : -166 ATTTgGTAATTA AC RSP01014 Mean Expected Number 0.006 -strand -173 : -182 CAAATGAAGt AC RSP01032 Mean Expected Number 0.010 +strand +38 : +47 CCAAAAAAAG AC RSP01209 Mean Expected Number 0.010 -strand +47 : +38 CTTTTTTTGG Totally 4 motifs of 4 different REs have been found Description of REs found 711. Group TF: GT-1 /AC: RSP00749//OS: Catharanthus roseus /GENE: STR/RE: BN /TF: GT-1 939. Group TF: GAPF /AC: RSP01014//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 2 /TF: GAPF 957. Group TF: FLC /AC: RSP01032//OS: Arabidopsis thaliana /GENE: SOC1/RE: CArG box /TF: FLC 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G33850 |PROD: the same as GENE |complement(14328138..14329125) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +25 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.09 T - 0.28 C - 0.28 1 tttctgataa gttaattacg taggcccaaa aagtcgagct accctttgaa 51 aaaatcatct catctcaatg gacacgccat caaccattat caccaattca 101 gtccttattt ccacctaacc atttacactc tatatagtaa gcaaaaggaa 151 aaaaaaaaaa ctttcctata TATAAACAct cccactttct ctcacaaacc 201 CACAACACTG ACTCACATCA TCACCATGGC TTTTTCCACT AGCTCATGTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00035 Mean Expected Number 0.008 +strand -59 : -53 CAAAAGG AC RSP00916 Mean Expected Number 0.008 -strand +22 : +13 GATGATGTGA AC RSP01600 Mean Expected Number 0.006 -strand -150 : -157 TTTCAAAG Totally 3 motifs of 3 different REs have been found Description of REs found 34. Group RE: D1 /Group TF: Dof family /AC: RSP00035//OS: Hordeum vulgare /GENE: Al21/RE: D1 /TF: Dof family 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: protein transport protein sec61, putative |LOCUS: AT2G34250 |PROD: the same as GENE |14469168..14471947 |SUPPORT | 7 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +546 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.16 T - 0.24 C - 0.26 1 atgtcgacac caaatccaaa gcccatttga cccgccttac aaaacaaaac 51 atcggcccaa tctgtgtccc caaaaaaaaa aaacttaaag cagacgtggc 101 agaccctgat tcgttacact atcgtgtcga gcatattttt ctcgcgtcgc 151 cacgatttgg caataccctg agaAATAAAT Aaaaatcgaa aatggattat 201 AAGGTGACCT TCGTCTTTGG TTGACCATCA AAAACTACAA CGCTCTTTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00208 Mean Expected Number 0.000 -strand -101 : -112 GCCACGTCtGCT AC RSP00248 Mean Expected Number 0.002 -strand -101 : -110 GCCACGTCtG AC RSP00819 Mean Expected Number 0.002 -strand -101 : -110 GCCACGTCTg AC RSP01034 Mean Expected Number 0.005 +strand -107 : -101 ACGTGGC AC RSP01160 Mean Expected Number 0.000 +strand -112 : -101 AgCAGACGTGGC Totally 5 motifs of 5 different REs have been found Description of REs found 201. Group TF: MAT2 (ROM2) /AC: RSP00208//OS: French Phaseolus vulgaris /GENE: DLEC2/RE: DLEC2,A /TF: MAT2 (ROM2) 241. Group TF: REB /AC: RSP00248//OS: Oryza sativa /GENE: alpha-globulin/RE: REB2 /TF: REB 765. Group TF: ACE-binding TF /AC: RSP00819//OS: Arabidopsis thaliana /GENE: F3H/RE: ACE-core (AtF3H) /TF: ACE-binding TF 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1073. Group RE: G-box /Group TF: CG-1 /AC: RSP01160//OS: Nicotiana plumbaginifolia /GENE: CAB/RE: G-box /TF: CG-1 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: LHB1B1 |LOCUS: AT2G34430 |PROD: |14531835..14532842 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +62 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.10 T - 0.26 C - 0.24 1 tctaatttat ctaacacaac tcaattccaa accaaaaatc tgatgccagc 51 tcgacaagac aaaaaatcta agctcaaaaa tgtcaacaac caatagaaat 101 caaggcATTG Acgatatcac gagataagca aattaaatct tcaagttttg 151 caattcatat gtacgtTATA AATAcccaaa aacctcaccg taacctagct 201 ATCCAATTTC ATCACATCTT ATTAACTAAA GAGCCTTTTA CTTGCGCCAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00054 Mean Expected Number 0.010 -strand -72 : -78 GCTTATC AC RSP00115 Mean Expected Number 0.001 +strand -108 : -98 ATAGAAATCAA AC RSP00543 Mean Expected Number 0.006 +strand -98 : -92 AGGCATT Totally 3 motifs of 3 different REs have been found Description of REs found 53. Group RE: C2a-BS /AC: RSP00054//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: C2a-BS /TF: unknown 113. Group TF: ATBP-1 /AC: RSP00115//OS: Pisum sativum /GENE: GS2/RE: BOX 1 /TF: ATBP-1 519. Group RE: GT-1-like K /AC: RSP00543//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: GT-1-like K /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: hydroxyproline-rich glycoprotein family protein |LOCUS: AT2G34870 |PROD: the same as GENE |14717856..14718532 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +42 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.15 T - 0.29 C - 0.16 1 aattatgcaa cagccaacat gcgatacaca tgcatttgtt aaatcagttt 51 acttattttc gagttcggta cattcgatgt tatacaacta ttggcaccaa 101 ttaATTGTgt ttgtaaatca ataagaagta cgttgggtgt gaaaaaataa 151 attaatggaa atataggccT ATATATActa acactagata gtcactagac 201 AACAGACACA AAAGCATATA AGCAAAAAAT ACAAAACAAA TTATGGCTTC 251 T Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: CTF2A |LOCUS: AT2G35660 |PROD: monooxygenase family protein |14995526..14997505 |SUPPORT | 6 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +52 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.14 T - 0.35 C - 0.19 1 acaatgccta tatactactc tccatttgta ttaacacttg agtatctgta 51 accaacgaag ctcagatgtg atcgatatta tttttttaac agtataaaac 101 cacttaacac ttatttagtt tgttgacctc gtggcttcat ATTGActaca 151 gaatgaaata ggtaaacTAT AAAGTctaca ctatttatgg ctgaaattta 201 TTTGAATACA TATCCACCAC TTGTCTTGTT CTTGAAACAC ACGGTCGTGG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00056 Mean Expected Number 0.003 +strand +16 : +25 aCCACTTGTC AC RSP00522 Mean Expected Number 0.010 +strand +17 : +23 CCACTTG AC RSP01013 Mean Expected Number 0.008 -strand -173 : -182 CAAATGGAGA AC RSP01527 Mean Expected Number 0.001 -strand -75 : -86 TCAACAAACTaA Totally 4 motifs of 4 different REs have been found Description of REs found 55. Group TF: ABI3 /AC: RSP00056//OS: Brassica napus /GENE: napA/RE: ABRE Bd /TF: ABI3 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 1375. Group RE: Box II /AC: RSP01527//OS: Pisum sativum /GENE: PsCHS2/RE: Box II /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G35710 |PROD: the same as GENE |complement(15017905..15021226) |SUPPORT | 4 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +77 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.28 G - 0.12 T - 0.41 C - 0.19 1 aacttgttta aagtaaaatt agagcaacct aggaatatat gctcaacttt 51 ttcgttttct tctaattgtt aaaataatgt tgtcattggc cagtcgccat 101 tatacctttt taacccttca cagtctccca gaaacctccc tttctctttg 151 atacattctc tgTATATATA tatatacgcg tatgcgttta cacattcttt 201 AAAAGTTTCA GATTCTAGAT AAATTCTTTT CATTTGATTT GTTTTAGCAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00091 Mean Expected Number 0.001 -strand -82 : -93 GAAGGGTTaAAA AC RSP00755 Mean Expected Number 0.009 +strand -170 : -164 AGGAATA AC RSP01104 Mean Expected Number 0.003 +strand -69 : -62 AAACCTCC Totally 3 motifs of 3 different REs have been found Description of REs found 89. Group RE: ARE 76/65 /AC: RSP00091//OS: Chlamydomonas reinhardtii /GENE: Nia1/RE: ARE 76/65 /TF: unknown 717. Group RE: submotif A /AC: RSP00755//OS: Solanum tuberosum /GENE: S2-RNase/RE: submotif A /TF: unknown 1022. Group RE: AC2 /AC: RSP01104//OS: Spinacia oleracea /GENE: rps22/RE: AC2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: YLS9 |LOCUS: AT2G35980 |PROD: |15117667..15118550 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +47 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.12 T - 0.31 C - 0.20 1 aagtaatatt aacatatacg atcttacaaa aagtactcat tattggaagt 51 ttggggcaac atcacaagcc tacaattgca taatattctt tggtcaatta 101 tTCAATcaaa tcaccgcgta acgtgacctt accttaatct aataagttga 151 ccaacgcata aatgaaagtg taTATAAAGA tgacttacat aaacctctta 201 GCCATATATC CATTCATTCC AATATAATTC TCCACAAAAT TACTATCATG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00467 Mean Expected Number 0.002 +strand -110 : -101 TGGTCAATTa AC RSP00468 Mean Expected Number 0.001 +strand -111 : -101 TTGGTCAATTa AC RSP01482 Mean Expected Number 0.001 -strand -101 : -111 tAATTGACCAA AC RSP01733 Mean Expected Number 0.008 +strand -87 : -82 CCGCGT Totally 4 motifs of 4 different REs have been found Description of REs found 445. Group RE: ERE1 /AC: RSP00467//OS: Dianthus caryophyylus /GENE: hcbt2/RE: ERE1 /TF: unknown 446. Group RE: ERE2 /AC: RSP00468//OS: Dianthus caryophyylus /GENE: hcbt2/RE: ERE2 /TF: unknown 1350. Group RE: ERE2 /AC: RSP01482//OS: carnation (Dianthus caryophillus) /GENE: hcbt2/RE: ERE2 /TF: unknown ||Identical REs AC: RSP01483 1541. Group TF: CAMTA3 /AC: RSP01733//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM2 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G36220 |PROD: the same as GENE |15199559..15200777 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +76 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.09 T - 0.32 C - 0.21 1 attttataat attaaaaaaa tcatattata taattcctga ttttcaattt 51 tgcatattac gtcgacactt cgtcctccgg gttttccgag cacaagtcct 101 aatcaaACAA Taagaagaca aaaagaaaaa taaaatctga aaaagaacct 151 ttgctctttg ttaaTATAAA AAgccctact ctcgcatcca acgtttcttc 201 ACCTCTAATT CTTCTCACTA AAAATATCAA AAGCTTTCAC ATTACAATAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00263 Mean Expected Number 0.001 +strand -16 : -8 CATCCAACG AC RSP00669 Mean Expected Number 0.001 +strand -42 : -29 TGtTAATATAAAAA Totally 2 motifs of 2 different REs have been found Description of REs found 255. Group RE: Non /AC: RSP00263//OS: Triticum aestivum /GENE: H3/RE: Non /TF: unknown ||Identical REs AC: RSP01563 640. Group RE: B-box /AC: RSP00669//OS: Lycopersicon esculentum /GENE: PG/RE: B-box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: fructose-bisphosphate aldolase, putative |LOCUS: AT2G36460 |PROD: the same as GENE |complement(15303780..15305593) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +127 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.18 T - 0.25 C - 0.20 1 aattgaatca ttttacctga ggaatattat tgggctacaa tgggccgtag 51 tgaggccgaa gtcacacctt aaatagaacg tggtagaagt tactataata 101 ttagagttac aaaccagtaa tcacggaagt agtaaaaacg gcccatagaa 151 agTATAAACA atccaacggc tgaaaaagct taccttggag aagagtccaa 201 AATATCTTCT GGAAGCTACC ATCACTCTCT CCTATATAAC TCAAAATTCA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00319 Mean Expected Number 0.001 -strand +11 : +3 CAGAAGATA AC RSP00987 Mean Expected Number 0.007 +strand +13 : +22 aAGCTACCAT AC RSP01046 Mean Expected Number 0.002 +strand -42 : -34 CAATCCAAC AC RSP01497 Mean Expected Number 0.003 -strand -31 : -40 GCCGTtGGAT Totally 4 motifs of 4 different REs have been found Description of REs found 305. Group TF: R-GATA /AC: RSP00319//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: GATA motif /TF: R-GATA 908. Group RE: H-box-like motif /AC: RSP00987//OS: Antirrhinum majus /GENE: CHS/RE: H-box-like motif /TF: unknown 970. Group RE: NON /AC: RSP01046//OS: Nicotiana tabacum /GENE: histone genes (oligo)/RE: NON /TF: unknown 1359. Group RE: CS5 /AC: RSP01497//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS5 /TF: unknown ||Identical REs AC: RSP01498 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: S-adenosylmethionine synthetase, putative |LOCUS: AT2G36880 |PROD: the same as GENE |complement(15486445..15488486) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +514 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.19 T - 0.22 C - 0.25 1 tattactctt ctctctcacc aaccacaccc ataccaacga caacggggtt 51 ggtgagatta cattagttgt ctacatctca ccgtccattc attcttcatt 101 aaaagatcaa cggtctaaaa acatgagaat actgtagatc ataaaacacg 151 tgatcagagc tccggcaaca aTATAAACCg aagagatgtg aagcacgaga 201 GAAGAGCGGG CAAAACAAAC AGAGAGCGAG TCACGCGCCG AGTTTTCCTC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00249 Mean Expected Number 0.001 -strand -85 : -93 AGACCGTTG AC RSP00286 Mean Expected Number 0.002 +strand -187 : -177 TCTCACCaACC AC RSP00286 Mean Expected Number 0.001 -strand -144 : -154 TCTCACCaACC AC RSP00350 Mean Expected Number 0.001 +strand -119 : -109 CGTCCATtCAT AC RSP00837 Mean Expected Number 0.006 +strand -97 : -88 AGATCaACGG AC RSP00950 Mean Expected Number 0.004 +strand -186 : -176 CTCACCAACCa AC RSP00950 Mean Expected Number 0.000 -strand -145 : -155 CTCACCAACCC AC RSP00978 Mean Expected Number 0.004 -strand -47 : -56 ATCACGTGTT AC RSP01043 Mean Expected Number 0.000 -strand -144 : -156 TCTCACCAACCCC AC RSP01044 Mean Expected Number 0.001 +strand -187 : -176 TCTCACCAACCa AC RSP01044 Mean Expected Number 0.000 -strand -144 : -155 TCTCACCAACCc AC RSP01083 Mean Expected Number 0.001 +strand -187 : -176 TCTCACCAACCa AC RSP01083 Mean Expected Number 0.000 -strand -144 : -155 TCTCACCAACCC AC RSP01184 Mean Expected Number 0.002 +strand -187 : -176 TCTCACCaACCA AC RSP01454 Mean Expected Number 0.003 -strand -148 : -154 ACCAACC Totally 15 motifs of 11 different REs have been found Description of REs found 242. Group RE: MSA /AC: RSP00249//OS: Catharanthus roseus /GENE: CYM/RE: MSA /TF: unknown 277. Group RE: Box L /AC: RSP00286//OS: Petroselinum crispum /GENE: PAL-1/RE: Box L /TF: unknown ||Identical REs AC: RSP01754 335. Group RE: VP1 RE /AC: RSP00350//OS: Zea mays /GENE: C1/RE: VP1 RE /TF: unknown 782. Group RE: NON /AC: RSP00837//OS: Arabidopsis thaliana /GENE: H4A748/RE: NON /TF: unknown 879. Group RE: CTCACCAACCC motif /AC: RSP00950//OS: Petroselinum crispum /GENE: 4CL-1/RE: CTCACCAACCC motif /TF: unknown 900. Group RE: G-box /AC: RSP00978//OS: Glycine max /GENE: vspA/RE: G-box /TF: unknown 967. Group RE: FP2 /AC: RSP01043//OS: Solanum tuberosum /GENE: St4cl-1/RE: FP2 /TF: unknown 968. Group RE: box L /AC: RSP01044//OS: Petroselinum crispum /GENE: CCoAOMT/RE: box L /TF: unknown 1001. Group TF: DcMYB1 /AC: RSP01083//OS: Daucus carota /GENE: DcPAL1/RE: box-L5 /TF: DcMYB1 1096. Group RE: box 1 /AC: RSP01184//OS: Various plants /GENE: chsA/RE: box 1 /TF: unknown 1325. Group RE: AC-II /Group TF: PtMYB4 /AC: RSP01454//OS: Pinus taeda /GENE: Synthetic OLIGO/RE: AC-II /TF: PtMYB4 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: PIP2B |LOCUS: AT2G37170 |PROD: |complement(15620481..15621933) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +63 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.45 G - 0.07 T - 0.27 C - 0.21 1 acacaattct atattcattt cattgaaacg aataataaaa acaaccataa 51 gcctaccaaa aggaaaacat tatcgtaata taatcaatca ataacacgta 101 tACAATtatt aacgtatatt gacaagcaaa attaatgaga gcactcacta 151 tagctatagt ctctctaTAT AAACAacttt cattcgtctc ttcagtcttc 201 ACAAACACAA CATATCCACA ATACAAAACA CAACTTTCAT ATATAACAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00035 Mean Expected Number 0.009 +strand -144 : -138 CAAAAGG AC RSP01015 Mean Expected Number 0.004 -strand -15 : -24 CgAATGAAAG AC RSP01288 Mean Expected Number 0.005 -strand -100 : -107 ATACGTGT AC RSP01702 Mean Expected Number 0.008 +strand -108 : -99 AACACGTATa AC RSP01717 Mean Expected Number 0.000 -strand -98 : -109 GTAtACGTGTTA Totally 5 motifs of 5 different REs have been found Description of REs found 34. Group RE: D1 /Group TF: Dof family /AC: RSP00035//OS: Hordeum vulgare /GENE: Al21/RE: D1 /TF: Dof family 940. Group TF: GAPF /AC: RSP01015//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 3 /TF: GAPF 1185. Group RE: Z-DNA-motif /AC: RSP01288//OS: Arabidopsis thaliana /GENE: cab1/RE: Z-DNA-motif /TF: unknown 1511. Group RE: ACGT1 /AC: RSP01702//OS: Arabidopsis thaliana /GENE: XERO2/RE: ACGT1 /TF: unknown 1525. Group RE: G-box /Group TF: STF1/HY5 /AC: RSP01717//OS: Arabidopsis thaliana /GENE: ARF18 (At1g23750)/RE: G-box /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: RD28 |LOCUS: AT2G37180 |PROD: |15624791..15626234 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +67 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.46 G - 0.09 T - 0.22 C - 0.24 1 agttaccact gaccaacttc tttagcaaaa aaaaaaaatt accactaaac 51 caacttatgc attcgttaca aaaaaaaata ccataaaaca aaacatcaat 101 gttgtaagtt gtgacattaa atcaaaagtg tcaaaatcaa cagtagcaca 151 aaccaagagc tcactctaTA TAAAGAacct ttattcttca tctcacaacc 201 ACAAGCCCTA CAACAACCAC AAAGCAAAAC ACTTACTTAG AAAGTCCAGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00773 Mean Expected Number 0.006 -strand -77 : -86 TGATTTAATG AC RSP00943 Mean Expected Number 0.009 +strand -13 : -3 TCATcTCACAA AC RSP01136 Mean Expected Number 0.004 -strand -85 : -91 TGTCACA AC RSP01596 Mean Expected Number 0.009 -strand -3 : -13 TTGTGAgATGA Totally 4 motifs of 4 different REs have been found Description of REs found 729. Group RE: Box III /AC: RSP00773//OS: Brassica oleracea /GENE: SLR1/RE: Box III /TF: unknown 872. Group TF: GBF /AC: RSP00943//OS: Lycopersicon esculentum /GENE: RbcS-3.6/RE: box III /TF: GBF 1054. Group RE: TGTCACA motif /AC: RSP01136//OS: Cucumis melo /GENE: Cucumisin/RE: TGTCACA motif /TF: unknown 1417. Group RE: Box III /AC: RSP01596//OS: Pisum sativum /GENE: rbcS-3.6/RE: Box III /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: nodulin MtN21 family protein |LOCUS: AT2G37460 |PROD: the same as GENE |complement(15733527..15736176) |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +88 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.42 G - 0.13 T - 0.28 C - 0.17 1 ataaggtaaa gaaataagtc ccatgatttc agggtacggt ttggaaagta 51 gcctcaaaat acataacaaa aaggaaaaaa agaaaattta cacgcatatt 101 tatttacact aataagttta cgtagagaga agaatgttca catcacatca 151 catcctttta actttggctc taTATAAAGA gagatagcca agacaatcat 201 AACAACTCAT ATCAATTTTT TAAAAAAAAC TCTCCATATA TCTATTACTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01529 Mean Expected Number 0.000 -strand -149 : -159 GCTACtTTCCA Totally 1 motifs of 1 different REs have been found Description of REs found 1376. Group RE: Box I /AC: RSP01529//OS: Pisum sativum /GENE: PsCHS3/RE: Box I /TF: unknown ||Identical REs AC: RSP01530 RSP01531 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: histone H2B, putative |LOCUS: AT2G37470 |PROD: the same as GENE |15743842..15744446 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +68 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.11 T - 0.27 C - 0.25 1 cagatccagc ccaataaaag gagcgatgca tcagatattc agatggcaga 51 gatcctaaat aatctcaacc gttctagaga tcctaaataa tctcaaccgt 101 ttatttattt aagccacgtc atcgatcctc gcgaaaaaca aatacccatt 151 tacaagcagt tacatatctg taTATAAACA attatcatca ttcagcatca 201 ACGCGTCTCT CAATTCTCAC ATTCTCAAAA TCACTAAAAT CAAACTCAAT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00113 Mean Expected Number 0.000 -strand -80 : -88 TGACGTGGC AC RSP00214 Mean Expected Number 0.004 -strand -80 : -87 TGACGTGG AC RSP00215 Mean Expected Number 0.004 +strand -87 : -80 CCACGTCA AC RSP00232 Mean Expected Number 0.009 +strand -85 : -76 ACGTCATcGA AC RSP00248 Mean Expected Number 0.002 +strand -88 : -79 GCCACGTCAt AC RSP00819 Mean Expected Number 0.002 +strand -88 : -79 GCCACGTCaT AC RSP00821 Mean Expected Number 0.002 +strand -88 : -79 GCCACGTCaT AC RSP00857 Mean Expected Number 0.001 -strand -155 : -164 CCATCTGAAt AC RSP00913 Mean Expected Number 0.005 -strand -78 : -87 GATGACgTGG AC RSP00916 Mean Expected Number 0.005 -strand -78 : -87 GATGACGTGg AC RSP00997 Mean Expected Number 0.007 -strand -78 : -87 GATGACGTGg AC RSP01034 Mean Expected Number 0.005 -strand -82 : -88 ACGTGGC AC RSP01065 Mean Expected Number 0.002 -strand -72 : -82 AGGATCGATGA AC RSP01106 Mean Expected Number 0.000 +strand -90 : -80 AaGCCACGTCA AC RSP01275 Mean Expected Number 0.005 +strand -88 : -79 gCCACGTCAT AC RSP01280 Mean Expected Number 0.001 -strand -78 : -88 GATGACGTGGC Totally 16 motifs of 16 different REs have been found Description of REs found 111. Group RE: TGA2 /AC: RSP00113//OS: Glycine max /GENE: GH3/RE: TGA2 /TF: unknown 207. Group TF: TGA1; GBF1 /AC: RSP00214//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: TGA1; GBF1 ||Identical REs AC: RSP01257 RSP01474 208. Group TF: HBP-11(17); HBP-1b(c38) /AC: RSP00215//OS: Triticum aestivum /GENE: H3/RE: Hex /TF: HBP-11(17); HBP-1b(c38) 225. Group RE: LS7 /Group TF: TGA2 & NPR1/NIM1 /AC: RSP00232//OS: Arabidopsis thaliana /GENE: PR-1/RE: LS7 /TF: TGA2 & NPR1/NIM1 241. Group TF: REB /AC: RSP00248//OS: Oryza sativa /GENE: alpha-globulin/RE: REB2 /TF: REB 765. Group TF: ACE-binding TF /AC: RSP00819//OS: Arabidopsis thaliana /GENE: F3H/RE: ACE-core (AtF3H) /TF: ACE-binding TF 767. Group TF: ACE-binding TF /AC: RSP00821//OS: Arabidopsis thaliana /GENE: FLS/RE: ACE-core (AtFLS) /TF: ACE-binding TF 793. Group RE: NON /AC: RSP00857//OS: Zea mays /GENE: H4C7/RE: NON /TF: unknown 844. Group TF: Opaque-2 /AC: RSP00913//OS: Zea mays /GENE: b-32/RE: B1 /TF: Opaque-2 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 984. Group RE: Fungus RE /Group TF: homeodomain TF /AC: RSP01065//OS: Arabidopsis thaliana /GENE: At5g64250/RE: Fungus RE /TF: homeodomain TF 1024. Group RE: rHex /AC: RSP01106//OS: Spinacia oleracea /GENE: rps22/RE: rHex /TF: unknown 1174. Group RE: ACE 2 /AC: RSP01275//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 2 /TF: unknown 1179. Group TF: OBF4; OBF5 /AC: RSP01280//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: OBF4; OBF5 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: RNA-binding protein, putative |LOCUS: AT2G37510 |PROD: the same as GENE |complement(15750070..15751619) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +37 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.14 T - 0.37 C - 0.18 1 aatcttatgt aagatttgga tgaagataac aatcttaact tcaaatttgt 51 ttcccttgaa attatacttc aattacatat gtgtatactg tatcatcatc 101 atttctttca tgtttgttaa cctgtggaaa acagaggaaa cgacgacgtt 151 ttgtctgatt TATAAAAGtt aaaacccttt gataagccct aaagattgcc 201 ATTTCCGATC TCAAATCCTT TTGTCCCACT TGCTATAATG GCGTTCGTTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00054 Mean Expected Number 0.009 -strand -14 : -20 GCTTATC AC RSP00163 Mean Expected Number 0.004 +strand +17 : +27 CCTTTTGTCcC AC RSP00522 Mean Expected Number 0.009 +strand +26 : +32 CCACTTG AC RSP00628 Mean Expected Number 0.009 +strand -173 : -166 AACAATCT Totally 4 motifs of 4 different REs have been found Description of REs found 53. Group RE: C2a-BS /AC: RSP00054//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: C2a-BS /TF: unknown 158. Group TF: ARF1 /AC: RSP00163//OS: Glycine max /GENE: Synthetic OLIGO/RE: DR5 /TF: ARF1 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 604. Group TF: CCA1 /AC: RSP00628//OS: Arabidopsis thaliana /GENE: Lhcb1*3/RE: CCA1 BS1 /TF: CCA1 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: 60S ribosomal protein L36 (RPL36A) |LOCUS: AT2G37600 |PROD: the same as GENE |complement(15781323..15782420) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +139 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.28 G - 0.19 T - 0.38 C - 0.15 1 ttagctatac gttacgtatc atgtcttatt aaacaagata gctttgggcc 51 tgtatcagat acaaatgttt taagtttcaa ttggatcaat atattgggcc 101 attaaattat ttttagcaaa taggcCCAAT tggttaatat gttgtagggt 151 tttgtctttt gtcgtttcat aTATAAAGTt ccattttttc caaaaatcgt 201 TGTGTAGCAG CGGCTGCTTC TCCATTGCAG AGGTATGAGA ATCTGATCAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00158 Mean Expected Number 0.006 -strand -79 : -89 TATTTGCTaAA AC RSP00454 Mean Expected Number 0.002 +strand -188 : -178 TACGTAtCATG AC RSP01735 Mean Expected Number 0.002 -strand +44 : +36 AGATTCTCA Totally 3 motifs of 3 different REs have been found Description of REs found 153. Group RE: D3 /AC: RSP00158//OS: Glycine max /GENE: GmAux28/RE: D3 /TF: unknown 432. Group RE: Motif e/f /AC: RSP00454//OS: Pisum sativum /GENE: PSPAL2/RE: Motif e/f /TF: unknown 1543. Group TF: CAMTA3 /AC: RSP01735//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM6 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: AUX1 |LOCUS: AT2G38120 |PROD: amino acid permease, putative (AUX1) |15980071..15984258 |SUPPORT | 9 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +500 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.18 T - 0.28 C - 0.13 1 atgtcaaata gtcacattaa tattcaatgc gaaaacgtaa aaaaaagtaa 51 gatgctaccg ttacctaaac aaaagttaat ggtgtgattt tacagcacct 101 gtttaatatt tttaaaatta cataaaaaaa ccaaagagaa gtaagaaaaa 151 atgaaaaaga gagattggta TATAAAAAgg aggagtaggg ggtgaagccc 201 GAAGCATCTT ATAGTATTTT TAGCTTCATT CCTTCTTTTG CTCTGATCAA 251 A Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: stress-responsive protein, putative |LOCUS: AT2G38230 |PROD: the same as GENE |16018534..16019572 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +19 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.14 T - 0.27 C - 0.32 1 aagaaacaaa tcttgtggtc aaagtttcca tacgtagctt ctcttctcta 51 cactcacgtc caccacaatc ctcgtgctcc ttcctctaaa cccgtccgat 101 tcacgtactt ttactatctt ttcTCAATcc aacagctcac agtccacaaa 151 caaatttcaa atcgcgtccT ATAAAATccc ctctcctctg ctccacactc 201 TCTCAAAACC CTAGAAAAAA TGGCAGGAAC CGGAGTTGTG GCGGTGTACG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00114 Mean Expected Number 0.007 +strand -189 : -180 CTTGTgGTCA AC RSP00383 Mean Expected Number 0.008 +strand -184 : -178 GGTCAAA AC RSP00385 Mean Expected Number 0.009 +strand -47 : -40 ATTTCAAA AC RSP01017 Mean Expected Number 0.005 +strand -199 : -192 AGAAACAA AC RSP01046 Mean Expected Number 0.004 +strand -76 : -68 CAATCCAAC AC RSP01599 Mean Expected Number 0.009 +strand -46 : -39 TTTCAAAT Totally 6 motifs of 6 different REs have been found Description of REs found 112. Group RE: B2 /AC: RSP00114//OS: Glycine max /GENE: GmAux28/RE: B2 /TF: unknown 368. Group TF: WRKY1 /AC: RSP00383//OS: Petroselinum crispum /GENE: WRKY1/RE: WA /TF: WRKY1 370. Group RE: ERE-core /AC: RSP00385//OS: Dianthus caryophillus /GENE: GST1/RE: ERE-core /TF: unknown ||Identical REs AC: RSP00893 942. Group TF: AEF /AC: RSP01017//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 2 /TF: AEF 970. Group RE: NON /AC: RSP01046//OS: Nicotiana tabacum /GENE: histone genes (oligo)/RE: NON /TF: unknown 1420. Group RE: Inr /AC: RSP01599//OS: Spinacia oleracea /GENE: RPS1/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: AGT3 |LOCUS: AT2G38400 |PROD: alanine--glyoxylate aminotransferase |16090769..16093427 |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +88 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.14 T - 0.33 C - 0.20 1 atttcaaatt aaaccatgta taattcaatt taggggtaat ttaatacttt 51 agggtagtaa cgataaaata gataattaaa ttgaagttta aggaccatcc 101 tgtaaattca agttcggtac cggaaacacg tcagcATTGA tctaatagat 151 acgagtcctc ctttctcTAT AAATAacgta atctctctcc cgtcttcatt 201 ACCATCGAAA CAGTGTCGTC GTAGTCTCTC TCTCTCTCCG CAAAATATCA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00260 Mean Expected Number 0.008 +strand -172 : -166 TTTAGGG AC RSP00260 Mean Expected Number 0.008 +strand -153 : -147 TTTAGGG AC RSP00864 Mean Expected Number 0.002 -strand +37 : +29 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 -strand +35 : +27 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 -strand +33 : +25 AGAGAGAGA AC RSP00865 Mean Expected Number 0.001 -strand +39 : +31 GGAGAGAGA AC RSP00865 Mean Expected Number 0.001 -strand -11 : -19 GGAGAGAGA AC RSP00894 Mean Expected Number 0.009 +strand -96 : -89 AATTCAAG AC RSP00997 Mean Expected Number 0.004 -strand -66 : -75 GCTGACGTGT AC RSP01174 Mean Expected Number 0.001 +strand -17 : -7 tCTCTCCCGTC AC RSP01258 Mean Expected Number 0.003 -strand -68 : -75 TGACGTGT AC RSP01296 Mean Expected Number 0.006 +strand -34 : -26 CTATAAATA Totally 12 motifs of 8 different REs have been found Description of REs found 253. Group RE: RTBP1 BS /AC: RSP00260//OS: Oryza sativa /GENE: Synthetic OLIGO/RE: RTBP1 BS /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 825. Group TF: Dof family /AC: RSP00894//OS: Solanum melongena /GENE: SmCP/RE: ERE 2 /TF: Dof family 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 1085. Group TF: Zmhox1a /AC: RSP01174//OS: Zea mays /GENE: Sh/RE: Zmhox1a BS 1 /TF: Zmhox1a 1160. Group TF: GBF1 /AC: RSP01258//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS5 /TF: GBF1 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G38450 |PROD: the same as GENE |16109115..16109993 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +78 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.18 T - 0.29 C - 0.15 1 tagtcttaat ttctagtggg ctagggaaaa aaataaaaaa attctagtgg 51 gcttaagagc taggcccata agatatttta atattatttt atacaatgag 101 accaaaccaa aaccaaacaa gagATTGAga agaaaaccga ttttttcctt 151 ttatttattt ttatgttTAT AAATTaaaaa tgggaaaatc gattcccgtc 201 AAAACAGGGC TAAGAGGAGC TTCCGCAGCA GTAGCTGGAT TCATCAAATC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00646 Mean Expected Number 0.000 +strand -31 : -18 tAAATTAAAAATGG AC RSP00716 Mean Expected Number 0.002 +strand -93 : -85 CAAAACCAA AC RSP00868 Mean Expected Number 0.009 +strand -119 : -108 TATTATtTTATA AC RSP01602 Mean Expected Number 0.006 -strand -71 : -78 TCTCAATC Totally 4 motifs of 4 different REs have been found Description of REs found 620. Group RE: C1-box /AC: RSP00646//OS: Daucus carota /GENE: DC 59/RE: C1-box /TF: unknown 681. Group RE: GT motif /AC: RSP00716//OS: Arabidopsis thaliana /GENE: Adh/RE: GT motif /TF: unknown 804. Group RE: TA-rich motif /AC: RSP00868//OS: Nicotiana tabacum /GENE: NiPMT1a/RE: TA-rich motif /TF: unknown 1423. Group RE: Inr /AC: RSP01602//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ANNAT4 |LOCUS: AT2G38750 |PROD: annexin 4 (ANN4) |complement(16203343..16205569) |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +60 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.12 T - 0.29 C - 0.25 1 tatgtaaatt ccgtttgcgt aaaacagttg ttaacatatg caattaattg 51 cgtgggcgtt actccttgtt acaacaatgc ccctagcatt tgtcttaaat 101 cttgtATTGA atacctaaaa cacccttctc ttctcccata aaccacaaca 151 ttacccttaa tcatcaTATA AAACgtcttg tccctcttcc atagatttcc 201 ACAGAAACCA AACCAAGAGC CGGAAATCAA AAACAGTAAT AAAAGATCAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00404 Mean Expected Number 0.006 +strand -187 : -181 TTTGCGT AC RSP00889 Mean Expected Number 0.001 -strand -146 : -152 CCACGCA AC RSP01641 Mean Expected Number 0.004 +strand -25 : -16 TCTTGTCcCT Totally 3 motifs of 3 different REs have been found Description of REs found 386. Group RE: adja /AC: RSP00404//OS: Nicotiana tabacum /GENE: RNP2/RE: adja /TF: unknown 821. Group RE: GC motif /Group TF: bZIP TF /AC: RSP00889//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: GC motif /TF: bZIP TF 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: YLS5 |LOCUS: AT2G38860 |PROD: proteaseI (pfpI)-like protein (YLS5) |complement(16240522..16242313) |SUPPORT | 4 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +28 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.18 T - 0.29 C - 0.16 1 ccacatataa tagttagcag aaactacata ccattcaaag ttatagctag 51 tttatatatt tgtaataagg acttttcacc agttggactt tgaagccacc 101 aaaaaaagta ggtgaaagtg agttggtggg gggattcaaa agttccacat 151 gacaaataga taatcagTAT AAATAagatt agttcttctt atattgtctt 201 ATTCAATGCA CACAAACATT TACCCAAAAT GGCATCGGCG GTTCAGAAAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00357 Mean Expected Number 0.002 -strand -76 : -83 CAACTCAC AC RSP00440 Mean Expected Number 0.001 +strand -132 : -124 GGACTTTTC AC RSP00601 Mean Expected Number 0.000 -strand -70 : -78 CCCCACCAA AC RSP01209 Mean Expected Number 0.001 -strand -93 : -102 CTTTTTTTGG AC RSP01214 Mean Expected Number 0.003 -strand +32 : +23 CCATTTTGGG Totally 5 motifs of 5 different REs have been found Description of REs found 342. Group RE: CARE1 /AC: RSP00357//OS: Oryza sativa /GENE: Rep-1/RE: CARE1 /TF: unknown 420. Group RE: -NF-kB-box /AC: RSP00440//OS: Arabidopsis thaliana /GENE: PR-1/RE: -NF-kB-box /TF: unknown 577. Group RE: C-rich R /AC: RSP00601//OS: Lycopersicon esculentum /GENE: rbcS2/RE: C-rich R /TF: unknown 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs 1122. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01214//OS: Brassica oleracea /GENE: BoCRC/RE: EM1 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: protease inhibitor, putative |LOCUS: AT2G38870 |PROD: the same as GENE |complement(16243459..16244358) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +230 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.16 T - 0.35 C - 0.17 1 ggtcattttt gtcggctaag tgccaaattt ggcagaagcg tttttttgca 51 tgcaaacaga attcagtcga cgctagaaat atttttcacc ttcgtttgtt 101 tttcaaattt cgacattatc ttagccttag aaaccttatc ttgttctcga 151 taaggtttga acatcgtgaT ATAAATAtgt acatttcaaa gctttataaa 201 ACAAAATCAG AAGTGTCAAA GCTTTTACCA AACAAATTAA TAATGTCAAC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00359 Mean Expected Number 0.009 -strand -185 : -190 GCCGAC AC RSP00918 Mean Expected Number 0.005 -strand +50 : +41 GTTGACATTA AC RSP01600 Mean Expected Number 0.009 +strand -17 : -10 TTTCAAAG Totally 3 motifs of 3 different REs have been found Description of REs found 344. Group TF: HvCBF1 /AC: RSP00359//OS: Hordeum vulgare /GENE: HVA1s/RE: GCCGAC motif /TF: HvCBF1 ||Identical REs AC: RSP00952 849. Group TF: Opaque-2 /AC: RSP00918//OS: Zea mays /GENE: O2/RE: B5-like motif /TF: Opaque-2 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: serine protease inhibitor |LOCUS: AT2G38900 |PROD: the same as GENE |16250312..16251132 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +53 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.14 T - 0.24 C - 0.20 1 ctactaaata atagtaaagt tgaagaaccg ctccgtttta caccatgcac 51 gtgttatcta acaaagaaaa tatggtacac ctaatggcta atgcaaagga 101 caacACAATg aaactaactt gactctgtgt tatacaaacc catagacatc 151 tgcatacatc ctagtatttg TATAAATTgg actcaaattc ctgaggacaa 201 TCATAGCAAA CAATCACATC ATCGCAATAT ACATAAACAA AAGAGGAAGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00157 Mean Expected Number 0.007 +strand -35 : -24 ATTTgTATAAAT AC RSP00157 Mean Expected Number 0.007 -strand -24 : -35 ATTTATAcAAAT AC RSP00524 Mean Expected Number 0.005 -strand -147 : -153 ACACGTG AC RSP00915 Mean Expected Number 0.005 -strand +23 : +14 GATGATGTGA AC RSP00916 Mean Expected Number 0.003 -strand +23 : +14 GATGATGTGA AC RSP00974 Mean Expected Number 0.001 -strand -146 : -155 AACACGTGCA Totally 6 motifs of 5 different REs have been found Description of REs found 152. Group RE: D2 /AC: RSP00157//OS: Glycine max /GENE: GmAux28/RE: D2 /TF: unknown 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 846. Group TF: Opaque-2 /AC: RSP00915//OS: Zea mays /GENE: b-32/RE: B3 /TF: Opaque-2 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 897. Group RE: G-box /AC: RSP00974//OS: Glycine max /GENE: vspB/RE: G-box /TF: unknown ||Identical REs AC: RSP00981 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: nodulin MtN3 family protein |LOCUS: AT2G39060 |PROD: the same as GENE |complement(16313766..16315328) |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +44 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.18 T - 0.27 C - 0.12 1 tgcagaaaaa aataaaatcc aggaaaactt gaaccaaact tttgtttttt 51 tgtttaaaaa gagaaagaaa gaaaattaaa taggggacaa aaatgaaaat 101 gcaagaatga ctcacttttt ttttggttta agggtttata agaatgactc 151 actttttctc caagaccaaT ATAAAATgga ggtttgcatg aagaaactat 201 AATTCAAAGC AGTCAACTAG CAAGAGAAAG AGAGAAAAGT GAAGATGTTC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00107 Mean Expected Number 0.008 -strand -11 : -17 CATGCAA AC RSP00190 Mean Expected Number 0.008 -strand -50 : -56 TGAGTCA AC RSP00190 Mean Expected Number 0.008 -strand -87 : -93 TGAGTCA AC RSP00430 Mean Expected Number 0.000 -strand -49 : -57 GTGAGTCAT AC RSP00430 Mean Expected Number 0.000 -strand -86 : -94 GTGAGTCAT AC RSP00444 Mean Expected Number 0.002 +strand -140 : -127 gAGAAAGAAAGAAA AC RSP00445 Mean Expected Number 0.002 -strand -80 : -89 AAAAAAGtGA AC RSP00871 Mean Expected Number 0.002 -strand -48 : -57 aGTGAGTCAT AC RSP00871 Mean Expected Number 0.002 -strand -85 : -94 aGTGAGTCAT AC RSP00985 Mean Expected Number 0.007 -strand -161 : -170 AGTTtGGTTC AC RSP01104 Mean Expected Number 0.002 -strand -16 : -23 AAACCTCC Totally 11 motifs of 8 different REs have been found Description of REs found 105. Group RE: RY2 /AC: RSP00107//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY2 /TF: unknown 184. Group RE: GCN4 box /AC: RSP00190//OS: Oryza sativa /GENE: GluB-1/RE: GCN4 box /TF: unknown ||Identical REs AC: RSP00666 RSP00959 410. Group TF: BLZ1 /AC: RSP00430//OS: Hordeum vulgare /GENE: Hor2 gene/RE: GSN; hor1-box; /TF: BLZ1 ||Identical REs AC: RSP00883 424. Group TF: Dof1 /AC: RSP00444//OS: Zea mays /GENE: cyPPDK1/RE: box d /TF: Dof1 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 807. Group RE: GLM1 /AC: RSP00871//OS: Triticum aestivum /GENE: LMWG-1D1/RE: GLM1 /TF: unknown 906. Group TF: PBP (Myb305) /AC: RSP00985//OS: Antirrhinum majus /GENE: gPAL2/RE: P-box /TF: PBP (Myb305) 1022. Group RE: AC2 /AC: RSP01104//OS: Spinacia oleracea /GENE: rps22/RE: AC2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: jacalin lectin family protein |LOCUS: AT2G39310 |PROD: the same as GENE |complement(16421152..16423892) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +491 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.14 T - 0.34 C - 0.20 1 aaatatctct gcatctagaa agttgtatgc tattattata tattgcactc 51 gtaatggact ctaattattt gttgcatttg tgagggagtc tctcgtgtca 101 cacgagttga ttattaaaat gattaattaa agACAATcaa gaagaccttg 151 tatgccaaag attgtcAATA AATAcacaca attcaatacc cataagcttc 201 ATCTCCTTCC ATCATTCAGA GCTCAATAAT TAACTGGTTA TCTCTCTCCC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00039 Mean Expected Number 0.007 +strand -128 : -118 TGcATTTGTGA AC RSP00613 Mean Expected Number 0.008 +strand -65 : -58 ATCAAGAA AC RSP00681 Mean Expected Number 0.005 -strand -72 : -80 TAATTAATC AC RSP00865 Mean Expected Number 0.001 -strand +49 : +41 GGAGAGAGA AC RSP00979 Mean Expected Number 0.005 -strand -171 : -180 gCATACAACT Totally 5 motifs of 5 different REs have been found Description of REs found 38. Group TF: GT-1 related TFs /AC: RSP00039//OS: Lycopersicon esculentum /GENE: LAT56; LAT59;/RE: 56/59 box /TF: GT-1 related TFs 589. Group RE: UN Z1 /AC: RSP00613//OS: Lycopersicon esculentum /GENE: rbcS2/RE: UN Z1 /TF: unknown 650. Group RE: Box 4 /AC: RSP00681//OS: Pisum sativum /GENE: PSPAL2/RE: Box 4 /TF: unknown 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 901. Group RE: Box I /AC: RSP00979//OS: Glycine max /GENE: vspA/RE: Box I /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: jacalin lectin family protein |LOCUS: AT2G39330 |PROD: the same as GENE |complement(16426674..16428928) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +277 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.15 T - 0.35 C - 0.15 1 aaattacaaa ttatggggat tggtttggcc ttgtaaaatg ttttccttct 51 catattcttt ttgaaggaaa agtaaaggga acagaaaaag gtcaatcatg 101 atttagttac aacttacaag tataactaaa ttATTGGaat caacaaaaac 151 gtgttccaaa ttgtatcAAT AAATAgacat agttgatagt tccttaattt 201 CATTCTGAAT AAGATCAAGA ATTTACAGGT TCTCTCTTCT CTCTCTCTCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00377 Mean Expected Number 0.002 -strand -176 : -185 AACCAATCCC AC RSP00653 Mean Expected Number 0.001 +strand +30 : +40 TTCTCTCTtCT AC RSP00864 Mean Expected Number 0.001 -strand +48 : +40 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand +46 : +38 AGAGAGAGA AC RSP01640 Mean Expected Number 0.005 -strand -19 : -28 CTATGTCTaT AC RSP01702 Mean Expected Number 0.008 -strand -46 : -55 AACACGTtTT Totally 6 motifs of 5 different REs have been found Description of REs found 362. Group RE: LS5 /AC: RSP00377//OS: Lemna gibba /GENE: Lhcb2 (cabAB19)/RE: LS5 /TF: unknown 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown 1511. Group RE: ACGT1 /AC: RSP01702//OS: Arabidopsis thaliana /GENE: XERO2/RE: ACGT1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ATEXPA4 |LOCUS: AT2G39700 |PROD: expansin, putative (EXP4) |complement(16550910..16552662) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +150 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.08 T - 0.32 C - 0.27 1 attagattac attaaaaaaa tgacaaaacg gttacaaacc tacctccacc 51 ttacgtagaa atagtaatct tattttaaaa gttttaactt tgacaaaagg 101 aaattaaaat ttagCCAATt atctctcgat ctctctctct cactctaact 151 ttggagtttc cttccctcCA TAAATAccga acctcactcc ttcttcctcc 201 ACCATCCTCA TCTCTCAATC AACAAACCTA ACTCTTTCTC TATACAAGAG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00035 Mean Expected Number 0.005 +strand -107 : -101 CAAAAGG AC RSP00395 Mean Expected Number 0.006 +strand -150 : -141 TTACGTAGAa AC RSP00405 Mean Expected Number 0.000 +strand -51 : -44 TTTGGAGT AC RSP00428 Mean Expected Number 0.001 +strand -178 : -167 AcAAAACGGTTA AC RSP00864 Mean Expected Number 0.004 -strand -61 : -69 AGAGAGAGA AC RSP00864 Mean Expected Number 0.004 -strand -63 : -71 AGAGAGAGA AC RSP01094 Mean Expected Number 0.006 -strand -80 : -91 TAATTGGcTAAA AC RSP01598 Mean Expected Number 0.007 -strand -176 : -183 TGTCATTT Totally 8 motifs of 7 different REs have been found Description of REs found 34. Group RE: D1 /Group TF: Dof family /AC: RSP00035//OS: Hordeum vulgare /GENE: Al21/RE: D1 /TF: Dof family 378. Group TF: Opaque-1 /AC: RSP00395//OS: Zea mays /GENE: gamma-27kDa zein/RE: O2-like-box /TF: Opaque-1 387. Group RE: adjb /AC: RSP00405//OS: Nicotiana tabacum /GENE: RNP2/RE: adjb /TF: unknown 409. Group TF: Myb26 /AC: RSP00428//OS: Pisum sativum /GENE: Synthetic OLIGO/RE: Myb1 /TF: Myb26 ||Identical REs AC: RSP00919 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1012. Group TF: GT-1 /AC: RSP01094//OS: Pisum sativum /GENE: GS2/RE: GT-1 box /TF: GT-1 1419. Group RE: Inr /AC: RSP01598//OS: Spinacia oleracea /GENE: RPL21/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G39705 |PROD: the same as GENE |16563934..16564655 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +182 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.06 T - 0.34 C - 0.21 1 ataccgactg ccacaactct ctgcatcctc ttctaatttt atatttatca 51 caaaatccga caaaagtata caaaaatcaa taaatattta acctataata 101 tttatctttg catattataa taattattat tttaaaatcg aaatggttct 151 acaataaaaa tatccatTAT AAATAcagaa ccctaactct cttttcagtt 201 GCTGACTCAA ATCTCCAAAC TCCTAGAAAA TCTCCAAATT CCCAAGTTTG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00403 Mean Expected Number 0.009 +strand -5 : +1 CAGTTG AC RSP01304 Mean Expected Number 0.007 +strand -24 : -15 aGAACCCTAA AC RSP01621 Mean Expected Number 0.005 -strand -131 : -140 TAtACTTTTG Totally 3 motifs of 3 different REs have been found Description of REs found 385. Group TF: Myb /AC: RSP00403//OS: Nicotiana tabacum /GENE: RNP2/RE: Mybb /TF: Myb 1197. Group RE: Telo box /AC: RSP01304//OS: Lycopersicon esculentum /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1441. Group TF: GmDof4; GmDof22 /AC: RSP01621//OS: Glycine max /GENE: Synthetic OLIGO/RE: E4 /TF: GmDof4; GmDof22 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: CYT1 |LOCUS: AT2G39770 |PROD: GDP-mannose pyrophosphorylase (GMP1) |16595783..16598063 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +696 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.13 T - 0.35 C - 0.19 1 ttggtgtata agcgtctacg tgacctttaa ttaatttact tcccccaaaa 51 aagtcaacat tcaacatgtg aataaaaatc aatattggtt tctaagtaag 101 taagtaccat attattaaat tatttatttt ggtaaatacg cacTCAATtt 151 ttctctcaac ggtgtaTATA AACAaaagga gtctcctttg gaaaaaactt 201 GCCTATCATT TTGCCAACGA ACGTTCTTTC TTCTTAATCA CAGCTCAGCC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00035 Mean Expected Number 0.009 +strand -28 : -22 CAAAAGG AC RSP00068 Mean Expected Number 0.005 -strand -177 : -186 GtCACGTAGA AC RSP00115 Mean Expected Number 0.009 +strand -129 : -119 ATAaAAATCAA AC RSP00170 Mean Expected Number 0.000 +strand -87 : -72 aTTAAATTATTTATTT AC RSP00233 Mean Expected Number 0.007 +strand -186 : -177 TCTACGTgAC AC RSP01209 Mean Expected Number 0.006 -strand -148 : -157 CTTTTTTGGG Totally 6 motifs of 6 different REs have been found Description of REs found 34. Group RE: D1 /Group TF: Dof family /AC: RSP00035//OS: Hordeum vulgare /GENE: Al21/RE: D1 /TF: Dof family 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 113. Group TF: ATBP-1 /AC: RSP00115//OS: Pisum sativum /GENE: GS2/RE: BOX 1 /TF: ATBP-1 164. Group RE: Element 2 /AC: RSP00170//OS: Glycine max /GENE: lbc3/RE: Element 2 /TF: unknown 226. Group RE: LS5 /Group TF: TGA2 & NPR1/NIM1 /AC: RSP00233//OS: Arabidopsis thaliana /GENE: PR-1/RE: LS5 /TF: TGA2 & NPR1/NIM1 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G40000 |PROD: the same as GENE |complement(16707588..16709106) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +72 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.09 T - 0.30 C - 0.27 1 ataaagccaa aaaacgaaaa aaagattatc ctgaaattaa tccacagtac 51 tggttttttt tttttttaaa aaggagaccg cgtttctacg ctgactttca 101 aatcagtcgc gtcggtatta ttccacacgc cttttttctc gtccccatcc 151 tctatccaca tttctctcTA TATATActct cctcgtatcc taaactcatc 201 CTCAAATTCA AAATTTAACA CACAAACACA AACACACACA CCAAAAAAAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00163 Mean Expected Number 0.003 +strand -71 : -61 CCTTTTtTCTC AC RSP00255 Mean Expected Number 0.004 +strand -7 : +2 ACTCATCCT AC RSP00422 Mean Expected Number 0.004 -strand -85 : -90 ACCGAC AC RSP00940 Mean Expected Number 0.002 +strand -117 : -108 TTCTACGcTG AC RSP01237 Mean Expected Number 0.002 +strand -35 : -26 CTCTATATAT Totally 5 motifs of 5 different REs have been found Description of REs found 158. Group TF: ARF1 /AC: RSP00163//OS: Glycine max /GENE: Synthetic OLIGO/RE: DR5 /TF: ARF1 248. Group RE: ACTCAT motif /AC: RSP00255//OS: Arabidopsis thaliana /GENE: ProDH/RE: ACTCAT motif /TF: unknown 403. Group RE: DRE2 /AC: RSP00422//OS: Zea mays /GENE: rab17/RE: DRE2 /TF: unknown ||Identical REs AC: RSP00951 RSP01036 RSP01548 RSP01564 869. Group TF: GBF /AC: RSP00940//OS: Lycopersicon esculentum /GENE: RbcS-3.6/RE: box II* /TF: GBF 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ELF4 |LOCUS: AT2G40080 |PROD: expressed protein |complement(16741372..16741990) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +32 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.17 T - 0.29 C - 0.21 1 tactttttat tcctctaccc aatcacttca cagcttcact cacgcgcgtg 51 ttctttgata tcagatagat acgtctacgt gagatacacg ctcttgttaa 101 tcaagtggtg atgaaacaga acttactcgc ctcggtgtcc gattctactc 151 agaagatatt tacTATAAAT Atctgatttc tctcgacttt gacgaaaatc 201 AAAAAGAGAG AAAAACACAA TTAAAAATTA TTATGAAGAG GAACGGCGAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00319 Mean Expected Number 0.002 +strand -51 : -43 CAGAAGATA AC RSP00474 Mean Expected Number 0.000 +strand -99 : -88 CAAGTGGTGaTG AC RSP00522 Mean Expected Number 0.008 -strand -93 : -99 CCACTTG AC RSP00523 Mean Expected Number 0.004 -strand -150 : -156 ACACGCG AC RSP01167 Mean Expected Number 0.005 +strand -35 : -27 TAAATATCT AC RSP01167 Mean Expected Number 0.004 -strand -39 : -47 TAAATATCT AC RSP01296 Mean Expected Number 0.005 +strand -38 : -30 CTATAAATA AC RSP01776 Mean Expected Number 0.009 +strand +17 : +27 ACAATTAAAaA Totally 8 motifs of 7 different REs have been found Description of REs found 305. Group TF: R-GATA /AC: RSP00319//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: GATA motif /TF: R-GATA 452. Group TF: Alfin1 /AC: RSP00474//OS: Medicago sativa /GENE: MSPRP2/RE: Alfin1 BS4 /TF: Alfin1 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 499. Group TF: DPBF-1; DPBF-2 /AC: RSP00523//OS: Daucus carota /GENE: Dc3/RE: E3-core /TF: DPBF-1; DPBF-2 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1575. Group TF: SIP1 /AC: RSP01776//OS: Lotus japonicus /GENE: AT-rich motif/RE: 39-bp element /TF: SIP1 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: Bet v I allergen family protein |LOCUS: AT2G40330 |PROD: the same as GENE |complement(16851942..16853012) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +110 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.14 T - 0.27 C - 0.24 1 ccagtccgta gaatttcatg ggaaaccggg ccggtccttg atataaagaa 51 agagagagac gtttcttaac tgaagcagta cacaaactcc aaacaaatcc 101 caagtggaca accgaagaac ccacacaaac taactctctt tcctaatcca 151 catacttgca tttttataTA TAAACActct gtccttatat agttctgtat 201 ATTACATGTA AATATCTCTC ATTAATACAA CCTCACGAAG AAAACCATTT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00522 Mean Expected Number 0.005 -strand -94 : -100 CCACTTG AC RSP00597 Mean Expected Number 0.005 -strand -67 : -78 GTTAgTTTGTGT AC RSP00683 Mean Expected Number 0.002 +strand -102 : -93 cCCAAGTGGA AC RSP00861 Mean Expected Number 0.001 +strand -154 : -146 AGAAAGAGA AC RSP00864 Mean Expected Number 0.000 +strand -150 : -142 AGAGAGAGA AC RSP01167 Mean Expected Number 0.005 +strand +9 : +17 TAAATATCT Totally 6 motifs of 6 different REs have been found Description of REs found 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 573. Group RE: GT-1/16 JJ1 /AC: RSP00597//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: GT-1/16 JJ1 /TF: unknown 652. Group TF: GBF3 /AC: RSP00683//OS: Arabidopsis thaliana /GENE: Adh/RE: -190 half G-box (core) /TF: GBF3 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: AP2 domain-containing transcription factor |LOCUS: AT2G40340 |PROD: the same as GENE |complement(16855516..16857565) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +130 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.16 T - 0.25 C - 0.22 1 gaaattacaa agaagctttg agggtaaaat agtcaaaaag cataatcaga 51 aataacttag gcccaaagca aaaaggaaag gactctggat ccagccgcaa 101 atcagaatct ggtaagttcg aacgccacgt catcacctaa atatctgaaa 151 tatctaatta agacttgtcT ATATATAaag gcttctcctt tcacaatccc 201 AAACCTTTCT CTTCTCTGCT AACGAGAAAA CAAAAGCTAT CGTCTTTGCT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00113 Mean Expected Number 0.000 -strand -69 : -77 TGACGTGGC AC RSP00214 Mean Expected Number 0.003 -strand -69 : -76 TGACGTGG AC RSP00215 Mean Expected Number 0.003 +strand -76 : -69 CCACGTCA AC RSP00248 Mean Expected Number 0.003 +strand -77 : -68 GCCACGTCAt AC RSP00819 Mean Expected Number 0.002 +strand -77 : -68 GCCACGTCaT AC RSP00821 Mean Expected Number 0.002 +strand -77 : -68 GCCACGTCaT AC RSP00847 Mean Expected Number 0.007 +strand -76 : -67 CCACgTCATC AC RSP00913 Mean Expected Number 0.003 -strand -67 : -76 GATGACGTGG AC RSP00915 Mean Expected Number 0.006 -strand -67 : -76 GATGACGTGG AC RSP00916 Mean Expected Number 0.003 -strand -67 : -76 GATGACGTGG AC RSP00943 Mean Expected Number 0.006 +strand -15 : -5 TCcTTTCACAA AC RSP00997 Mean Expected Number 0.005 -strand -67 : -76 GATGACGTGG AC RSP01034 Mean Expected Number 0.006 -strand -71 : -77 ACGTGGC AC RSP01106 Mean Expected Number 0.000 +strand -79 : -69 ACGCCACGTCA AC RSP01167 Mean Expected Number 0.004 +strand -63 : -55 TAAATATCT AC RSP01237 Mean Expected Number 0.007 +strand -34 : -25 gTCTATATAT AC RSP01237 Mean Expected Number 0.010 -strand -21 : -30 CTtTATATAT AC RSP01275 Mean Expected Number 0.004 +strand -77 : -68 gCCACGTCAT AC RSP01280 Mean Expected Number 0.001 -strand -67 : -77 GaTGACGTGGC AC RSP01596 Mean Expected Number 0.006 -strand -5 : -15 TTGTGAAAgGA Totally 20 motifs of 19 different REs have been found Description of REs found 111. Group RE: TGA2 /AC: RSP00113//OS: Glycine max /GENE: GH3/RE: TGA2 /TF: unknown 207. Group TF: TGA1; GBF1 /AC: RSP00214//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: TGA1; GBF1 ||Identical REs AC: RSP01257 RSP01474 208. Group TF: HBP-11(17); HBP-1b(c38) /AC: RSP00215//OS: Triticum aestivum /GENE: H3/RE: Hex /TF: HBP-11(17); HBP-1b(c38) 241. Group TF: REB /AC: RSP00248//OS: Oryza sativa /GENE: alpha-globulin/RE: REB2 /TF: REB 765. Group TF: ACE-binding TF /AC: RSP00819//OS: Arabidopsis thaliana /GENE: F3H/RE: ACE-core (AtF3H) /TF: ACE-binding TF 767. Group TF: ACE-binding TF /AC: RSP00821//OS: Arabidopsis thaliana /GENE: FLS/RE: ACE-core (AtFLS) /TF: ACE-binding TF 789. Group RE: NON /AC: RSP00847//OS: Zea mays /GENE: H3C4/RE: NON /TF: unknown 844. Group TF: Opaque-2 /AC: RSP00913//OS: Zea mays /GENE: b-32/RE: B1 /TF: Opaque-2 846. Group TF: Opaque-2 /AC: RSP00915//OS: Zea mays /GENE: b-32/RE: B3 /TF: Opaque-2 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 872. Group TF: GBF /AC: RSP00943//OS: Lycopersicon esculentum /GENE: RbcS-3.6/RE: box III /TF: GBF 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1024. Group RE: rHex /AC: RSP01106//OS: Spinacia oleracea /GENE: rps22/RE: rHex /TF: unknown 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1174. Group RE: ACE 2 /AC: RSP01275//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 2 /TF: unknown 1179. Group TF: OBF4; OBF5 /AC: RSP01280//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: OBF4; OBF5 1417. Group RE: Box III /AC: RSP01596//OS: Pisum sativum /GENE: rbcS-3.6/RE: Box III /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ATEXPA8 |LOCUS: AT2G40610 |PROD: expansin, putative (EXP8) |complement(16955941..16957635) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +85 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.11 T - 0.27 C - 0.22 1 taacgagaaa taaaaggcac aattctctcg caaattggtc aaaaatacga 51 ataaataaat caactaaata cccaaaaagg tgaaagaatt agagacaccC 101 CAATgtactt catatagtaa acatttaaat atgattatcg cttggcacaa 151 ttattcactc gagtaccccT ATATATAccc attccttcca tttgtagatt 201 CCATATTATT CACGATTCTC ATCAAATCAT CTCCGATACT CACAACCGAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01015 Mean Expected Number 0.005 -strand -7 : -16 CAAATGgAAG AC RSP01033 Mean Expected Number 0.007 -strand -121 : -130 CCTTTTTGGG AC RSP01214 Mean Expected Number 0.004 -strand -121 : -130 CCTTTTTGGG Totally 3 motifs of 3 different REs have been found Description of REs found 940. Group TF: GAPF /AC: RSP01015//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 3 /TF: GAPF 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1122. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01214//OS: Brassica oleracea /GENE: BoCRC/RE: EM1 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: calmodulin-like calcium-binding protein |LOCUS: AT2G41090 |PROD: the same as GENE |17142862..17143930 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +39 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.46 G - 0.18 T - 0.20 C - 0.15 1 aaataaatgt ttctttcaaa taaatggaaa tacaaaaaag aaaagaaaaa 51 aaagacagca tttaatgatg ataacgattt ggaagaagga accaaccaat 101 tagagtaaca aaccaaggag gcgactcaca tgaaagcaaa agctgacatg 151 gcagtgaatt cagtttTATA AAAAaggctt caaggccgag agttcgtagt 201 ACAAACTCTT CTCTCAGTCA TCACAGAAAA TAAAAAACAA TGGCGAATAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00171 Mean Expected Number 0.007 -strand +15 : +10 GAGAGA AC RSP00248 Mean Expected Number 0.001 -strand -49 : -58 GCCAtGTCAG AC RSP00534 Mean Expected Number 0.002 +strand -139 : -127 tTAATGATGATAA AC RSP00913 Mean Expected Number 0.003 +strand -59 : -50 GcTGACATGG AC RSP01016 Mean Expected Number 0.001 -strand -187 : -194 AGAAACAT AC RSP01599 Mean Expected Number 0.006 +strand -187 : -180 TTTCAAAT Totally 6 motifs of 6 different REs have been found Description of REs found 165. Group RE: GAGAGA motif /AC: RSP00171//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: GAGAGA motif /TF: unknown 241. Group TF: REB /AC: RSP00248//OS: Oryza sativa /GENE: alpha-globulin/RE: REB2 /TF: REB 510. Group RE: LRE-TATA O2 /AC: RSP00534//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: LRE-TATA O2 /TF: unknown 844. Group TF: Opaque-2 /AC: RSP00913//OS: Zea mays /GENE: b-32/RE: B1 /TF: Opaque-2 941. Group TF: AEF /AC: RSP01016//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 1 /TF: AEF 1420. Group RE: Inr /AC: RSP01599//OS: Spinacia oleracea /GENE: RPS1/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G41660 |PROD: the same as GENE |17374900..17376267 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +123 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.12 T - 0.34 C - 0.21 1 gcgtattggt aacaagtaat atactgtact aaattactaa tacttatatt 51 gttaaactaa ctctatgttt tctagctgat aatgttatcc ttaataaact 101 aACAATatat gtttaatttt atgggggcct cccaaatgat aagcaataaa 151 tattgatgca aaatgtgTAT AAATAcacac acaaatcggc cacacctctt 201 GAACACTCAT CATCACTTTG GTCGGCCGCT TTCTTCCTTC CTTCCTCCTC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00054 Mean Expected Number 0.009 -strand -57 : -63 GCTTATC AC RSP00359 Mean Expected Number 0.007 -strand +26 : +21 GCCGAC Totally 2 motifs of 2 different REs have been found Description of REs found 53. Group RE: C2a-BS /AC: RSP00054//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: C2a-BS /TF: unknown 344. Group TF: HvCBF1 /AC: RSP00359//OS: Hordeum vulgare /GENE: HVA1s/RE: GCCGAC motif /TF: HvCBF1 ||Identical REs AC: RSP00952 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G42530 |PROD: the same as GENE |complement(17716114..17717023) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +72 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.15 T - 0.36 C - 0.20 1 ttgatggccg acctcttttt tcttttggta accatagaaa tggttacacg 51 taactagtac gaaccaacga aaactcttct tattcgatag ttaaagataa 101 taGCAATgcg caaaaatatc tagcactcac acgtgtagtt ttggattctc 151 attggtcgag agatcTATAA AACgatacta ttggaggtta gatttttctc 201 ATCTCACTTT CTCCATCTTA AAACTCTTTC TTGTATTTAT TTTCCTCCCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00230 Mean Expected Number 0.006 -strand -7 : -16 AAtCTAACCT AC RSP00524 Mean Expected Number 0.007 +strand -72 : -66 ACACGTG AC RSP00524 Mean Expected Number 0.008 -strand -65 : -71 ACACGTG AC RSP00888 Mean Expected Number 0.006 -strand -4 : -12 AAAAATCTA AC RSP01256 Mean Expected Number 0.002 +strand -72 : -65 ACACGTGT AC RSP01256 Mean Expected Number 0.002 -strand -65 : -72 ACACGTGT AC RSP01261 Mean Expected Number 0.004 -strand -148 : -155 TTACGTGT AC RSP01469 Mean Expected Number 0.010 +strand -74 : -65 TCACAcGTGT Totally 8 motifs of 6 different REs have been found Description of REs found 223. Group TF: PcMYB1 /AC: RSP00230//OS: Petroselinum crispum /GENE: CHS-1/RE: MRECHS /TF: PcMYB1 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 820. Group TF: CCA1 /AC: RSP00888//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: CCA1 motif (2) /TF: CCA1 1159. Group TF: GBF1 /AC: RSP01256//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS3 /TF: GBF1 1163. Group TF: GBF1 /AC: RSP01261//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS8 /TF: GBF1 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: PDF1 |LOCUS: AT2G42840 |PROD: protodermal factor 1 (PDF1) |complement(17833078..17834560) |SUPPORT | 4 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +57 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.10 T - 0.35 C - 0.25 1 ttttaattta ctttgcagaa ttccaagttt tattgcaatc accaggggta 51 ttaaatggga tagtgtaaat gcacctgcaa cacatcaact aaccacacac 101 tcctccacct gtttgtattt acttcaaaaa cttaattcaa aaatcccttt 151 gcttctttcc ttccctctat tTATAAACCc tagtatccgg tttttattct 201 ACCACACAAT ACCATTTGCA ACAAACTTCT CTCTGAATCT CAGTGAATTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00642 Mean Expected Number 0.006 +strand -135 : -128 TAAATGCA Totally 1 motifs of 1 different REs have been found Description of REs found 617. Group RE: L1-box /AC: RSP00642//OS: Arabidopsis thaliana /GENE: PDF1/RE: L1-box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G42870 |PROD: the same as GENE |complement(17843493..17844327) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +63 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.08 T - 0.29 C - 0.25 1 gttcataacc gaacctttca ctaatgtaag caaacaatgt aacataaagc 51 atagcaaacc aaatcaaacc gatagagtat tgtctctaaa ctcgcaacaa 101 accaaaataa aatcaggttg aaccgaccac atttcaacat ttttgtctac 151 taaatccatc atcactcaTA TATATAtata taacacacac agttacacat 201 ATCCACATTC CTTACTTGTT CATTATTCTC TCAGACTCAT CATTCATCTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01641 Mean Expected Number 0.003 +strand -123 : -114 TaTTGTCTCT Totally 1 motifs of 1 different REs have been found Description of REs found 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: MSS3 |LOCUS: AT2G43290 |PROD: calmodulin-like protein (MSS3) |complement(17998129..17999124) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +92 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.11 T - 0.37 C - 0.19 1 ctctataaaa tcgttgtttt cttctttgta acgttccatt ttaatttact 51 ttctccaaaa agtaaaggat taaaaattag attcaacggt tgtataggcg 101 tgaaaaagaa aaaataattt ccggaaaaat atactattta ataattataa 151 taaattctct ctctctcctc TATAAAGAca aacaatctcc aagtttctct 201 GTATCAACAA AGCTCTGTTT CAAGCTCTCT GTTTCTCAGA TCTTCTCTCT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00400 Mean Expected Number 0.008 +strand -114 : -109 CGGTTG AC RSP00653 Mean Expected Number 0.005 +strand -42 : -32 cTCTCTCTCCT AC RSP00864 Mean Expected Number 0.002 -strand -35 : -43 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 -strand -37 : -45 AGAGAGAGA AC RSP00865 Mean Expected Number 0.001 -strand -33 : -41 GGAGAGAGA AC RSP01054 Mean Expected Number 0.002 -strand -166 : -176 AACGTTACAAa Totally 6 motifs of 5 different REs have been found Description of REs found 382. Group TF: Myb /AC: RSP00400//OS: Nicotiana tabacum /GENE: RNP2/RE: Myba /TF: Myb 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 974. Group TF: GT-3a /AC: RSP01054//OS: Arabidopsis thaliana /GENE: cab2/RE: GT-3a Box III (1) /TF: GT-3a ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: ATTI2 |LOCUS: AT2G43520 |PROD: trypsin inhibitor, putative |18075638..18076219 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +50 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.18 T - 0.27 C - 0.18 1 atttatttta ccaccgtgct attatatcag ggatataaag aggcaagtgg 51 ttacttttct tatcaatact gatctcaact cgtgacccgt ggttgtcatg 101 ataatttcta gacccaacga taaagataaa atagtagcat cgcaccacaa 151 caagtgttga gcatgagtcT ATATATAtac acatacgtta actccaaagt 201 GAAACAAAGA GATTAGAAAC TACGGAGAGA AAGAGAGAAG ATATATAGCC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00103 Mean Expected Number 0.006 +strand -22 : -13 aCACATACGT AC RSP00405 Mean Expected Number 0.007 -strand -3 : -10 TTTGGAGT AC RSP00522 Mean Expected Number 0.010 -strand -151 : -157 CCACTTG AC RSP00861 Mean Expected Number 0.004 +strand +28 : +36 AGAAAGAGA AC RSP01237 Mean Expected Number 0.007 +strand -34 : -25 gTCTATATAT AC RSP01237 Mean Expected Number 0.007 +strand -32 : -23 CTaTATATAT Totally 6 motifs of 5 different REs have been found Description of REs found 101. Group RE: Z element /AC: RSP00103//OS: Agrobacterium tumefaciens /GENE: nos/RE: Z element /TF: unknown 387. Group RE: adjb /AC: RSP00405//OS: Nicotiana tabacum /GENE: RNP2/RE: adjb /TF: unknown 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: trypsin inhibitor, putative |LOCUS: AT2G43550 |PROD: the same as GENE |18080311..18080982 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +29 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.15 T - 0.32 C - 0.18 1 tgtttaatcc aagataaaag acagaactag tggagcttaa aaaagatcac 51 gtgaaaaacg tctttaccta caaagcaata taatccagat ttgcccaatc 101 tagtagggac tgttcgtgcc tccgatattt gtagtttcct ttttttttgg 151 ctccgaatat ttatttgaTA TTAATAagat tttacaaaag aagctcaatc 201 AATCATTTCA TATCACTTTA AAAGCAGCAA TGTCCGAATA CATCTCCAAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00155 Mean Expected Number 0.000 -strand +6 : -7 AtGATTGATTGAG AC RSP00234 Mean Expected Number 0.003 -strand +25 : +16 GCTTTTAAAG AC RSP01210 Mean Expected Number 0.001 -strand -156 : -165 CTTTTTTAAG AC RSP01638 Mean Expected Number 0.002 +strand -133 : -123 CTACAAAGCAA Totally 4 motifs of 4 different REs have been found Description of REs found 150. Group RE: 13 bp CytRE /AC: RSP00155//OS: Cucumis sativus /GENE: hpr-A/RE: 13 bp CytRE /TF: unknown 227. Group RE: CArG Box 2 /AC: RSP00234//OS: Arabidopsis thaliana /GENE: AGAMAOUS (AG)/RE: CArG Box 2 /TF: unknown 1120. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01210//OS: Lepidium africanum /GENE: LaCRC/RE: EM2 /TF: MADS box TFs 1458. Group RE: TERE /AC: RSP01638//OS: Arabidopsis thaliana /GENE: AGP/RE: TERE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G44060 |PROD: the same as GENE |18233395..18235226 |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +603 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.18 T - 0.35 C - 0.18 1 tccgaatttt gggggtcttt ctgtactaat caaaaatgtg atcttctttg 51 ttgtaatatc ttgaaattga ggtgtcgaaa tggatgtcaa ttttaaaagC 101 CAATaaggat cttacacgac gaaaattttg tcggcgagcg aagattacgc 151 gtcacattga taatagttaa TATAAAGTtc aacggatcaa ccaattccac 201 AATCTATAAT CATTTTGTGA CTCTTGGAGC ACTCTCTTCT CTTTGTCTCT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00377 Mean Expected Number 0.002 +strand -12 : -3 AACCAATtCC AC RSP01640 Mean Expected Number 0.007 +strand +41 : +50 CTtTGTCTCT Totally 2 motifs of 2 different REs have been found Description of REs found 362. Group RE: LS5 /AC: RSP00377//OS: Lemna gibba /GENE: Lhcb2 (cabAB19)/RE: LS5 /TF: unknown 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: senescence-associated protein-related |LOCUS: AT2G44670 |PROD: the same as GENE |18432255..18433135 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +99 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.18 T - 0.30 C - 0.22 1 aataaaatat aataaaagta atgaattatt gaactttaac gtatagatct 51 ttcgagatga agattcggtc acgatgaacg gtgaggatgt attgtagagt 101 actgtaacta aagtggtacg tgacacaggt gatcagctca agtcaagcag 151 aaagtcctaa agccggcttT ATAAATGaac accaaatcaa cctccttctt 201 CCTCCTCCTC CTCTCGCTTC TTCTTCTTCC TCTCGAATCT GCTTTTCGCA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00022 Mean Expected Number 0.006 +strand -192 : -184 ATAATAAAA AC RSP00072 Mean Expected Number 0.008 +strand -85 : -79 GTACGTG AC RSP00868 Mean Expected Number 0.004 -strand -187 : -198 TATTATATTtTA AC RSP01469 Mean Expected Number 0.009 -strand -69 : -78 TCACcTGTGT AC RSP01687 Mean Expected Number 0.010 +strand -37 : -31 CGGCTTT Totally 5 motifs of 5 different REs have been found Description of REs found 21. Group TF: PCF1 /AC: RSP00022//OS: Pisum sativum /GENE: petE/RE: A/T-rich BOX1 /TF: PCF1 71. Group RE: ACGT box /AC: RSP00072//OS: Oryza sativa /GENE: GluB-1/RE: ACGT box /TF: unknown 804. Group RE: TA-rich motif /AC: RSP00868//OS: Nicotiana tabacum /GENE: NiPMT1a/RE: TA-rich motif /TF: unknown 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) 1505. Group RE: CARE E /AC: RSP01687//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE E /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G44770 |PROD: the same as GENE |18464397..18467458 |SUPPORT | 10 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +495 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.16 T - 0.30 C - 0.24 1 cgtttgactt aagtgccaaa ttaattaacc aatgcttaat gacctaacca 51 aagtcacttt ttattttagt ccggtatgac ttgtgacggc gacgctgaaa 101 acgATTGAag tacacgcgcg gggtcctcca gcctaattgc cacctgtaca 151 ccagccctgt ccgtcgtaac TATAAAAAtc tcattttcct tttttatttt 201 ATTTCCAAAC CTCCAAACAA TTAAAGAAAC GGCAAAAATT TATGCTGAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00523 Mean Expected Number 0.007 +strand -89 : -83 ACACGCG AC RSP01104 Mean Expected Number 0.007 +strand +7 : +14 AAACCTCC AC RSP01776 Mean Expected Number 0.006 +strand +17 : +27 ACAATTAAAGA Totally 3 motifs of 3 different REs have been found Description of REs found 499. Group TF: DPBF-1; DPBF-2 /AC: RSP00523//OS: Daucus carota /GENE: Dc3/RE: E3-core /TF: DPBF-1; DPBF-2 1022. Group RE: AC2 /AC: RSP01104//OS: Spinacia oleracea /GENE: rps22/RE: AC2 /TF: unknown 1575. Group TF: SIP1 /AC: RSP01776//OS: Lotus japonicus /GENE: AT-rich motif/RE: 39-bp element /TF: SIP1 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: AP2 domain-containing transcription factor TINY |LOCUS: AT2G44940 |PROD: the same as GENE |18544332..18545488 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +37 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.12 T - 0.32 C - 0.20 1 tcacatggaa caaaactggt tcgctgaaac tgtgaatctc aataatatct 51 tttttgttct atggacccca ttccatactg cctccttcgt tttattataa 101 agaaaaaaca ttatattttt ttccatataa tatgaaaaag ccaaagaaaa 151 aaaaaagatt gtggaggaaT ATTAATAcag cccacttcac atctattttt 201 GTGCAACCAT CTCTCTAAAG CTTCTTCTCT CATAACAATG GCAAGACAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00039 Mean Expected Number 0.005 +strand -176 : -166 TGAAAcTGTGA Totally 1 motifs of 1 different REs have been found Description of REs found 38. Group TF: GT-1 related TFs /AC: RSP00039//OS: Lycopersicon esculentum /GENE: LAT56; LAT59;/RE: 56/59 box /TF: GT-1 related TFs ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: DHDPS2 |LOCUS: AT2G45440 |PROD: dihydrodipicolinate synthase 2 (DHDPS2) |18737914..18740089 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +454 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.14 T - 0.31 C - 0.18 1 cggaatgttt ttgttaaatt tgggcctata atgggcttta ctttaaagac 51 aattaaacac aattctgacg cgttgacaaa aacaaatcag atacaacctt 101 tttttttttg accgcaaaga aaaaaACAAT tatacaaatt acaaagcagt 151 cacgatggac cgttTATAAA TAcgaacgtg ccttgcataa tctcttactt 201 ACGAGAAGAT TAATATCCAA TGGAGCCCTC CTTAATCATA TGATTAAATT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00097 Mean Expected Number 0.001 -strand -38 : -45 ACGGTCCA AC RSP01068 Mean Expected Number 0.008 +strand -137 : -129 TCTGACGCG Totally 2 motifs of 2 different REs have been found Description of REs found 95. Group RE: 9-mer box /AC: RSP00097//OS: Zea mays /GENE: GapC4/RE: 9-mer box /TF: unknown 987. Group TF: HvH21 /AC: RSP01068//OS: Hordeum vulgare /GENE: Synthetic OLIGOs/RE: HvH21 BS /TF: HvH21 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: B5 #1 |LOCUS: AT2G46650 |PROD: cytochrome b5, putative |19158723..19159663 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +154 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.12 T - 0.31 C - 0.21 1 aaagaatagt attaaacttc aacaaaaaca actatgtata ttaactggtc 51 agatatacat tgctttgttc ccttacatct tcaaagagct aagattaaac 101 tatttacccc aaataagact gtaatttcat caaaatctag taataataat 151 attcaacagc ttacaaTATA AACAtaacgc gtgtggtctc cataagctac 201 GCACTGTCTT TTCATCGGTT CGTAGAAACT AGAAACTCTT CCCCTCACGA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00447 Mean Expected Number 0.003 -strand -132 : -141 AaCAAAGCAA AC RSP00523 Mean Expected Number 0.002 -strand -17 : -23 ACACGCG AC RSP00559 Mean Expected Number 0.003 +strand -81 : -71 TGTAATTTCAt Totally 3 motifs of 3 different REs have been found Description of REs found 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 499. Group TF: DPBF-1; DPBF-2 /AC: RSP00523//OS: Daucus carota /GENE: Dc3/RE: E3-core /TF: DPBF-1; DPBF-2 535. Group RE: 2'/Box II J1 /AC: RSP00559//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: 2'/Box II J1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: pectinesterase family protein |LOCUS: AT2G47030 |PROD: the same as GENE |complement(19331303..19333467) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +129 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.12 T - 0.29 C - 0.26 1 aactgcaaat ttacgttcgg catccttttc taagttcgac gtcacgagct 51 ccagcgaaag ttaaataaag ctttttgacc aaatattctc agccattcgt 101 tgacccacaT CAATccctct ccatgcaaaa tccatgcaag ttactaattt 151 tagaattcaa aaagcttcta TATAAACCtc cagaatccat cacaatagat 201 ACTGGCCTAA GTCATTCAAC AATTTGGCTT TAATCTAATA AAGCCTCTCC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00085 Mean Expected Number 0.003 +strand -60 : -45 TTACTAATTTTAGAAt AC RSP00085 Mean Expected Number 0.003 -strand -45 : -60 aTTCTAAAATTAGTAA AC RSP01210 Mean Expected Number 0.008 +strand -176 : -167 CTTTTCTAAG AC RSP01741 Mean Expected Number 0.000 +strand -129 : -117 TTtTTGACCAAAT Totally 4 motifs of 3 different REs have been found Description of REs found 83. Group TF: AGL3 /AC: RSP00085//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AGL3-BE /TF: AGL3 1120. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01210//OS: Lepidium africanum /GENE: LaCRC/RE: EM2 /TF: MADS box TFs 1548. Group TF: WRKY11 /AC: RSP01741//OS: Arabidopsis thaliana /GENE: SIRK/FRK1 (At2g19190)/RE: AtSIRKp (WRKY11) BS3 /TF: WRKY11 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G47050 |PROD: the same as GENE |complement(19338755..19339716) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +69 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.08 T - 0.31 C - 0.21 1 gtcgttgtta atttgctcat tttatatttt gaaacaaaat taggattagt 51 gactcggtac ccacagataa aaacgccaca attcactctt tatcatccat 101 tcatttttga aaatagtcaa aaccaaaaac aaaaaacatc caaatttaga 151 aaatccaTAT AAATCtttta tatatacgta acatttctct tcctgtttct 201 AATCCATTCC TTTCCAATCC ACGTCCAAAA AACAAAACCA AAAAAAAAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00454 Mean Expected Number 0.002 +strand -26 : -16 TACGTAACATt AC RSP00716 Mean Expected Number 0.010 +strand -83 : -75 CAAAACCAA AC RSP00716 Mean Expected Number 0.010 +strand +33 : +41 CAAAACCAA AC RSP00995 Mean Expected Number 0.008 +strand -145 : -140 GGTACC AC RSP00995 Mean Expected Number 0.008 -strand -140 : -145 GGTACC AC RSP01734 Mean Expected Number 0.006 +strand +18 : +24 TCCACGT AC RSP01745 Mean Expected Number 0.000 -strand -78 : -90 GTTTTGACTATTt Totally 7 motifs of 5 different REs have been found Description of REs found 432. Group RE: Motif e/f /AC: RSP00454//OS: Pisum sativum /GENE: PSPAL2/RE: Motif e/f /TF: unknown 681. Group RE: GT motif /AC: RSP00716//OS: Arabidopsis thaliana /GENE: Adh/RE: GT motif /TF: unknown 916. Group RE: CuRE /AC: RSP00995//OS: Chlamydomonas reinhardtii /GENE: Cpx1/RE: CuRE /TF: unknown 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 1552. Group TF: WRKY11 /AC: RSP01745//OS: Arabidopsis thaliana /GENE: At4CL4 (At3g21230)/RE: WRKY11 BS1 /TF: WRKY11 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G47270 |PROD: the same as GENE |complement(19418630..19419221) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +102 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.13 T - 0.34 C - 0.20 1 tcgagttgta ttttgatgac atgtcctctg atttaagcta aaccctaatt 51 atccatcaaa aacaacattt aaaacaccct tgtggacact tgtcaaattc 101 tcatCCAATt cttttgagag ataaaaggag aaccttctca gaagctgtaa 151 tctccatttt aagcTATATA TAaaggtcac tgacctctat gtatgtctat 201 ATAAACTAAG GGCGTCTCAT ACTCTCATAT ATATTTGCAT CTAATCTTGT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00056 Mean Expected Number 0.003 +strand -116 : -107 GaCACTTGTC AC RSP00163 Mean Expected Number 0.001 -strand -73 : -83 CCTTTTaTCTC AC RSP00279 Mean Expected Number 0.002 -strand -153 : -161 TTAGGGTTT AC RSP00369 Mean Expected Number 0.002 +strand -161 : -153 AAACCCTAA AC RSP00460 Mean Expected Number 0.005 -strand -176 : -185 GACATGTCAT AC RSP00913 Mean Expected Number 0.001 +strand -186 : -177 GATGACATGT AC RSP00997 Mean Expected Number 0.001 +strand -186 : -177 GATGACATGT AC RSP01013 Mean Expected Number 0.009 -strand -41 : -50 aAAATGGAGA AC RSP01205 Mean Expected Number 0.008 +strand -47 : -38 CCATTTTAAG AC RSP01237 Mean Expected Number 0.010 -strand -26 : -35 CTtTATATAT AC RSP01303 Mean Expected Number 0.006 +strand -162 : -153 TAAACCCTAA AC RSP01304 Mean Expected Number 0.004 +strand -162 : -153 TaAACCCTAA Totally 12 motifs of 12 different REs have been found Description of REs found 55. Group TF: ABI3 /AC: RSP00056//OS: Brassica napus /GENE: napA/RE: ABRE Bd /TF: ABI3 158. Group TF: ARF1 /AC: RSP00163//OS: Glycine max /GENE: Synthetic OLIGO/RE: DR5 /TF: ARF1 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 438. Group TF: O2 /AC: RSP00460//OS: coix /GENE: alpha-coixin/RE: O2d /TF: O2 844. Group TF: Opaque-2 /AC: RSP00913//OS: Zea mays /GENE: b-32/RE: B1 /TF: Opaque-2 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 1115. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01205//OS: Arabidopsis thaliana /GENE: AtCRC/RE: EM2 /TF: MADS box TFs 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1197. Group RE: Telo box /AC: RSP01304//OS: Lycopersicon esculentum /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: pectinesterase family protein |LOCUS: AT2G47550 |PROD: the same as GENE |19516050..19519205 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +44 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.12 T - 0.33 C - 0.17 1 atttatctaa tttttggtga gagacagatc tatgcgtgtg aatattatca 51 caatatggta tatatgttga attttttgac accgccacaa ttatatatgt 101 agtatgtaca cacacattat cATTGActtg aatttgtatg tatattcaaa 151 ttcaacgttc tcaaaacccT ATATATAtaa tccaaaacat ttagcaaaat 201 ATCTCCAAAC CAAAACACAA TTAAGCTAAA AAAAAAACCA AAGGATGTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00615 Mean Expected Number 0.006 -strand -180 : -185 CTCACC AC RSP00894 Mean Expected Number 0.008 -strand -67 : -74 AATTCAAG Totally 2 motifs of 2 different REs have been found Description of REs found 591. Group RE: C-rich GG1 /AC: RSP00615//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: C-rich GG1 /TF: unknown 825. Group TF: Dof family /AC: RSP00894//OS: Solanum melongena /GENE: SmCP/RE: ERE 2 /TF: Dof family ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: 60S ribosomal protein L7A (RPL7aA) |LOCUS: AT2G47610 |PROD: the same as GENE |19536860..19538725 |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +64 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.17 T - 0.33 C - 0.17 1 atgttaaacc ggttttttct cattttttcc gccatgttaa ccaccggttt 51 aaaaagaccg taacacattg aaagattaat aagggtatat ttgtaattac 101 ggtttgctgG CAATttttaa ttattatttt aattagagaa aatagagaag 151 ccctatcaat gtacatggta tataTATAAA AGgcaaaacc ctagaaaacg 201 ATACTCTTCG ACTCAGCCGT CCTTTCGCAG AAACCATTTG GAGTTGGAGC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00405 Mean Expected Number 0.005 +strand +37 : +44 TTTGGAGT AC RSP00535 Mean Expected Number 0.002 -strand -17 : -32 GCCT-- +6 bp --TATATA AC RSP01221 Mean Expected Number 0.002 +strand -163 : -156 TAACCACC Totally 3 motifs of 3 different REs have been found Description of REs found 387. Group RE: adjb /AC: RSP00405//OS: Nicotiana tabacum /GENE: RNP2/RE: adjb /TF: unknown 511. Group RE: LRE-TATA AA1 /AC: RSP00535//OS: Lycopersicon esculentum /GENE: rbcS3C/RE: LRE-TATA AA1 /TF: unknown 1128. Group RE: GARE /AC: RSP01221//OS: Oryza sativa /GENE: Amy3E (Amy8)/RE: GARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: esterase/lipase/thioesterase family protein |LOCUS: AT2G47630 |PROD: the same as GENE |19541573..19544073 |SUPPORT | 8 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +134 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.19 T - 0.35 C - 0.14 1 tcattcctta tggatttgtt atgttgactt ttgaggatta tatgtattta 51 gtattaatgt gttttattga cttaatgagg agagtaggtt taggttacat 101 acctcttttg tcgatatgtc tgaCCAATgg atgggtctct ctactaattc 151 acacgcgccc agtgtgacgt caAATAAATA aaattccgaa aacattttct 201 GAGCTTTCCA TAATTTGGAA AAAAGTGAAT TGAAAAAAAG AACAGTGACA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00523 Mean Expected Number 0.003 +strand -50 : -44 ACACGCG AC RSP00773 Mean Expected Number 0.004 +strand -133 : -124 TGACTTAATG AC RSP01559 Mean Expected Number 0.008 +strand -48 : -43 ACGCGC AC RSP01739 Mean Expected Number 0.001 +strand -137 : -125 TTATTGACTTAAT Totally 4 motifs of 4 different REs have been found Description of REs found 499. Group TF: DPBF-1; DPBF-2 /AC: RSP00523//OS: Daucus carota /GENE: Dc3/RE: E3-core /TF: DPBF-1; DPBF-2 729. Group RE: Box III /AC: RSP00773//OS: Brassica oleracea /GENE: SLR1/RE: Box III /TF: unknown 1396. Group TF: AtCAMTA1; AtCAMTA5 /AC: RSP01559//OS: Arabidopsis thaliana /GENE: AVP1/RE: AtCAMTA1/AtCAMTA5 BS /TF: AtCAMTA1; AtCAMTA5 1546. Group TF: WRKY11 /AC: RSP01739//OS: Arabidopsis thaliana /GENE: SIRK/FRK1 (At2g19190)/RE: AtSIRKp (WRKY11) BS1 /TF: WRKY11 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: glutaredoxin family protein |LOCUS: AT2G47880 |PROD: the same as GENE |19612110..19612732 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +84 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.10 T - 0.30 C - 0.19 1 aacttgtgca gtcaaacaga atataaataa gaagaaaaat tctcaaatag 51 gcatctgata ttttatcttt cctttttgat attttcttag aaataaacta 101 cattttaaat ggtcttttct ttctaattag caagaaaaaa acacactcga 151 aagactcact cccttccTAT AAATAggcga gcaaatgtca agctttttac 201 ATACTCAAAA CAAAACAAAA CATACATCAA AACGCTAAAG TTTAAACCCC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00727 Mean Expected Number 0.004 -strand -8 : -14 GCTTGAC AC RSP00734 Mean Expected Number 0.005 +strand +28 : +35 CAAAACGC AC RSP00860 Mean Expected Number 0.002 -strand -77 : -85 AGAAAGAAA Totally 3 motifs of 3 different REs have been found Description of REs found 690. Group RE: U-box /AC: RSP00727//OS: Nicotiana tabacum /GENE: Ubi.U4/RE: U-box /TF: unknown 697. Group TF: DET1; CDA-1 /AC: RSP00734//OS: Arabidopsis thaliana /GENE: cab2/RE: CDA-1 BS /TF: DET1; CDA-1 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: expressed protein |LOCUS: AT2G48090 |PROD: the same as GENE |complement(19676180..19676834) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +35 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.12 T - 0.35 C - 0.22 1 tggaatcaga atccgatccc tttctaacat cactcttcct tttttgaaaa 51 acttgtaaaa gtttccaact ttcctctttt caacaagttg taatttcttc 101 gcttgttgca tgttgaaaca cgttattctG CAATtaacaa agataaaatc 151 acatagattt tgcatTATAA AAAgctcgtt aatgtcacta tcttctctgc 201 ACAGATCACC TTTAGTACTT CCCAAGGTGA CATCCATGGC AAAGAACTCA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00029 Mean Expected Number 0.004 +strand -147 : -140 TGTAAAAG AC RSP00870 Mean Expected Number 0.006 +strand -147 : -138 TGTAAAAGTt Totally 2 motifs of 2 different REs have been found Description of REs found 28. Group RE: P-box 1 /AC: RSP00029//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 1 /TF: unknown 806. Group RE: EM2 /AC: RSP00870//OS: Triticum aestivum /GENE: LMWG-1D1/RE: EM2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G48130 |PROD: the same as GENE |complement(19692138..19693063) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +16 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.17 T - 0.30 C - 0.18 1 taattagttc tgaaaaagta tactggttca tgtctacgtg gcgttgtata 51 tattgggatg catctagaac atagatatgt ttgataaatt aaagccatat 101 aaaccatgta aagtaggtca tccaaccaga cctgcctctt tgacattttc 151 tggtcagttc ctccTATAAT TAaaccaaag caaaaacacc aaagttgaac 201 AATAATAACT CAAATTATGG GGTATAGAAG AAGCTACGCA ATCACATTTG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00043 Mean Expected Number 0.001 +strand -166 : -159 TACGTGGC AC RSP00051 Mean Expected Number 0.002 -strand -159 : -168 GCCACGTAgA AC RSP00068 Mean Expected Number 0.004 -strand -159 : -168 GcCACGTAGA AC RSP00075 Mean Expected Number 0.001 +strand -167 : -158 cTACGTGGCG AC RSP00280 Mean Expected Number 0.004 -strand -159 : -168 gCCACGTAGA AC RSP00447 Mean Expected Number 0.009 +strand -27 : -18 AcCAAAGCAA AC RSP00467 Mean Expected Number 0.003 +strand -50 : -41 TGGTCAGTTC AC RSP00495 Mean Expected Number 0.008 +strand -94 : -87 TGTAAAGT AC RSP00682 Mean Expected Number 0.001 -strand -159 : -168 GCCACGTaGA AC RSP01034 Mean Expected Number 0.004 +strand -165 : -159 ACGTGGC AC RSP01259 Mean Expected Number 0.001 +strand -167 : -160 CTACGTGG AC RSP01469 Mean Expected Number 0.007 +strand +42 : +51 TCACATtTGT Totally 12 motifs of 12 different REs have been found Description of REs found 42. Group TF: TAF-1 /AC: RSP00043//OS: Oryza sativa /GENE: rab16A-D/RE: Motif I core /TF: TAF-1 50. Group RE: A3 /AC: RSP00051//OS: Hordeum vulgare /GENE: HVA22/RE: A3 /TF: unknown 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 74. Group TF: TAF-1 /AC: RSP00075//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: Iwt /TF: TAF-1 271. Group TF: Opaque-1 /AC: RSP00280//OS: Zea mays /GENE: alpha-22kDa zein/RE: O2-box /TF: Opaque-1 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 445. Group RE: ERE1 /AC: RSP00467//OS: Dianthus caryophyylus /GENE: hcbt2/RE: ERE1 /TF: unknown 471. Group RE: P-box 2 /AC: RSP00495//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 2 /TF: unknown ||Identical REs AC: RSP00686 651. Group TF: GBF3 /AC: RSP00682//OS: Arabidopsis thaliana /GENE: Adh/RE: -214 G-box (core) /TF: GBF3 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1161. Group TF: GBF1 /AC: RSP01259//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS6 /TF: GBF1 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 2: GENE: |LOCUS: AT2G48140 |PROD: the same as GENE |19693479..19694734 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +33 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.17 T - 0.33 C - 0.13 1 taagttacaa aattactagg agtataccaa actcagctac tttctctttt 51 tatttggttt ctctttgtta attaatgaaa taaaaagaaa aattgtgtgt 101 tgataagagA TTGAgagaaa ggatattagt tggaagttgt tgaactccaa 151 tgcacccatt ttatcataTA TAAAACtgaa taattgtata tctataaagc 201 ATCGTCACCG GAAGATTAAG CAGGCCAATT AAAATGGAAG GCTTAACATT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00144 Mean Expected Number 0.009 +strand -48 : -43 CACCCA AC RSP01135 Mean Expected Number 0.001 -strand -30 : -42 AtATATGATAAAA AC RSP01602 Mean Expected Number 0.007 -strand -85 : -92 TCTCAATC AC RSP01632 Mean Expected Number 0.002 +strand -9 : +2 CTATAAAGCAT Totally 4 motifs of 4 different REs have been found Description of REs found 140. Group TF: SEF3 /AC: RSP00144//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: SEF3 BS 1 /TF: SEF3 1053. Group RE: I-box-like sequence /AC: RSP01135//OS: Cucumis melo /GENE: Cucumisin/RE: I-box-like sequence /TF: unknown 1423. Group RE: Inr /AC: RSP01602//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown 1452. Group RE: TERE /AC: RSP01632//OS: Arabidopsis thaliana /GENE: At5g51890/RE: TERE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: myb family transcription factor (MYB57) |LOCUS: AT3G01530 |PROD: the same as GENE |complement(210126..211811) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +653 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.09 T - 0.31 C - 0.20 1 aagctgacac atcatttaga tttccagcca caaaacctca cttactaaat 51 ttggcatatg aattacacca aaccttctca attaattgcc caaaagcaaa 101 cgctattaca actttcattt cattttctct atctatacta cttatatttt 151 ctttgTATAA AATgtaaact cgttaacaca cacaaacaaa aaaagataac 201 GTTGAAAAAA ATAAAACACA TATTTCAGAC TGTAGTTTAG ATGTGGTAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01015 Mean Expected Number 0.008 -strand -80 : -89 gAAATGAAAG AC RSP01761 Mean Expected Number 0.001 +strand -133 : -122 CCAAACCTTCTc Totally 2 motifs of 2 different REs have been found Description of REs found 940. Group TF: GAPF /AC: RSP01015//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 3 /TF: GAPF 1566. Group TF: NSP1 /AC: RSP01761//OS: Arabidopsis thaliana /GENE: ANAC13 (At1g32870)/RE: MRE (ANAC13) /TF: NSP1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: hydroxyproline-rich glycoprotein family protein |LOCUS: AT3G02120 |PROD: the same as GENE |377104..377720 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +25 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.09 T - 0.29 C - 0.24 1 aaatcaatcc tatttttact aaaaagacat caaaacattt tctttttaaa 51 atccaaacgg tcactaatct cactaagaaa caactgtaca cagacttaag 101 ataatgtaaa aaatccgacc gttgtgaccC CAATttccac taacggtaat 151 gttcttagcc aatcacatac aTATAAATCa aacttacacc caaatccgtc 201 ACACTCAATT TCATCTCTTT CTCTAATGGA GTTGCAACAA TCAAATCTCG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00861 Mean Expected Number 0.002 -strand +22 : +14 AGAAAGAGA AC RSP01231 Mean Expected Number 0.009 +strand -82 : -77 CCGTTG Totally 2 motifs of 2 different REs have been found Description of REs found 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 1136. Group RE: A-box (2) /AC: RSP01231//OS: Arabidopsis thaliana /GENE: C4H/RE: A-box (2) /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: 60S ribosomal protein L39 (RPL39B) |LOCUS: AT3G02190 |PROD: the same as GENE |complement(405823..406408) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +59 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.19 T - 0.28 C - 0.21 1 aagagagaga gaagaaaatg aaaccctaaa tctctatatt tttttctttt 51 ccggttaaag gtaaccggaa ccgaatacga ttcctaaatt aacggtttac 101 ctatctgacg gctaataaat tatgagaaaa ctccaacggt caggATTGAg 151 ctctagtcca caaccctTAT AAAAAtcgat ttcttcctca gttaacattt 201 GAGAAGATTA GGGTTTAAAC GCTGCCGTGT TCCGCCGGAT CGCCACCGTT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.001 +strand +8 : +16 TTAGGGTTT AC RSP00279 Mean Expected Number 0.002 -strand -172 : -180 TTAGGGTTT AC RSP00369 Mean Expected Number 0.002 +strand -180 : -172 AAACCCTAA AC RSP00369 Mean Expected Number 0.001 -strand +16 : +8 AAACCCTAA AC RSP00864 Mean Expected Number 0.001 +strand -199 : -191 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 +strand -197 : -189 AGAGAGAGA AC RSP01223 Mean Expected Number 0.000 -strand -62 : -70 CCGTTGGAG AC RSP01303 Mean Expected Number 0.005 +strand -181 : -172 gAAACCCTAA AC RSP01303 Mean Expected Number 0.002 -strand +17 : +8 TAAACCCTAA AC RSP01304 Mean Expected Number 0.002 -strand +17 : +8 TaAACCCTAA AC RSP01497 Mean Expected Number 0.003 -strand -89 : -98 GCCGTCaGAT Totally 11 motifs of 7 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1129. Group TF: C-myb /AC: RSP01223//OS: Oryza sativa /GENE: Amy3E (Amy8)/RE: C-myb motif /TF: C-myb 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1197. Group RE: Telo box /AC: RSP01304//OS: Lycopersicon esculentum /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1359. Group RE: CS5 /AC: RSP01497//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS5 /TF: unknown ||Identical REs AC: RSP01498 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G02250 |PROD: the same as GENE |complement(423808..427068) |SUPPORT | 8 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +685 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.14 T - 0.35 C - 0.13 1 ttgattatac tcctcatcat taatctttaa gacttagttc aaatcggtgt 51 agtatttgtt tttgaatttt gatgaatcaa atcaatgtaa ttggcaaaaa 101 cgaatccgtg ttatatttta aagatATTGT tcccttaaga gatattttat 151 tttgatcagt ataTATAAAA Agatgaagca aatataacaa tgggttccaa 201 TTTCCAACTG TCTTTACACA GAAAAGGTTA ACAAAAACGG TCAGAAAAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00431 Mean Expected Number 0.006 -strand +15 : +4 AAaGACAGTTGG AC RSP00741 Mean Expected Number 0.006 +strand +22 : +33 AAAAGGTTAAcA Totally 2 motifs of 2 different REs have been found Description of REs found 411. Group TF: AtMYB77 /AC: RSP00431//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AtMYB77 BS /TF: AtMYB77 703. Group RE: box 1 /Group TF: GT-1 /AC: RSP00741//OS: Nicotiana plumbaginifolia /GENE: Cab-E/RE: box 1 /TF: GT-1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: plant adhesion molecule, putative |LOCUS: AT3G02460 |PROD: the same as GENE |505441..508410 |SUPPORT | 9 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +676 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.15 T - 0.36 C - 0.14 1 taaaaaacaa aacacagaac aggaaaaact gtatgaataa gcattgggca 51 ttataaatcg agtcatggcc tcatgggcct tttagctatt gggctatctt 101 tcattttggg cttattttaa aaaataggtt actgattttt ttgaATTGGt 151 ataattaatt tgacgccTAT ATATAtatat atacccaatt aaattgtttt 201 GTTCCTAAAA CTTTATGAAT CATAAATTCA TAATCGTCGT GATAAAGCCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00535 Mean Expected Number 0.002 +strand -36 : -20 GCCT-- +7 bp --TATATA AC RSP00790 Mean Expected Number 0.001 -strand +31 : +21 aTGAATTTATG Totally 2 motifs of 2 different REs have been found Description of REs found 511. Group RE: LRE-TATA AA1 /AC: RSP00535//OS: Lycopersicon esculentum /GENE: rbcS3C/RE: LRE-TATA AA1 /TF: unknown 743. Group RE: A segment /AC: RSP00790//OS: Flaveria trinervia /GENE: ppcA1/RE: A segment /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: phosphomannose isomerase type I family protein |LOCUS: AT3G02570 |PROD: the same as GENE |complement(543356..545602) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +117 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.15 T - 0.31 C - 0.24 1 ggcccacaac caacggacgg acgttaatac cgtcggcaaa acacgtgatt 51 tctttgaaca tctgtcactt ttgcactttc ttaagttaaa catcgcaacc 101 ctacatttat attttattcc aacttttgac ccccatactt ttgattttac 151 aatcatacct tcctctgttT ATAAAACata aaaaaatcca cgattcgggg 201 GTAAAGAGAA AAGCTTTGAG TCTTCCATTG ACATGGGCGC TTAGCTTATG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00284 Mean Expected Number 0.009 -strand -181 : -186 CCGTCC AC RSP00524 Mean Expected Number 0.009 +strand -160 : -154 ACACGTG AC RSP00750 Mean Expected Number 0.003 -strand -46 : -57 TgATTGTAAAAT AC RSP00961 Mean Expected Number 0.006 -strand -126 : -133 TGCAAAAG AC RSP00978 Mean Expected Number 0.002 -strand -152 : -161 ATCACGTGTT Totally 5 motifs of 5 different REs have been found Description of REs found 275. Group RE: Box A /AC: RSP00284//OS: Petroselinum crispum /GENE: PAL-1/RE: Box A /TF: unknown ||Identical REs AC: RSP00849 RSP00856 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 712. Group TF: GT-1 /AC: RSP00750//OS: Catharanthus roseus /GENE: STR/RE: BN rev /TF: GT-1 886. Group TF: BPBF /AC: RSP00961//OS: Hordeum vulgare /GENE: ITR1/RE: PB1 /TF: BPBF 900. Group RE: G-box /AC: RSP00978//OS: Glycine max /GENE: vspA/RE: G-box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: proline-rich family protein |LOCUS: AT3G02670 |PROD: the same as GENE |complement(573787..574633) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +24 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.12 T - 0.30 C - 0.17 1 ttatagaatg tattataaat ttgtaaaaaa tagtcaacat taacccaaaa 51 ttggttgtca tgtccataga gagattaaaa cttcttataa tgtgtatata 101 ttttttgaaa atttccttat aattaaatta taacaaaaat aaagatggag 151 ccaacctaaa tataggcgcc taTATAAACA agcactaaac acctgctact 201 AACAGACAAA AACATTTCCA CACAATGGCA TCTTTAGCGA CCACTTTAGC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00949 Mean Expected Number 0.005 +strand -170 : -163 TAGTCAAC Totally 1 motifs of 1 different REs have been found Description of REs found 878. Group RE: TAGTCAAC motif /AC: RSP00949//OS: Petroselinum crispum /GENE: 4CL-1/RE: TAGTCAAC motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ILR1 |LOCUS: AT3G02875 |PROD: IAA-amino acid hydrolase 1 (ILR1) |631920..634081 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +80 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.11 T - 0.38 C - 0.19 1 accgtaaata tactacattg tatcattttc atattttatc tttggtattt 51 cattattttc ttcacattac aaccataaat tatgaatttc acattagagg 101 cgtatacgta tttaaaaacg attaaaagag tttccaaaaa cgtgtgtaaa 151 ttacgtacta TATAAATAtt aaaaatggat cggtgatcca actccttctc 201 CTTCATCATC ATCGTATTCA CCGTTGTCCT TTCTTTCATT GACACTTGCC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00320 Mean Expected Number 0.001 -strand -13 : -23 GATCAcCGATC Totally 1 motifs of 1 different REs have been found Description of REs found 306. Group RE: Box I /Group TF: RNFG1 /AC: RSP00320//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: Box I /TF: RNFG1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G03150 |PROD: the same as GENE |complement(727561..729467) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +103 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.18 T - 0.28 C - 0.18 1 agatatatta agtagtccgt ttctttaaag tcggctttag attcacacag 51 tgtcgatttg tcaagtaacg gcgtcaaaag cgaaacggca acgtttggta 101 ggtgagacac gtggatcaga tagtgttttg tctcctaatC CAATctcttt 151 caaagcatac ataataaatg caTATATATA agcacacatt aaacggagtt 201 AAACTCATCA TACATTACTG ACTAAAAGAA GCAAAATCTT GAGTAGAAAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00038 Mean Expected Number 0.002 -strand -15 : -26 TGTGcTTATATA AC RSP00057 Mean Expected Number 0.004 -strand -86 : -95 TCCACGTgTC AC RSP00068 Mean Expected Number 0.007 +strand -95 : -86 GACACGTgGA AC RSP00079 Mean Expected Number 0.002 -strand -95 : -104 CtCACCTACC AC RSP00188 Mean Expected Number 0.004 -strand -86 : -95 TCcACGTGTC AC RSP00204 Mean Expected Number 0.001 +strand -95 : -86 GACACGTGGa AC RSP00286 Mean Expected Number 0.001 -strand -94 : -104 TCTCACCTACC AC RSP00340 Mean Expected Number 0.004 -strand -86 : -95 TCCACGTGTC AC RSP00351 Mean Expected Number 0.000 +strand -105 : -93 TGGTAGGTGAGAc AC RSP00489 Mean Expected Number 0.007 -strand -97 : -106 cACCTACCAA AC RSP00524 Mean Expected Number 0.009 +strand -94 : -88 ACACGTG AC RSP00651 Mean Expected Number 0.001 -strand -98 : -108 ACCTACCAAaC AC RSP00682 Mean Expected Number 0.001 +strand -95 : -86 GaCACGTGGA AC RSP00880 Mean Expected Number 0.005 +strand -118 : -109 aAACGGCAAC AC RSP01035 Mean Expected Number 0.009 -strand -89 : -95 ACGTGTC AC RSP01184 Mean Expected Number 0.001 -strand -94 : -105 TCTCACCTACCA AC RSP01255 Mean Expected Number 0.002 +strand -94 : -87 ACACGTGG AC RSP01274 Mean Expected Number 0.004 -strand -86 : -95 TCCACGTgTC AC RSP01453 Mean Expected Number 0.008 -strand -98 : -104 ACCTACC AC RSP01600 Mean Expected Number 0.008 +strand -53 : -46 TTTCAAAG AC RSP01687 Mean Expected Number 0.006 +strand -169 : -163 CGGCTTT AC RSP01722 Mean Expected Number 0.000 -strand -85 : -96 ATCCACGTGTCT AC RSP01734 Mean Expected Number 0.010 -strand -86 : -92 TCCACGT Totally 23 motifs of 23 different REs have been found Description of REs found 37. Group TF: GT-1 related TFs /AC: RSP00038//OS: Lycopersicon esculentum /GENE: LAT52; LAT56;/RE: 52/56 box /TF: GT-1 related TFs 56. Group TF: ABF /AC: RSP00057//OS: Zea mays /GENE: rab28/RE: ABRE B /TF: ABF 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 78. Group RE: AC-I /AC: RSP00079//OS: Phaseolus vulgaris /GENE: PAL2/RE: AC-I /TF: unknown ||Identical REs AC: RSP00420 182. Group TF: ABI5 /AC: RSP00188//OS: Arabidopsis thaliana /GENE: AtEm1/RE: ABRE/1.2 /TF: ABI5 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 277. Group RE: Box L /AC: RSP00286//OS: Petroselinum crispum /GENE: PAL-1/RE: Box L /TF: unknown ||Identical REs AC: RSP01754 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 336. Group RE: 13 bp-box /AC: RSP00351//OS: Nicotiana tabacum /GENE: LTR-Tto1/RE: 13 bp-box /TF: unknown 465. Group RE: UVLRE2 /AC: RSP00489//OS: Glycine max /GENE: chs1/RE: UVLRE2 /TF: unknown 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 625. Group TF: C1 /AC: RSP00651//OS: Zea mays /GENE: a1/RE: C1 PBS/P /TF: C1 651. Group TF: GBF3 /AC: RSP00682//OS: Arabidopsis thaliana /GENE: Adh/RE: -214 G-box (core) /TF: GBF3 816. Group TF: Dof family /AC: RSP00880//OS: Hordeum vulgare /GENE: Al21/RE: M1 /TF: Dof family 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1096. Group RE: box 1 /AC: RSP01184//OS: Various plants /GENE: chsA/RE: box 1 /TF: unknown 1158. Group TF: GBF1 /AC: RSP01255//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS2 /TF: GBF1 1173. Group RE: ACE 1 /AC: RSP01274//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 1 /TF: unknown 1324. Group RE: AC-I /Group TF: PtMYB4 /AC: RSP01453//OS: Pinus taeda /GENE: Synthetic OLIGO/RE: AC-I /TF: PtMYB4 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown 1505. Group RE: CARE E /AC: RSP01687//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE E /TF: unknown 1530. Group RE: G-box /Group TF: STF1/HY5 /AC: RSP01722//OS: Arabidopsis thaliana /GENE: IAA17/AXR3 (At1g04250)/RE: G-box /TF: STF1/HY5 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G03270 |PROD: the same as GENE |complement(761318..763111) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +29 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.19 T - 0.24 C - 0.17 1 aatactctca gtaacaaaga attttaagaa aagaagcgag agagagagac 51 ctagtagttt caagaatctc cccatagaag aaaaagacaa tcattaaata 101 tctcgaattc tgtgtgcgCC AATaatattc tccaaagtct aaaccatcaa 151 accggttatt atatacaTAT AAATTagact accgtaatca atttctactt 201 AGAGATCATC GAGAGGGCAA GAGAGAAAAA TGGGAAAGGC ACGTACGGTG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00072 Mean Expected Number 0.009 -strand +46 : +40 GTACGTG AC RSP00864 Mean Expected Number 0.003 +strand -162 : -154 AGAGAGAGA AC RSP00864 Mean Expected Number 0.003 +strand -160 : -152 AGAGAGAGA AC RSP01167 Mean Expected Number 0.003 +strand -106 : -98 TAAATATCT Totally 4 motifs of 3 different REs have been found Description of REs found 71. Group RE: ACGT box /AC: RSP00072//OS: Oryza sativa /GENE: GluB-1/RE: ACGT box /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: transferase family protein |LOCUS: AT3G03480 |PROD: the same as GENE |complement(828303..829903) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +33 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.17 T - 0.33 C - 0.14 1 ttttgattag tggaaaaaaa aaaaatcgtg tctacatgga gtattgatgt 51 gtttacctat atctattgtt taaggttaat acattctaga gtcgagacaa 101 aagaaatctc ataatagtat aataccaaac taacacacgt aaaatgtgca 151 atactatata actacgTATA TATAtgtatg tgtggtgaag acagtatctc 201 GTACGTGTGA TTCTATCTTC AAAGTATCAA AGTATGGACC ATCAAGTGTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00072 Mean Expected Number 0.007 +strand +1 : +7 GTACGTG AC RSP00163 Mean Expected Number 0.003 -strand -97 : -107 tCTTTTGTCTC AC RSP00280 Mean Expected Number 0.004 -strand -161 : -170 TCCAtGTAGA AC RSP01091 Mean Expected Number 0.009 -strand +16 : +6 ATAGAATCAcA AC RSP01261 Mean Expected Number 0.005 -strand -59 : -66 TTACGTGT AC RSP01725 Mean Expected Number 0.001 +strand -68 : -57 AcACACGTAAAA Totally 6 motifs of 6 different REs have been found Description of REs found 71. Group RE: ACGT box /AC: RSP00072//OS: Oryza sativa /GENE: GluB-1/RE: ACGT box /TF: unknown 158. Group TF: ARF1 /AC: RSP00163//OS: Glycine max /GENE: Synthetic OLIGO/RE: DR5 /TF: ARF1 271. Group TF: Opaque-1 /AC: RSP00280//OS: Zea mays /GENE: alpha-22kDa zein/RE: O2-box /TF: Opaque-1 1009. Group RE: box 1 /AC: RSP01091//OS: Pisum sativum /GENE: GS2/RE: box 1 /TF: unknown 1163. Group TF: GBF1 /AC: RSP01261//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS8 /TF: GBF1 1533. Group TF: STF1/HY5 /AC: RSP01725//OS: Arabidopsis thaliana /GENE: NAC1 (At1g56010)/RE: G/A-box /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G03610 |PROD: the same as GENE |868831..871818 |SUPPORT | 10 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +655 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.23 T - 0.29 C - 0.18 1 ggtcgggtcg gtctggtctg gtcgtgttgg gtatgagcta attaccggcc 51 catttcggta gatttcagat gcctaaacca aacatcgtaa accggatgac 101 aaaccgggtc gttgaccaac aaaagagaaa taaaataaat agtaacgtat 151 aagagagatt aatcgaAATA AATAaaattt ctgggaaatt tggcggcgac 201 AGTTTCCTTT GGATTTCAGA TTTCGTGAGC TTATTCTTAC CTTTCTCTCG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00858 Mean Expected Number 0.005 -strand -155 : -162 GGTAATTA AC RSP01209 Mean Expected Number 0.006 -strand -76 : -85 CTTTTGTTGG Totally 2 motifs of 2 different REs have been found Description of REs found 794. Group TF: DF1 /AC: RSP00858//OS: Pisum sativum /GENE: pra2/RE: GT2 /TF: DF1 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G03890 |PROD: the same as GENE |complement(999474..1002491) |SUPPORT | 12 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +488 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.20 T - 0.33 C - 0.11 1 tagtatttag aattttagtt tttttggggg tcaaaaacaa tagttttagt 51 tatgttagtg aataaataga ttcagaaaaa actgtcgatc ttatttgaat 101 agttcgtaaa agagagggtt ctgtttGCAA Ttttcctaac ttttagatcc 151 tgagttctgc aaTATAAATA aagaacaaaa caaaacacga tcacgaggca 201 ATTTTGAGAC AAGAATGGTG TTGAATAGTC GATTGGTGGA GACAACAGTT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00837 Mean Expected Number 0.001 -strand -110 : -119 AGATCGACaG AC RSP01641 Mean Expected Number 0.007 -strand +14 : +5 TCTTGTCTCa Totally 2 motifs of 2 different REs have been found Description of REs found 782. Group RE: NON /AC: RSP00837//OS: Arabidopsis thaliana /GENE: H4A748/RE: NON /TF: unknown 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: esterase/lipase/thioesterase family protein |LOCUS: AT3G03990 |PROD: the same as GENE |1033775..1034913 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +20 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.44 G - 0.11 T - 0.25 C - 0.20 1 ttaaaatata tcagatgtgt gacgaataat caacgcatgc tcttgtatcc 51 ataaacttca aaagccaatc gaaagtattg gataataata ataataaatg 101 cagtggaaaa aaaaagatga taaaggaatt ttcattacac acacacacct 151 acccaaacaa gtttttaTAT AAACAgtatc caactctctt ctttaccctc 201 AAACCCAAAC ACATAAAAAA ATGAGTCAAC ACAACATCTT AGAAGCTCTA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00079 Mean Expected Number 0.005 +strand -57 : -48 CaCACCTACC AC RSP00130 Mean Expected Number 0.000 +strand -120 : -101 gATAATAATAATAATAAATg AC RSP00190 Mean Expected Number 0.007 +strand +22 : +28 TGAGTCA AC RSP00525 Mean Expected Number 0.007 -strand -183 : -189 ACATCTG AC RSP00677 Mean Expected Number 0.007 +strand -101 : -96 GCAGTG AC RSP01469 Mean Expected Number 0.004 +strand -190 : -181 TCAgATGTGT AC RSP01686 Mean Expected Number 0.005 -strand -180 : -185 CACACA Totally 7 motifs of 7 different REs have been found Description of REs found 78. Group RE: AC-I /AC: RSP00079//OS: Phaseolus vulgaris /GENE: PAL2/RE: AC-I /TF: unknown ||Identical REs AC: RSP00420 128. Group RE: C2 /AC: RSP00130//OS: Glycine max /GENE: GmAux28/RE: C2 /TF: unknown 184. Group RE: GCN4 box /AC: RSP00190//OS: Oryza sativa /GENE: GluB-1/RE: GCN4 box /TF: unknown ||Identical REs AC: RSP00666 RSP00959 501. Group TF: DPBF-1; DPBF-2 /AC: RSP00525//OS: Daucus carota /GENE: Dc3/RE: E5-core /TF: DPBF-1; DPBF-2 646. Group RE: Box 1 /AC: RSP00677//OS: Hordeum vulgare /GENE: Amy32b/RE: Box 1 /TF: unknown 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) 1504. Group RE: CARE D /AC: RSP01686//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE D /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ANAC046 |LOCUS: AT3G04060 |PROD: no apical meristem (NAM) family protein |complement(1053373..1055170) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +211 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.12 T - 0.40 C - 0.17 1 tgagatatca tttaagatat ttttgagtgt tttctaattg tggggctttt 51 tcaacaagta aggaagttgc ttagagctta cgtgtctctt ctacatcacc 101 aaaaaaataa gaaaaaaaca aaacataaag aaaagaaaca ttATTGTttt 151 ttttagctct tatcttcctc taTATAAAGA catttttttt ctaccttcac 201 ATACTTTTAT TTTCATTTCC TTTAACTGCA TAGTTCTTCC TCAAATTGCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00070 Mean Expected Number 0.002 +strand -122 : -115 TACGTGTC AC RSP00227 Mean Expected Number 0.009 -strand -35 : -43 AAGATAAGA AC RSP00233 Mean Expected Number 0.005 +strand -111 : -102 TCTACaTCAC AC RSP00247 Mean Expected Number 0.002 -strand -115 : -124 GaCACGTAAG AC RSP01000 Mean Expected Number 0.001 -strand -153 : -162 AaGCCCCACA AC RSP01003 Mean Expected Number 0.010 +strand -147 : -138 ACAAgTAAGG AC RSP01016 Mean Expected Number 0.006 +strand -67 : -60 AGAAACAT AC RSP01035 Mean Expected Number 0.005 +strand -121 : -115 ACGTGTC AC RSP01261 Mean Expected Number 0.004 +strand -123 : -116 TTACGTGT Totally 9 motifs of 9 different REs have been found Description of REs found 69. Group TF: TRAB1 /AC: RSP00070//OS: Oryza sativa /GENE: Osem/RE: ABRE motif A /TF: TRAB1 220. Group TF: GT-1 /AC: RSP00227//OS: Pisum sativum /GENE: rbcS-3A/RE: BOX III* /TF: GT-1 226. Group RE: LS5 /Group TF: TGA2 & NPR1/NIM1 /AC: RSP00233//OS: Arabidopsis thaliana /GENE: PR-1/RE: LS5 /TF: TGA2 & NPR1/NIM1 240. Group TF: REB /AC: RSP00247//OS: Oryza sativa /GENE: alpha-globulin/RE: REB1 /TF: REB ||Identical REs AC: RSP00738 921. Group TF: CBF /AC: RSP01000//OS: Agrobacterium tumefaciens /GENE: T-cyt/RE: 3'-III element /TF: CBF 928. Group TF: DEF/GLO /AC: RSP01003//OS: Antirrhinum majus /GENE: DEFH125/RE: CArG1 /TF: DEF/GLO 941. Group TF: AEF /AC: RSP01016//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 1 /TF: AEF 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1163. Group TF: GBF1 /AC: RSP01261//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS8 /TF: GBF1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ARR22 |LOCUS: AT3G04280 |PROD: |complement(1129951..1131091) |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +395 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.08 T - 0.43 C - 0.13 1 tttcttgtct aaattatcaa ataacatact ctcttttgtt tacttataaa 51 cgatatgaaa gaaataaata aaaagaacat agaatcttat tatgatctag 101 aagaattaat taaagaaata tatatatatt ttttttcatt tctactcatg 151 tttcttatac attcTTTAAA TTtgttcacc attttgattt acttgttctc 201 ATATTAGTTT GTTATACAAC TCACTTAGAA TAATGTAGAT TACATTTCAG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00357 Mean Expected Number 0.001 +strand +17 : +24 CAACTCAC AC RSP00593 Mean Expected Number 0.004 +strand -119 : -111 GAATCTTAT AC RSP01031 Mean Expected Number 0.010 +strand -120 : -113 AGAATCTT Totally 3 motifs of 3 different REs have been found Description of REs found 342. Group RE: CARE1 /AC: RSP00357//OS: Oryza sativa /GENE: Rep-1/RE: CARE1 /TF: unknown 569. Group RE: GATA/2 B /AC: RSP00593//OS: Lycopersicon esculentum /GENE: rbcS1/RE: GATA/2 B /TF: unknown 956. Group TF: AEF /AC: RSP01031//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 2 /TF: AEF ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: GDSL-motif lipase/hydrolase family protein |LOCUS: AT3G04290 |PROD: the same as GENE |complement(1133331..1136297) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +67 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.08 T - 0.31 C - 0.23 1 ctaacattta ttacatccaa acaacaaaca agaccaattt ttatggtgta 51 tcagttggca gcctctatta atgtctctat tttcttaaaa tcacaccaac 101 aacgaaaaaa aaaaaaaaaa aaaaacagat acacattact tATTGAaccc 151 taaacctatt gtcagtgTAT ATATAtaaca cacactctcc atatgctctc 201 ATATCATACG TCAATTTATA AACGTTTCTT CTCATTCGTC ATCTAGTCCC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00158 Mean Expected Number 0.007 +strand -123 : -113 TATTTtCTTAA AC RSP00850 Mean Expected Number 0.003 -strand -142 : -147 GCCAAC AC RSP01013 Mean Expected Number 0.006 -strand -6 : -15 CAtATGGAGA AC RSP01304 Mean Expected Number 0.008 +strand -57 : -48 TGAACCCTAA Totally 4 motifs of 4 different REs have been found Description of REs found 153. Group RE: D3 /AC: RSP00158//OS: Glycine max /GENE: GmAux28/RE: D3 /TF: unknown 790. Group RE: CAT /AC: RSP00850//OS: Zea mays /GENE: H4C7/RE: CAT /TF: unknown 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 1197. Group RE: Telo box /AC: RSP01304//OS: Lycopersicon esculentum /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G04780 |PROD: the same as GENE |complement(1311253..1313096) |SUPPORT | 8 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +77 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.25 G - 0.24 T - 0.41 C - 0.10 1 ggaagaggaa ggtttagtgg caagttatag agttttgtag ttggtttgag 51 ggtagtattg gaatactagt tttaaggttg ttgtatttgg gttggtgaag 101 ataataacct gctaaaCCAA Tcagagtgtt aaatatacga tgtcgttttt 151 gtttctttga gaacagagtt aTATAAAAAc cttttttggt ttggtttcgt 201 GGAGAGTCTA ATTATTTTCT TCCACTTTCT CGATCTTTGA GATTTCTTTC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00231 Mean Expected Number 0.002 +strand -84 : -78 CCAATCA AC RSP00950 Mean Expected Number 0.006 -strand -102 : -112 tTCACCAACCC AC RSP01033 Mean Expected Number 0.008 +strand -21 : -12 CCTTTTTTGG AC RSP01214 Mean Expected Number 0.004 +strand -21 : -12 CCTTTTTTGG AC RSP01509 Mean Expected Number 0.000 +strand -85 : -77 ACCAATCAG Totally 5 motifs of 5 different REs have been found Description of REs found 224. Group RE: CCAAT box 1 /AC: RSP00231//OS: Arabidopsis thaliana /GENE: AGAMAOUS (AG)/RE: CCAAT box 1 /TF: unknown 879. Group RE: CTCACCAACCC motif /AC: RSP00950//OS: Petroselinum crispum /GENE: 4CL-1/RE: CTCACCAACCC motif /TF: unknown 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1122. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01214//OS: Brassica oleracea /GENE: BoCRC/RE: EM1 /TF: MADS box TFs 1364. Group RE: CCAAT box /AC: RSP01509//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CCAAT box /TF: unknown ||Identical REs AC: RSP01510 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: 40S ribosomal protein S3A (RPS3aA) |LOCUS: AT3G04840 |PROD: the same as GENE |1329699..1331581 |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +58 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.19 T - 0.32 C - 0.17 1 atggttttat aatcgatttc agactcaagt ggaaaaaaga aatattggac 51 accttagtgg gccattagat gcaagtaaat acaactttag gcttagtcca 101 ttactggtaa atttgaaggc ccaaaacttt gtttatcctg ggtgtgaaac 151 tcaaacccta gaagaagacT TTAAATTgaa gaagcgccgt agcagcattt 201 TAGGTTAAAA CTTATTGTTG ATTCTTCTCT ATTCGTCGTC GACCTATTTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00441 Mean Expected Number 0.009 -strand -68 : -77 AACAAAGTtT AC RSP00522 Mean Expected Number 0.009 -strand -169 : -175 CCACTTG Totally 2 motifs of 2 different REs have been found Description of REs found 421. Group TF: Dof1 /AC: RSP00441//OS: Zea mays /GENE: cyPPDK1/RE: box a /TF: Dof1 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ACP1 |LOCUS: AT3G05020 |PROD: acyl carrier protein 1, chloroplast (ACP-1) |complement(1391658..1392960) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +76 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.25 T - 0.27 C - 0.19 1 gatctgattg gtacggtttg gttcgatttt cgtcaataga ataaaaaact 51 gtatgaatag aataatccgg ttaaattggc acgtgaaatg cgaaatgggc 101 tgagtcattc attatggaaa gcccatgtgA TTGGtaggga acgacgtcgg 151 gtgaagggag gggaagagct TATAAATGaa agcagcaagc agagcagttc 201 ACGCTCTTTG TACACTCCGC CCTCTCTCCC CATCTCTTTC GACAGATCTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00871 Mean Expected Number 0.009 +strand -102 : -93 GcTGAGTCAT AC RSP00966 Mean Expected Number 0.003 +strand -123 : -114 GGCACGTGAa AC RSP01015 Mean Expected Number 0.008 +strand -28 : -19 tAAATGAAAG AC RSP01073 Mean Expected Number 0.001 +strand -15 : -7 CAAGCAGAG AC RSP01091 Mean Expected Number 0.004 +strand -165 : -155 ATAGAATaAAA AC RSP01509 Mean Expected Number 0.001 -strand -189 : -197 ACCAATCAG AC RSP01703 Mean Expected Number 0.002 -strand -51 : -60 CCGACGTCGT Totally 7 motifs of 7 different REs have been found Description of REs found 807. Group RE: GLM1 /AC: RSP00871//OS: Triticum aestivum /GENE: LMWG-1D1/RE: GLM1 /TF: unknown 889. Group RE: G-box /Group TF: GBF /AC: RSP00966//OS: Antirrhinum majus /GENE: pallida/RE: G-box /TF: GBF 940. Group TF: GAPF /AC: RSP01015//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 3 /TF: GAPF 991. Group TF: PvAlf /AC: RSP01073//OS: Arachis hypogea; Phaseolus vulgaris /GENE: Em/RE: Em2b /TF: PvAlf 1009. Group RE: box 1 /AC: RSP01091//OS: Pisum sativum /GENE: GS2/RE: box 1 /TF: unknown 1364. Group RE: CCAAT box /AC: RSP01509//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CCAAT box /TF: unknown ||Identical REs AC: RSP01510 1512. Group RE: ACGT2/DRE2 /AC: RSP01703//OS: Arabidopsis thaliana /GENE: XERO2/RE: ACGT2/DRE2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G05070 |PROD: the same as GENE |1416165..1417743 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +321 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.23 G - 0.20 T - 0.41 C - 0.16 1 ttaagagtgt gttgttatag cagttaaaga cgagccgagc cttcttaaaa 51 cgccgcgtat tgtaaggggt atttctataa cttccatagt tagggtttag 101 gttttaagat taatgggcct gactgaatgg atattttaat ctggcccgtt 151 tataaTATTA ATAcgtgggc gttttattgt tctcttcccc cttaatagtt 201 TTTCTTTTTT AATCCCTTTG TTTCTCTGTG GTATTCAACA AATTTGTCTC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00142 Mean Expected Number 0.001 +strand -150 : -144 CGCCGCG AC RSP00279 Mean Expected Number 0.005 +strand -111 : -103 TTAGGGTTT AC RSP00369 Mean Expected Number 0.005 -strand -103 : -111 AAACCCTAA AC RSP01303 Mean Expected Number 0.008 -strand -102 : -111 TAAACCCTAA AC RSP01304 Mean Expected Number 0.005 -strand -102 : -111 TaAACCCTAA Totally 5 motifs of 5 different REs have been found Description of REs found 138. Group RE: GC-rich motif /AC: RSP00142//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: GC-rich motif /TF: unknown 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1197. Group RE: Telo box /AC: RSP01304//OS: Lycopersicon esculentum /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: GDSL-motif lipase/hydrolase family protein |LOCUS: AT3G05180 |PROD: the same as GENE |complement(1468404..1470550) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +15 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.12 T - 0.42 C - 0.15 1 acgagaggag gacttcatca tttgtttcta tctatatttc caagcaaact 51 cacattctac tttcattaca ttatgtatac acgcatacat ttgtatccac 101 ataaggatgt atattttttt ttatctttta ttttattttt ttgttaaaac 151 cataatatat aatgTATATA TAgtatgtaa gaaatgataa ggctgaaatt 201 ATATTGTTTT GAGCCATGGA AACTCTTTTC CACACTCTTC TTAGATTATT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00331 Mean Expected Number 0.004 -strand +23 : +15 GTTTCCATG AC RSP00559 Mean Expected Number 0.005 -strand +3 : -8 TaTAATTTCAG AC RSP00627 Mean Expected Number 0.001 +strand -17 : -9 ATGATAAGG Totally 3 motifs of 3 different REs have been found Description of REs found 317. Group TF: S1F /AC: RSP00331//OS: Spinacia oleracea; Pisum sativum; Arabidopsis thaliana; /GENE: prs 1 and RPL21 (spinach), rbcS-3a (pea, tomato, Arabidopsis),/RE: S1, consensus /TF: S1F 535. Group RE: 2'/Box II J1 /AC: RSP00559//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: 2'/Box II J1 /TF: unknown 603. Group TF: GAF-1 /AC: RSP00627//OS: Pisum sativum /GENE: rbcS-3A/RE: GA-1 SITE /TF: GAF-1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: sporozoite surface protein-related |LOCUS: AT3G05460 |PROD: the same as GENE |1577806..1578740 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +42 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.14 T - 0.31 C - 0.19 1 attttattcc atcaacagtt ttgaaatata tagtagtata gtaccgcgta 51 ccatatatag ttagtgtagt caaactcaaa tcaattagta ttaactctta 101 agattttctg gtcaaaccca aaacgtacat tccttctttt ggttaaaacc 151 ccacaacgta cattgcatTA TAAAAAaacg acgaaggtta cttaagcttc 201 ATCACTAAAA GCAAAATACA CCGTAACAGT TTTCGTTGGA AGATGAAGAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01032 Mean Expected Number 0.004 -strand -59 : -68 CCAAAAGAAG AC RSP01209 Mean Expected Number 0.003 +strand -68 : -59 CTTCTTTTGG AC RSP01733 Mean Expected Number 0.009 +strand -157 : -152 CCGCGT Totally 3 motifs of 3 different REs have been found Description of REs found 957. Group TF: FLC /AC: RSP01032//OS: Arabidopsis thaliana /GENE: SOC1/RE: CArG box /TF: FLC 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs 1541. Group TF: CAMTA3 /AC: RSP01733//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM2 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: rubber elongation factor (REF) family protein |LOCUS: AT3G05500 |PROD: the same as GENE |1593440..1595021 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +106 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.16 T - 0.27 C - 0.24 1 tcttagcgac acacatttac ttaacccaca agtcgtcaac ggcccaaaga 51 atatggatgg ttacgagaga gcgcatacaa agacgcgctc ctaaccgacC 101 CAATtagaga aaacacacgc ttgcttacac gcgtaataag gttcttacac 151 gtgccaaaaa cccttgttaT ATAAAGAaac ctaggtcacg tcaatttctc 201 ATCACCATTG CTTTGTTTTG TTCGTCAAAT ATAATCAATT TTAAATTTCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00416 Mean Expected Number 0.007 -strand -142 : -148 CATCCAT AC RSP00447 Mean Expected Number 0.003 -strand +17 : +8 AaCAAAGCAA AC RSP00523 Mean Expected Number 0.009 +strand -74 : -68 ACACGCG AC RSP00817 Mean Expected Number 0.004 +strand -55 : -46 TACACGTGCc AC RSP00974 Mean Expected Number 0.002 +strand -55 : -46 TACACGTGCC AC RSP01152 Mean Expected Number 0.003 +strand -55 : -46 tACACGTGCC Totally 6 motifs of 6 different REs have been found Description of REs found 398. Group RE: Box-1 /AC: RSP00416//OS: Hordeum vulgare /GENE: EPB-1/RE: Box-1 /TF: unknown 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 499. Group TF: DPBF-1; DPBF-2 /AC: RSP00523//OS: Daucus carota /GENE: Dc3/RE: E3-core /TF: DPBF-1; DPBF-2 763. Group TF: ACE-binding TF /AC: RSP00817//OS: Arabidopsis thaliana /GENE: CFI/RE: ACE-core (AtCFI) /TF: ACE-binding TF 897. Group RE: G-box /AC: RSP00974//OS: Glycine max /GENE: vspB/RE: G-box /TF: unknown ||Identical REs AC: RSP00981 1067. Group TF: EmBP-1 (+VP1) /AC: RSP01152//OS: Zea mays /GENE: Em/RE: Em1b /TF: EmBP-1 (+VP1) ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G05800 |PROD: the same as GENE |1727347..1728246 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +135 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.11 T - 0.33 C - 0.16 1 ttttttcatt caccagttca atcataattg gccaatgtga ttttagacgt 51 acattattat taaagaaaaa taaataaaaa ataatggtat tcaattcgaa 101 aaacccaaga aaatatagaa aataATTGAt ttaagggtgg cttctccaat 151 ctctcccaaa tgttTATATA TAgagaatta gatatcccct ccaattactc 201 AAAATTATTA TCAAAATAAG AAAGAGCTCA ACATTGTTCT CTGACTCTAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00332 Mean Expected Number 0.006 +strand -117 : -110 ATGGTATT AC RSP00855 Mean Expected Number 0.000 -strand -183 : -194 AACtGGTGAATG AC RSP01237 Mean Expected Number 0.001 -strand -26 : -35 CTCTATATAT Totally 3 motifs of 3 different REs have been found Description of REs found 318. Group TF: S1F /AC: RSP00332//OS: Spinacia oleracea /GENE: RPL21/RE: S1 /TF: S1F 792. Group RE: 12 bp element /AC: RSP00855//OS: Arabidopsis thaliana /GENE: FIL/RE: 12 bp element /TF: unknown 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: GLP8 |LOCUS: AT3G05930 |PROD: germin-like protein (GLP8) |1770343..1771356 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +40 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.08 T - 0.31 C - 0.22 1 gtgtccaaca aaacaaaact ctttttaaac accaaatttt aaccaacgat 51 cagaacacct aaacctaatt atggcaaaat tttaaaatta acacatctat 101 ggcccctctc cataattatc tcttctccat tggttttccA TTGGttaaat 151 cttctttacg tagataTATA AATTgagaaa caatgttaaa gtattttctc 201 AAACTCATCA ATAACATCTT ACAAACAACA ACAATCAACA ATGGCAACTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00395 Mean Expected Number 0.008 +strand -45 : -36 TTACGTAGAT AC RSP00880 Mean Expected Number 0.004 +strand +39 : +48 CAAtGGCAAC AC RSP01013 Mean Expected Number 0.006 -strand -68 : -77 CcAATGGAGA AC RSP01463 Mean Expected Number 0.009 -strand -28 : -40 ATTTATATATcTA Totally 4 motifs of 4 different REs have been found Description of REs found 378. Group TF: Opaque-1 /AC: RSP00395//OS: Zea mays /GENE: gamma-27kDa zein/RE: O2-like-box /TF: Opaque-1 816. Group TF: Dof family /AC: RSP00880//OS: Hordeum vulgare /GENE: Al21/RE: M1 /TF: Dof family 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 1333. Group RE: AT-rich ELS /AC: RSP01463//OS: Glycine max /GENE: BiP6/RE: AT-rich ELS /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: autophagy 8h (APG8h) |LOCUS: AT3G06420 |PROD: the same as GENE |complement(1954996..1956399) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +119 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.17 T - 0.30 C - 0.18 1 aagagtagaa taaaagagtt tgtaatacac ttgattgttc ttgcagctat 51 gcgtgttata tattttgatg ggcccaaaat tatgaataga ggcccataga 101 taaactgtga cgtgcacaag aaatcggaca agtccaaaaa gtggataagt 151 gcgtgtcgtc tttcTATAAA TAatctcttt tctctcatct tttaccgttt 201 CTTCTCGAAC AATCAAAAAC GAACTAACCA AACATAAAAT TGAACACATC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00399 Mean Expected Number 0.001 -strand -86 : -93 GCACGTCA AC RSP00445 Mean Expected Number 0.009 -strand -18 : -27 AgAAAAGAGA AC RSP00891 Mean Expected Number 0.007 -strand -135 : -143 AAAATATAT AC RSP01296 Mean Expected Number 0.006 +strand -37 : -29 CTATAAATA Totally 4 motifs of 4 different REs have been found Description of REs found 381. Group TF: AP1-like leucine zipper TF /AC: RSP00399//OS: Nicotiana tabacum /GENE: RNP2/RE: ATF /TF: AP1-like leucine zipper TF ||Identical REs AC: RSP00884 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 823. Group TF: Dof family /AC: RSP00891//OS: Solanum melongena /GENE: SmCP/RE: EE 1 /TF: Dof family 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: 60S ribosomal protein L29 (RPL29A) |LOCUS: AT3G06700 |PROD: the same as GENE |complement(2117360..2117984) |SUPPORT | 3 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +178 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.20 T - 0.31 C - 0.16 1 aagaaattcc aaattttgaa aaaaatggtt tgctgcttta tttatacccc 51 aatttgtaaa aggccacgac tctgggttca ttcaatgggc ttatatgatt 101 tagcaacgag atagattaat tagaggccca tatatgattt attagggcac 151 gttggtcatt taaagtccac TATAAATTca atcagaaatt agggttttgt 201 GTTGCAGACG CCGTATTTGT ATCGCGGAAA GTAAACCTAG CCGAGCAGAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.002 +strand -12 : -4 TTAGGGTTT AC RSP00369 Mean Expected Number 0.002 -strand -4 : -12 AAACCCTAA AC RSP00501 Mean Expected Number 0.006 +strand +42 : +48 CGAGCAG AC RSP00681 Mean Expected Number 0.005 -strand -79 : -87 TAATTAATC AC RSP00866 Mean Expected Number 0.002 +strand -54 : -47 GCACGTTG AC RSP01303 Mean Expected Number 0.005 -strand -3 : -12 aAAACCCTAA Totally 6 motifs of 6 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 477. Group TF: EmBP-1 /AC: RSP00501//OS: Triticum aestivum /GENE: Em/RE: Em2 /TF: EmBP-1 650. Group RE: Box 4 /AC: RSP00681//OS: Pisum sativum /GENE: PSPAL2/RE: Box 4 /TF: unknown 802. Group RE: G-box /AC: RSP00866//OS: Nicotiana tabacum /GENE: NiPMT1a/RE: G-box /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: AT-IMP |LOCUS: AT3G06720 |PROD: importin alpha-1 subunit, putative (IMPA1) |2120330..2124137 |SUPPORT | 11 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +235 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.17 T - 0.30 C - 0.15 1 aggatcttca aattgttgag atataaagaa gaatacatta gcttgcctca 51 aagaacacaa tagtaagggg ctaattatgt aaataaccta attgtggaca 101 cctgtttgca taaataaata gtggcaaaac tgtaaataag tgaatatttt 151 agcaattaca gTATAAATTa agaacaaaga ttaaaaataa ataaaaaagt 201 GCTTTCATTC TTTGGATGCG CTGTTGTCAA CTTGTCCCTC GCTGCCTCTG 251 C Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G07480 |PROD: the same as GENE |2388958..2389817 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +74 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.14 T - 0.33 C - 0.20 1 atgtttatag atttttttct gtcttaaatg cctcataaaa tacatagaag 51 caatgttttc ttcaacccaa actaaaccaa acaaaatatt tggattaata 101 ttgaccggtt cgATTGAacg gtccagttag aaatttgggc ttgtaagtat 151 gtaacttatc tttgggctTA TAAAGAagcc catctccaaa ttagcgtttc 201 ACCCTCACTC ACTTTTCCGG TTTCAACCAT TAGCACAAAA AATCTGAGCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00097 Mean Expected Number 0.001 +strand -83 : -76 ACGGTCCA AC RSP00888 Mean Expected Number 0.005 -strand -185 : -193 AAAAATCTA Totally 2 motifs of 2 different REs have been found Description of REs found 95. Group RE: 9-mer box /AC: RSP00097//OS: Zea mays /GENE: GapC4/RE: 9-mer box /TF: unknown 820. Group TF: CCA1 /AC: RSP00888//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: CCA1 motif (2) /TF: CCA1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: thymidine kinase, putative |LOCUS: AT3G07800 |PROD: the same as GENE |complement(2489393..2491017) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +76 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.10 T - 0.32 C - 0.25 1 ctttatgaaa agagagaggt aaaataaaaa gattcgctct aaaaaactgt 51 ttccctccaa agatgtaatt tttttgaaaa aacctcccat tcaaaatttc 101 aaacccttat ctttgacaaa tcttctccaG CAATtttctt ccttgttcaa 151 cttctggatg tccgcgTATA TATAtcttca acaagctatt caccatcgct 201 ACCTAAAACC ACAAGCAAAT TGAACCCTTC TCCCTTTTTT CATCTACAAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00091 Mean Expected Number 0.001 -strand +30 : +19 GAAGGGTTCAAt AC RSP00171 Mean Expected Number 0.008 +strand -189 : -184 GAGAGA Totally 2 motifs of 2 different REs have been found Description of REs found 89. Group RE: ARE 76/65 /AC: RSP00091//OS: Chlamydomonas reinhardtii /GENE: Nia1/RE: ARE 76/65 /TF: unknown 165. Group RE: GAGAGA motif /AC: RSP00171//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: GAGAGA motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: RabGAP/TBC domain-containing protein |LOCUS: AT3G07890 |PROD: the same as GENE |complement(2516310..2518917) |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +127 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.19 T - 0.38 C - 0.14 1 ttttttaaca gaagctgtaa tttttttttt gactgcgtag aggagaagaa 51 gattagaggt gttcaaaggt gataacgttt gcagaacgtg accacaatta 101 taatATTGAa aggtatcaga aaactttgct aagatttatt ataaactcct 151 tttttaTTTA AATTcaagag atatcaaaca actacttcat tttttttttt 201 GTAGCAGCCG AGTACTCTTT TTTGACGGTG TCCGTGTTCG TGCTTGGTCT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00355 Mean Expected Number 0.005 +strand -195 : -188 TAACAGAA AC RSP00894 Mean Expected Number 0.007 +strand -40 : -33 AATTCAAG AC RSP01093 Mean Expected Number 0.004 -strand -67 : -77 TCTtAGCAAAG Totally 3 motifs of 3 different REs have been found Description of REs found 340. Group RE: GARE2 /AC: RSP00355//OS: Oryza sativa /GENE: Rep-1/RE: GARE2 /TF: unknown 825. Group TF: Dof family /AC: RSP00894//OS: Solanum melongena /GENE: SmCP/RE: ERE 2 /TF: Dof family 1011. Group RE: box 2 /AC: RSP01093//OS: Pisum sativum /GENE: GS2/RE: box 2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: 2 |LOCUS: AT3G08590 |PROD: the same as GENE |complement(2608477..2611424) |SUPPORT | 9 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +181 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.13 T - 0.32 C - 0.26 1 atgactatta caaacggcat gatccagaac attcgttcat agcagctaaa 51 actagaacat tcgtctcctt ccattttttt gggggcttca caatgtttac 101 ttgagcccaa agtaaagccc attaaATTGG taccacgtca tcgctaactt 151 ttccatttct atgtttcTAT AAAAGtctca tattatgtca gtgatagctc 201 TCAACCTACC ATACTTCACC ACATAACCAC TTCTGTCTCT GCGAATCTCC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00214 Mean Expected Number 0.004 -strand -61 : -68 TGACGTGG AC RSP00215 Mean Expected Number 0.004 +strand -68 : -61 CCACGTCA AC RSP00913 Mean Expected Number 0.007 -strand -59 : -68 GATGACGTGG AC RSP00915 Mean Expected Number 0.010 -strand -59 : -68 GATGACGTGG AC RSP00916 Mean Expected Number 0.007 -strand -59 : -68 GATGACGTGG AC RSP00997 Mean Expected Number 0.006 -strand -59 : -68 GATGACGTGG AC RSP01016 Mean Expected Number 0.008 -strand -33 : -40 AGAAACAT AC RSP01236 Mean Expected Number 0.008 -strand -191 : -200 TaATAGTCAT AC RSP01275 Mean Expected Number 0.006 +strand -69 : -60 aCCACGTCAT AC RSP01711 Mean Expected Number 0.009 -strand -146 : -155 CTAGTTTTAG Totally 10 motifs of 10 different REs have been found Description of REs found 207. Group TF: TGA1; GBF1 /AC: RSP00214//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: TGA1; GBF1 ||Identical REs AC: RSP01257 RSP01474 208. Group TF: HBP-11(17); HBP-1b(c38) /AC: RSP00215//OS: Triticum aestivum /GENE: H3/RE: Hex /TF: HBP-11(17); HBP-1b(c38) 844. Group TF: Opaque-2 /AC: RSP00913//OS: Zea mays /GENE: b-32/RE: B1 /TF: Opaque-2 846. Group TF: Opaque-2 /AC: RSP00915//OS: Zea mays /GENE: b-32/RE: B3 /TF: Opaque-2 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 941. Group TF: AEF /AC: RSP01016//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 1 /TF: AEF 1141. Group RE: 10 bp Z-BAC- /AC: RSP01236//OS: Phaseolus vulgaris /GENE: BAC/RE: 10 bp Z-BAC- /TF: unknown 1174. Group RE: ACE 2 /AC: RSP01275//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 2 /TF: unknown 1519. Group TF: RIN /AC: RSP01711//OS: Solanum lycopersicum /GENE: Synthetic OLIGO/RE: RIN BSC Others /TF: RIN ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ubiquitin-conjugating enzyme 11 (UBC11) |LOCUS: AT3G08690 |PROD: the same as GENE |2641148..2642669 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +345 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.18 T - 0.33 C - 0.16 1 aataaaatca ttgctctgta ttttttgact gcatgagtcc taattggtga 51 aataaaaaaa cttttggcac gagaattaat aaatatatag aaaaggtgaa 101 ataggtgagg cggtacttgc tgatagaatc agaagcttcg agactgactt 151 gttttagatt ctctgacTAT AAAGAaaggc aaagtaacaa gtttcgtttt 201 CTCCTTTGCA CTCCATTTTT ATTCTCGATT CTCTTCTCTC CCGATAAAGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00055 Mean Expected Number 0.006 +strand -129 : -118 AGAATTAaTAAA AC RSP01091 Mean Expected Number 0.009 +strand -78 : -68 ATAGAATCAgA AC RSP01092 Mean Expected Number 0.010 -strand -37 : -47 AgAGAATCTAA Totally 3 motifs of 3 different REs have been found Description of REs found 54. Group RE: Box 3 /AC: RSP00055//OS: horseradish (Armoracia lapathifolia) /GENE: prxC2/RE: Box 3 /TF: unknown ||Identical REs AC: RSP00645 1009. Group RE: box 1 /AC: RSP01091//OS: Pisum sativum /GENE: GS2/RE: box 1 /TF: unknown 1010. Group RE: box 1* /AC: RSP01092//OS: Pisum sativum /GENE: GS2/RE: box 1* /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: LTP6 |LOCUS: AT3G08770 |PROD: lipid transfer protein 6 (LTP6) |complement(2664195..2664834) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +44 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.11 T - 0.27 C - 0.21 1 aaaatgtaat taaaaagaaa taatattgtt agatacaatg cagttgaatc 51 cggagggttg gatcttaatt ggctgaaggt aaacattaaa ttcttccaca 101 actaactaac agtaacactc gtgtcctaGC AATcactctt cctcaactac 151 caatctcaaa ctctttccat cTATAAATAa cctctctatt ttctaaccct 201 AACCATAACA CAAATACACC AAAAAAAAAA AAACAGAAAG TAACATGAGA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00745 Mean Expected Number 0.004 -strand -15 : -26 GAgAGGTTATTT AC RSP01056 Mean Expected Number 0.006 -strand +47 : +37 CATGTTACTTT Totally 2 motifs of 2 different REs have been found Description of REs found 707. Group TF: GT-1 /AC: RSP00745//OS: Nicotiana plumbaginifolia /GENE: Cab-E/RE: box 5 /TF: GT-1 976. Group TF: GT-3a /AC: RSP01056//OS: Arabidopsis thaliana /GENE: cab2/RE: GT-3a Box III (3) /TF: GT-3a ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: DNAJ heat shock protein, putative |LOCUS: AT3G08910 |PROD: the same as GENE |complement(2710160..2711898) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +81 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.20 T - 0.28 C - 0.17 1 taaataataa atatataggg ctactaagtg taaatttcct ctctttgaaa 51 cgacaccgtg attcttaatt ctgataaggt ttgacttttg agctaggttt 101 gccgaaccaa aaacagaacc ggtaaagacc aaataaaaga accggtcggg 151 tatttcttgt atctcGATAA ATAtttcgaa ccggtacgga atgatccgct 201 AGAGTTTTTC CCATTGAAGA AGATCGAGTG AAATTCGAAG AGCGAATCAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00863 Mean Expected Number 0.000 -strand -157 : -165 AGAGAGGAA AC RSP01600 Mean Expected Number 0.008 -strand -151 : -158 TTTCAAAG Totally 2 motifs of 2 different REs have been found Description of REs found 799. Group TF: BPC1 /AC: RSP00863//OS: Arabidopsis thaliana /GENE: STK/RE: GA-4 /TF: BPC1 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G09085 |PROD: the same as GENE |2782156..2782688 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +87 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.12 T - 0.39 C - 0.19 1 aaattcatcc gttataaatt aatttaacct aaaaattagt ttctctttaa 51 ttttttgttt ttgaaaatgg gcccataagt taccaaataa agccttctaa 101 aatgtgggct tttcaggccc atatATTGTt tggatttgtt tccttttttt 151 attccatttt cttgaacTAT AAATCttgtt cgtttcctct tctaaatctc 201 TCGCTTTCAC CAACCAAACC CAGAAGAAAG CTCGAGATCA ATATCGAATA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01209 Mean Expected Number 0.003 -strand -109 : -118 CTTTATTTGG AC RSP01454 Mean Expected Number 0.009 +strand +9 : +15 ACCAACC Totally 2 motifs of 2 different REs have been found Description of REs found 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs 1325. Group RE: AC-II /Group TF: PtMYB4 /AC: RSP01454//OS: Pinus taeda /GENE: Synthetic OLIGO/RE: AC-II /TF: PtMYB4 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ATGSTU8 |LOCUS: AT3G09270 |PROD: glutathione S-transferase, putative |complement(2848295..2849293) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +61 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.10 T - 0.29 C - 0.23 1 agcgattgag aaaagaacag gccttcaacc actaccctca tttaaagtca 51 aaaagttgac cacctaatat tcatcctatt tgttaatttc aaattttacg 101 aaacattaat ctgattattc tcgtgaccaa ctattcttca tacatccatt 151 taaccaaatc caaagtggtT ATAAATAact gctaaccatc attgctcaat 201 AAAACACACA CACACAAAGG GAAAGCCAAA CCGGTATATT TTCTTTAAAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01476 Mean Expected Number 0.010 +strand -160 : -153 TTTAAAGT AC RSP01602 Mean Expected Number 0.001 -strand -190 : -197 TCTCAATC Totally 2 motifs of 2 different REs have been found Description of REs found 1344. Group RE: E motif /AC: RSP01476//OS: Oryza sativa /GENE: GluA-3/RE: E motif /TF: unknown 1423. Group RE: Inr /AC: RSP01602//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: 60S ribosomal protein L35 (RPL35A) |LOCUS: AT3G09500 |PROD: the same as GENE |2916986..2918036 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +67 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.22 T - 0.29 C - 0.18 1 gatgatgcaa tgtgactgaa accataaagg tcacgtgcgt ttatttgctt 51 taggcttctc gtaatgaaag tgataataca tgggctaagg cccattaagt 101 atttctctta agttaagctA TTGGgtatga ataatgagct ttataccacc 151 caataaggag actcgtcata TATAAATGac cactcctccg ttattagggt 201 TTCTGATTCT CGGAGCTAAA AGAAGAGCAA GCAGCGGCGC AGAAGTTGAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00049 Mean Expected Number 0.003 -strand -162 : -171 CGCACGTGaC AC RSP00158 Mean Expected Number 0.005 +strand -159 : -149 TATTTGCTTtA AC RSP00229 Mean Expected Number 0.001 +strand -52 : -43 CCCAATAAGG AC RSP00279 Mean Expected Number 0.002 +strand -7 : +2 TTAGGGTTT AC RSP00369 Mean Expected Number 0.002 -strand +2 : -7 AAACCCTAA AC RSP01006 Mean Expected Number 0.004 +strand -56 : -50 ACCACCC AC RSP01214 Mean Expected Number 0.003 -strand -43 : -52 CCTTATTGGG AC RSP01303 Mean Expected Number 0.004 -strand +3 : -7 gAAACCCTAA Totally 8 motifs of 8 different REs have been found Description of REs found 48. Group RE: G-box /AC: RSP00049//OS: Hordeum vulgare /GENE: HVA22/RE: G-box /TF: unknown 153. Group RE: D3 /AC: RSP00158//OS: Glycine max /GENE: GmAux28/RE: D3 /TF: unknown 222. Group RE: CArG Box 1 /AC: RSP00229//OS: Arabidopsis thaliana /GENE: AGAMAOUS (AG)/RE: CArG Box 1 /TF: unknown 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 931. Group TF: PtMYB1; PtMYB4 /AC: RSP01006//OS: Pinus sylvestris /GENE: PsGS1b/RE: GS1b AC box 1 (AC-II) /TF: PtMYB1; PtMYB4 1122. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01214//OS: Brassica oleracea /GENE: BoCRC/RE: EM1 /TF: MADS box TFs 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: 40S ribosomal protein S23 (RPS23A) |LOCUS: AT3G09680 |PROD: the same as GENE |complement(2969050..2970376) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +80 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.26 G - 0.16 T - 0.35 C - 0.23 1 ttttcccgta ttattacctt aaggagttgg cataatattt gggttgacat 51 gtgatgggcc ttcttgttaa gcccaaatat aaaaataatc atttgccgtt 101 taaTCAATtt cattgcagac cggttaatgc ctaaaccagg gctctcacga 151 gtcttgaccc aagccTATAT ATAcctattt tcttatcact agggtttttc 201 AATCTCTCAC GAACTTAAAA CGTCGCGCCT TTAGCAGTTT CAGCTCATCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01757 Mean Expected Number 0.004 -strand -43 : -50 GTCAAGAC Totally 1 motifs of 1 different REs have been found Description of REs found 1562. Group TF: B /AC: RSP01757//OS: Glycine max /GENE: a2/RE: BBS /TF: B ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G09770 |PROD: the same as GENE |complement(2996283..2998195) |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +355 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.15 T - 0.31 C - 0.14 1 tgagatactt caaatggaga tgctctaata attaatggga atgtgtttct 51 aattaaaaag ataacatctt tctttctata tttttgtcgt catataacac 101 acctcaactc ttttaagtac tcgtgttgaa ttttgttttt tgaaaagaca 151 aaactcctta taatcaacgt aatTATTAAT Aacaaggaga aaaaaagtcc 201 AAAGAAAAAA AAAAGAAAGC TTTTTGGGAA CATAAACACC ATCGAAGGAG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00114 Mean Expected Number 0.002 +strand -118 : -109 tTTGTCGTCA AC RSP00860 Mean Expected Number 0.001 -strand -124 : -132 AGAAAGAAA AC RSP00969 Mean Expected Number 0.001 -strand -108 : -117 aTGACGACAA AC RSP01013 Mean Expected Number 0.008 +strand -190 : -181 CAAATGGAGA Totally 4 motifs of 4 different REs have been found Description of REs found 112. Group RE: B2 /AC: RSP00114//OS: Glycine max /GENE: GmAux28/RE: B2 /TF: unknown 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 892. Group TF: STGA1 /AC: RSP00969//OS: Glycine max /GENE: GmAux28/RE: Aux28B2 /TF: STGA1 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: AT3G09805 |LOCUS: AT3G09810 |PROD: isocitrate dehydrogenase |3008699..3011442 |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +59 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.23 G - 0.18 T - 0.37 C - 0.22 1 cttaatttca tctgaccggt ttttataatt tattgatatc cggttcattt 51 gaccatggcc gtttaagaac ataggctgat gccgtttctt attttcagac 101 actaactttg tgccgtttta tttcatggaa atcgaaatgt tctctgcttc 151 tctgctggag ctagagaagg TATAAAAGta aactttttca ggtccaacgc 201 AGCAAAAAGT CTCCTCTTTC CTCTCTTTCT CTCTCTGCGT CCTTCTGAGG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00861 Mean Expected Number 0.007 -strand +30 : +22 AGAAAGAGA AC RSP00863 Mean Expected Number 0.004 -strand +26 : +18 AGAGAGGAA AC RSP00864 Mean Expected Number 0.004 -strand +36 : +28 AGAGAGAGA AC RSP00933 Mean Expected Number 0.004 +strand -179 : -167 TTTATAATTTaTT Totally 4 motifs of 4 different REs have been found Description of REs found 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 799. Group TF: BPC1 /AC: RSP00863//OS: Arabidopsis thaliana /GENE: STK/RE: GA-4 /TF: BPC1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 862. Group RE: AT-2a /AC: RSP00933//OS: Pinus sylvestris /GENE: GS1a/RE: AT-2a /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: monodehydroascorbate reductase, putative |LOCUS: AT3G09940 |PROD: the same as GENE |complement(3056384..3059153) |SUPPORT | 9 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +45 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.13 T - 0.31 C - 0.18 1 tatataatag ctatttagaa acattaaagg tgtggattat attatagtca 51 agtctttcca atatgaatat tatatcatcc accaatacat aattattgtc 101 aaatacaagt tgagtcagat tagtcaaata caggcaacca agactcgaga 151 tcctcatcgt ctctccactt taTATAAACC ccaagtcagt acttctcata 201 ATATACCAAA AACGAAACTG AGAAAGAAGT TTTATTTATT AATTAATGGC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00750 Mean Expected Number 0.005 +strand -108 : -97 TTATTGTcAAAT Totally 1 motifs of 1 different REs have been found Description of REs found 712. Group TF: GT-1 /AC: RSP00750//OS: Catharanthus roseus /GENE: STR/RE: BN rev /TF: GT-1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: calcineurin-like phosphoesterase family protein |LOCUS: AT3G09970 |PROD: the same as GENE |3063779..3065580 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +39 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.44 G - 0.15 T - 0.25 C - 0.16 1 tccaaaatta gaaaatggta taactactta acactgttat gaaaaaaaat 51 tttgaaactt gtaaattctt ttgcatgttg ttagcttatg aaccaccaac 101 ttagaaagga gataagaaga agctaagaaa aactagacga ccaaaaaaac 151 atgttattat ttcgaaataa TATATATAgc caaaggccca tgaagcccac 201 AAGTACATTA TCATCATTTC AAGAAACAGA GAGAGACTAA TGGCGCAAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00107 Mean Expected Number 0.006 -strand -124 : -130 CATGCAA AC RSP00535 Mean Expected Number 0.002 -strand -14 : -30 GCCT-- +7 bp --TATATA AC RSP00864 Mean Expected Number 0.002 +strand +28 : +36 AGAGAGAGA AC RSP00961 Mean Expected Number 0.002 -strand -126 : -133 TGCAAAAG AC RSP01205 Mean Expected Number 0.009 -strand -92 : -101 CCTTTCTAAG Totally 5 motifs of 5 different REs have been found Description of REs found 105. Group RE: RY2 /AC: RSP00107//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY2 /TF: unknown 511. Group RE: LRE-TATA AA1 /AC: RSP00535//OS: Lycopersicon esculentum /GENE: rbcS3C/RE: LRE-TATA AA1 /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 886. Group TF: BPBF /AC: RSP00961//OS: Hordeum vulgare /GENE: ITR1/RE: PB1 /TF: BPBF 1115. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01205//OS: Arabidopsis thaliana /GENE: AtCRC/RE: EM2 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G10250 |PROD: the same as GENE |complement(3167956..3170931) |SUPPORT | 8 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +508 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.19 T - 0.27 C - 0.16 1 ggttttctta tttcgtaaga atcgttgact aatattgacc ggctggctaa 51 taagaagatc agataactct acaggtatgg gatccaccat tgtcaaacat 101 tttacacgtg tcagcttcct gagcttcgaa gcctgaatgt taaaattaaa 151 aaatttaaaa gaaagaaaTA TAAAAAgaag taaatcaaag aaaatggagt 201 AAAGAAATTG ATCCACGATC GATCAACAAA GTGAGGTTAG GTTCCATCTC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00077 Mean Expected Number 0.001 +strand +36 : +44 GTTAGGTTC AC RSP00230 Mean Expected Number 0.008 -strand +43 : +34 AACCTAACCT AC RSP00340 Mean Expected Number 0.002 +strand -98 : -89 TaCACGTGTC AC RSP00524 Mean Expected Number 0.009 +strand -97 : -91 ACACGTG AC RSP00524 Mean Expected Number 0.006 -strand -90 : -96 ACACGTG AC RSP00949 Mean Expected Number 0.004 -strand -170 : -177 TAGTCAAC AC RSP00985 Mean Expected Number 0.007 +strand +35 : +44 gGTTAGGTTC AC RSP01035 Mean Expected Number 0.006 +strand -95 : -89 ACGTGTC AC RSP01256 Mean Expected Number 0.002 +strand -97 : -90 ACACGTGT AC RSP01256 Mean Expected Number 0.002 -strand -90 : -97 ACACGTGT AC RSP01458 Mean Expected Number 0.003 +strand -56 : -44 ATTaAAAAATTTA Totally 11 motifs of 9 different REs have been found Description of REs found 76. Group RE: AC-III /AC: RSP00077//OS: Phaseolus vulgaris /GENE: PAL2/RE: AC-III /TF: unknown 223. Group TF: PcMYB1 /AC: RSP00230//OS: Petroselinum crispum /GENE: CHS-1/RE: MRECHS /TF: PcMYB1 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 878. Group RE: TAGTCAAC motif /AC: RSP00949//OS: Petroselinum crispum /GENE: 4CL-1/RE: TAGTCAAC motif /TF: unknown 906. Group TF: PBP (Myb305) /AC: RSP00985//OS: Antirrhinum majus /GENE: gPAL2/RE: P-box /TF: PBP (Myb305) 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1159. Group TF: GBF1 /AC: RSP01256//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS3 /TF: GBF1 1328. Group RE: AT-rich ELS /AC: RSP01458//OS: Glycine max /GENE: BiP9/RE: AT-rich ELS /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ATNAP7 |LOCUS: AT3G10670 |PROD: ABC transporter family protein |complement(3335080..3337392) |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +83 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.15 T - 0.37 C - 0.18 1 gtctgtttct tcatcccaag gtctcatatg tgtaaatagt ttcttgtact 51 tcaaggaaag aagcttttaa ggttttgaag aatatgcgta tcaacacaaa 101 gtgatgtcgt tttatttgtt atttccattt tttttttgtt tccattttaa 151 ttaagctagt agccgaTATA TATAttacgt ggcattcaac atgtgaaatt 201 AAAAGAATCC CTGGACCTAA CTAACCACAT CACTTCACCG GATAAAACCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00043 Mean Expected Number 0.001 +strand -25 : -18 TACGTGGC AC RSP00064 Mean Expected Number 0.002 +strand -27 : -18 AtTACGTGGC AC RSP00234 Mean Expected Number 0.003 +strand -138 : -129 GCTTTTAAGG AC RSP00247 Mean Expected Number 0.003 -strand -18 : -27 GCCACGTAAt AC RSP00595 Mean Expected Number 0.003 -strand -45 : -53 GCTTAATTA AC RSP00985 Mean Expected Number 0.008 -strand +22 : +13 AGTTAGGTcC AC RSP01034 Mean Expected Number 0.003 +strand -24 : -18 ACGTGGC AC RSP01469 Mean Expected Number 0.010 +strand -177 : -168 TCAtATGTGT Totally 8 motifs of 8 different REs have been found Description of REs found 42. Group TF: TAF-1 /AC: RSP00043//OS: Oryza sativa /GENE: rab16A-D/RE: Motif I core /TF: TAF-1 63. Group RE: Motif I /AC: RSP00064//OS: Oryza sativa /GENE: rab16B/RE: Motif I /TF: unknown 227. Group RE: CArG Box 2 /AC: RSP00234//OS: Arabidopsis thaliana /GENE: AGAMAOUS (AG)/RE: CArG Box 2 /TF: unknown 240. Group TF: REB /AC: RSP00247//OS: Oryza sativa /GENE: alpha-globulin/RE: REB1 /TF: REB ||Identical REs AC: RSP00738 571. Group RE: Box II EE1 /AC: RSP00595//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: Box II EE1 /TF: unknown 906. Group TF: PBP (Myb305) /AC: RSP00985//OS: Antirrhinum majus /GENE: gPAL2/RE: P-box /TF: PBP (Myb305) 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: pectinesterase, putative |LOCUS: AT3G10720 |PROD: the same as GENE |complement(3354452..3357619) |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +1531 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.14 T - 0.25 C - 0.22 1 atgtttggtc gtcgtgacgg tggaccaccg gctccaaaaa aactcttcat 51 ttgaccaaaa cgagtataac ccttaattat tagaccaaca tgcattacat 101 aaatgataaa ttcagtttcc ctcgagccca tgcattcatt aaatagcaga 151 aagctcctcg tatagtcTAT ATATAtagca gattttagat ccaaaataac 201 AAACACCATC AATACACAAA CAAAACAAAA AGGATGAAAA TGCAAACACT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00129 Mean Expected Number 0.008 -strand -185 : -190 CACGAC AC RSP00383 Mean Expected Number 0.010 -strand -145 : -151 GGTCAAA AC RSP01003 Mean Expected Number 0.008 -strand -121 : -130 AtAATTAAGG AC RSP01013 Mean Expected Number 0.003 -strand -148 : -157 CAAATGaAGA AC RSP01014 Mean Expected Number 0.003 -strand -148 : -157 CAAATGAAGA AC RSP01068 Mean Expected Number 0.008 +strand -188 : -180 CGTGACGGT AC RSP01237 Mean Expected Number 0.008 +strand -36 : -27 gTCTATATAT AC RSP01237 Mean Expected Number 0.008 +strand -34 : -25 CTaTATATAT AC RSP01651 Mean Expected Number 0.002 -strand -137 : -145 CTCGTTTTG Totally 9 motifs of 8 different REs have been found Description of REs found 127. Group RE: R-motif /AC: RSP00129//OS: Zea mays /GENE: Bronze2/RE: R-motif /TF: unknown 368. Group TF: WRKY1 /AC: RSP00383//OS: Petroselinum crispum /GENE: WRKY1/RE: WA /TF: WRKY1 928. Group TF: DEF/GLO /AC: RSP01003//OS: Antirrhinum majus /GENE: DEFH125/RE: CArG1 /TF: DEF/GLO 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 939. Group TF: GAPF /AC: RSP01014//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 2 /TF: GAPF 987. Group TF: HvH21 /AC: RSP01068//OS: Hordeum vulgare /GENE: Synthetic OLIGOs/RE: HvH21 BS /TF: HvH21 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1470. Group TF: TaVRT2 /AC: RSP01651//OS: Triticum aestivum /GENE: TaVRN1/RE: CArG motif /TF: TaVRT2 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G10930 |PROD: the same as GENE |complement(3420135..3420837) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +299 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.10 T - 0.29 C - 0.23 1 aaaaataaaa caaaaaaaag ttaactcgtt acaaatgaaa atgatatttt 51 taattggact cgatggaaag gaccaattta ttcaacacta ttgtttagtc 101 cgaacacttg ccgcgtaagt tttccaactc cccccATTGA cctttcgcac 151 tttcacaaac tccgTATATA TAtaatggat acactctctc tttgatcttc 201 ACCCACTTCA TCATTTTACA AACCAAGCAA GACTAATCCA ACAAAAAAAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00228 Mean Expected Number 0.001 -strand -156 : -167 ATCATTTTCAtT AC RSP00247 Mean Expected Number 0.002 +strand -91 : -82 GCCgCGTAAG AC RSP00358 Mean Expected Number 0.007 +strand -76 : -69 CAACTCCC AC RSP00654 Mean Expected Number 0.000 +strand -1 : +9 CACCCACTTC AC RSP00915 Mean Expected Number 0.010 -strand +12 : +3 GATGAAGTGG AC RSP01014 Mean Expected Number 0.009 +strand -169 : -160 CAAATGAAAA AC RSP01015 Mean Expected Number 0.009 +strand -169 : -160 CAAATGAAAA AC RSP01294 Mean Expected Number 0.001 -strand -132 : -143 TTTCCATcGAGT AC RSP01577 Mean Expected Number 0.007 -strand -102 : -111 aCTAAACAAT AC RSP01733 Mean Expected Number 0.009 +strand -90 : -85 CCGCGT Totally 10 motifs of 10 different REs have been found Description of REs found 221. Group TF: GT-1 /AC: RSP00228//OS: Pisum sativum /GENE: rbcS-3A/RE: BOX III /TF: GT-1 240. Group TF: REB /AC: RSP00247//OS: Oryza sativa /GENE: alpha-globulin/RE: REB1 /TF: REB ||Identical REs AC: RSP00738 343. Group RE: CARE2 /AC: RSP00358//OS: Oryza sativa /GENE: Rep-1/RE: CARE2 /TF: unknown 628. Group RE: CT-B /AC: RSP00654//OS: Spinacia oleracea /GENE: PetH/RE: CT-B /TF: unknown 846. Group TF: Opaque-2 /AC: RSP00915//OS: Zea mays /GENE: b-32/RE: B3 /TF: Opaque-2 939. Group TF: GAPF /AC: RSP01014//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 2 /TF: GAPF 940. Group TF: GAPF /AC: RSP01015//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 3 /TF: GAPF 1191. Group RE: Box 5 /AC: RSP01294//OS: Avena fatua /GENE: Amy2/D/RE: Box 5 /TF: unknown ||Identical REs AC: RSP01299 RSP01300 1406. Group RE: ICEr2 /Group TF: STK /AC: RSP01577//OS: Solanum tuberosum /GENE: PAT21/RE: ICEr2 /TF: STK ||Identical REs AC: RSP01578 RSP01579 1541. Group TF: CAMTA3 /AC: RSP01733//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM2 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: wound-responsive protein-related |LOCUS: AT3G10985 |PROD: the same as GENE |3442534..3443451 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +248 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.13 T - 0.28 C - 0.25 1 acggtggggt caaacattag ctggctcaac tttcaaagcc ctttatcttc 51 aggtcccaca atttagttta acccaataac atggtaacac gtgtcagatt 101 aagctaaata tccaaaaacc ttaaaaatag tatgcgttac agagaatcag 151 atcccaaccc caagcctcta TATAAATCcc agaatcatca gtaccatttt 201 TCAAAATCCT TCAAGAATCG CTTCATCTTC TTCTTCTTCA ACAAATCGAG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00331 Mean Expected Number 0.006 -strand -113 : -121 GTTACCATG AC RSP00509 Mean Expected Number 0.002 +strand -30 : -19 TATAAATcCCAG AC RSP00524 Mean Expected Number 0.008 +strand -114 : -108 ACACGTG AC RSP00524 Mean Expected Number 0.007 -strand -107 : -113 ACACGTG AC RSP01035 Mean Expected Number 0.007 +strand -112 : -106 ACGTGTC AC RSP01256 Mean Expected Number 0.002 +strand -114 : -107 ACACGTGT AC RSP01256 Mean Expected Number 0.002 -strand -107 : -114 ACACGTGT AC RSP01600 Mean Expected Number 0.007 +strand -170 : -163 TTTCAAAG Totally 8 motifs of 6 different REs have been found Description of REs found 317. Group TF: S1F /AC: RSP00331//OS: Spinacia oleracea; Pisum sativum; Arabidopsis thaliana; /GENE: prs 1 and RPL21 (spinach), rbcS-3a (pea, tomato, Arabidopsis),/RE: S1, consensus /TF: S1F 485. Group RE: TATA box /AC: RSP00509//OS: Avena fatua /GENE: alpha-Amy2/A/RE: TATA box /TF: unknown 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1159. Group TF: GBF1 /AC: RSP01256//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS3 /TF: GBF1 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G11990 |PROD: the same as GENE |3817300..3817952 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +54 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.10 T - 0.37 C - 0.13 1 ctatagtcat gttcgattca agacaaagtt taaagttaca acctgtaaaa 51 atattaatag tctttgatgt aaacgtatct taaacaaaat tattaaatgt 101 tgaagttagt aacatACAAT tattaatgaa taaatgttta atcaattaaa 151 tgtcatttag tgattgtccT ATAAAATctc ttgttttctt gttttatatt 201 ATCAATCTTA CATCCAAAAC TTAAAGTATT CTTACATCCA AAAACAAAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00669 Mean Expected Number 0.003 -strand +4 : -10 TGATAATATAAAAc AC RSP00778 Mean Expected Number 0.004 +strand -74 : -65 TGAATAAATG AC RSP00918 Mean Expected Number 0.002 +strand -102 : -93 GTTGAAGTTA AC RSP01598 Mean Expected Number 0.009 +strand -50 : -43 TGTCATTT AC RSP01639 Mean Expected Number 0.008 +strand -39 : -30 GATTGTCCTA Totally 5 motifs of 5 different REs have been found Description of REs found 640. Group RE: B-box /AC: RSP00669//OS: Lycopersicon esculentum /GENE: PG/RE: B-box /TF: unknown 733. Group RE: Box III /AC: RSP00778//OS: Arabidopsis thaliana /GENE: AtS1/RE: Box III /TF: unknown 849. Group TF: Opaque-2 /AC: RSP00918//OS: Zea mays /GENE: O2/RE: B5-like motif /TF: Opaque-2 1419. Group RE: Inr /AC: RSP01598//OS: Spinacia oleracea /GENE: RPL21/RE: Inr /TF: unknown 1459. Group RE: ARE /AC: RSP01639//OS: Nicotiana tabacum /GENE: PR-Q; ACS2/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: similar to immunophilin |LOCUS: AT3G12345 |PROD: the same as GENE |complement(3930200..3930975) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +75 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.16 T - 0.33 C - 0.11 1 tattttgctt tctttttagg gatctgtaaa ttttgtgatc ttactttaat 51 actttttctt tgcctcgaga aaattatgtg gaagttatat agtaaacatg 101 aaaattcaga aaaaatgaac accacaaaaA TTGTatgcta tatatagttc 151 ttataaaatg gatTATAAAC Aaaaatgtca aagttgaatt aaaagaagag 201 AAAATATAAT TCTCTTATCC AAAGAGGGAC ACACAGAAGG AGAGTGATAG 251 A Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ASML2 |LOCUS: AT3G12890 |PROD: expressed protein |4099206..4100476 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +24 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.14 T - 0.28 C - 0.27 1 tgacagcatg aaaagagagt gtaaagaagt tattaacaga gcatagagtc 51 tcactaactg taagtttggt gttttcggtc agcccaattt gtgttacggt 101 cagcctgccc gaacccaaca acttgtaaca tcctcacaca aaaactcctc 151 tctatgtttc cTATATATAt agacacttgc acacactctc atttcctccc 201 AAACAACCCC AAACTTATAA CAAAATGGCA TCATCTCTTC CTCAGTTCTA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01071 Mean Expected Number 0.003 -strand -133 : -142 CAAACtTACA AC RSP01237 Mean Expected Number 0.008 +strand -40 : -31 CTaTATATAT AC RSP01237 Mean Expected Number 0.005 -strand -27 : -36 gTCTATATAT AC RSP01237 Mean Expected Number 0.005 -strand -29 : -38 CTaTATATAT Totally 4 motifs of 2 different REs have been found Description of REs found 989. Group TF: PvAlf /AC: RSP01071//OS: Arachis hypogea; Phaseolus vulgaris /GENE: Em/RE: Em1c /TF: PvAlf ||Identical REs AC: RSP01153 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: Cwf15 / Cwc15 cell cycle control family protein |LOCUS: AT3G13200 |PROD: the same as GENE |4242132..4244140 |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +114 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.18 T - 0.33 C - 0.14 1 tgtggttttg aatgtatatg taaacacatt cactatcagc attcagcaat 51 cggataacta aacaaaaaca atttgatgat ttggagattt ggaaatttac 101 agagctaaaa gtgaaaaatg ccagtgatta ataaaagaaa agataattaa 151 ggtcggttag taaaaagacg taaaTATAAA TAaaaggctt gtttttttat 201 TTTTCACTTT GTTCTCTCTC TCTCTCGTAA CACGCCTGAG AGTTCTCGTC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00441 Mean Expected Number 0.008 -strand +13 : +4 AACAAAGTGa AC RSP00864 Mean Expected Number 0.000 -strand +25 : +17 AGAGAGAGA AC RSP00864 Mean Expected Number 0.000 -strand +23 : +15 AGAGAGAGA AC RSP00864 Mean Expected Number 0.000 -strand +21 : +13 AGAGAGAGA AC RSP00914 Mean Expected Number 0.005 +strand -126 : -117 GATGATtTGG AC RSP00915 Mean Expected Number 0.003 +strand -126 : -117 GATGATtTGG AC RSP01601 Mean Expected Number 0.006 +strand +2 : +9 TTTCACTT AC RSP01720 Mean Expected Number 0.001 +strand -37 : -26 AAAGACGTAAAt Totally 8 motifs of 6 different REs have been found Description of REs found 421. Group TF: Dof1 /AC: RSP00441//OS: Zea mays /GENE: cyPPDK1/RE: box a /TF: Dof1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 845. Group RE: B2 /Group TF: Opaque-2 /AC: RSP00914//OS: Zea mays /GENE: b-32/RE: B2 /TF: Opaque-2 846. Group TF: Opaque-2 /AC: RSP00915//OS: Zea mays /GENE: b-32/RE: B3 /TF: Opaque-2 1422. Group RE: Inr /AC: RSP01601//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown 1528. Group TF: STF1/HY5 /AC: RSP01720//OS: Arabidopsis thaliana /GENE: IAA3/SHY2 (At1g04240)/RE: C/A-box /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G13228 |PROD: the same as GENE |4266971..4268258 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +111 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.10 T - 0.31 C - 0.15 1 aaaaaaaaat ggaaactgat atctcaaaaa gatctcttag aaataatttt 51 acccttatct tttatgtaat tttaattttt aaaagataat aaatggaaat 101 taatcagatt aaaagaaaaa gtcaaagaaa tcccattaaa atttagggac 151 cgacaaagag tctctctacT ATAAATAtat gagtttattc agcctaaacc 201 CTAAAATCAT TCATCGATTC AATTTCTTTT TCAAGTGACC ACAACTACAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00260 Mean Expected Number 0.003 +strand -59 : -53 TTTAGGG AC RSP00279 Mean Expected Number 0.004 -strand +4 : -5 TTAGGGTTT AC RSP00369 Mean Expected Number 0.004 +strand -5 : +4 AAACCCTAA AC RSP01210 Mean Expected Number 0.009 +strand +26 : +35 CTTTTTCAAG AC RSP01303 Mean Expected Number 0.007 +strand -6 : +4 TAAACCCTAA AC RSP01304 Mean Expected Number 0.004 +strand -6 : +4 TaAACCCTAA Totally 6 motifs of 6 different REs have been found Description of REs found 253. Group RE: RTBP1 BS /AC: RSP00260//OS: Oryza sativa /GENE: Synthetic OLIGO/RE: RTBP1 BS /TF: unknown 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 1120. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01210//OS: Lepidium africanum /GENE: LaCRC/RE: EM2 /TF: MADS box TFs 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1197. Group RE: Telo box /AC: RSP01304//OS: Lycopersicon esculentum /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: TBP1 |LOCUS: AT3G13445 |PROD: |4379805..4382231 |SUPPORT | 9 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +519 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.20 T - 0.22 C - 0.22 1 ctaaatatgc aaaaatataa tagcgttata acactaaagc tgacgtggcc 51 gaaaaggagt ggactttcac ataaaaccga aagacagccg tcatcgtagc 101 attaccgcat aaatttccaa aattaccctc gatgtaacaa ggacggtcaa 151 gggtagcatg ggtatgTATA TATAggtata aaggggctta aggatcccaa 201 ATCCGAAACG CAAGTCGATG ACCTCCTCTC TCTCACAGAT CTAAAAACCA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00113 Mean Expected Number 0.000 +strand -160 : -152 TGACGTGGC AC RSP00208 Mean Expected Number 0.000 -strand -152 : -163 GCCACGTCAGCT AC RSP00214 Mean Expected Number 0.001 +strand -160 : -153 TGACGTGG AC RSP00215 Mean Expected Number 0.001 -strand -153 : -160 CCACGTCA AC RSP00247 Mean Expected Number 0.003 -strand -152 : -161 GCCACGTcAG AC RSP00248 Mean Expected Number 0.002 -strand -152 : -161 GCCACGTCAG AC RSP01034 Mean Expected Number 0.007 +strand -158 : -152 ACGTGGC AC RSP01280 Mean Expected Number 0.000 +strand -162 : -152 GcTGACGTGGC AC RSP01301 Mean Expected Number 0.008 -strand -26 : -35 CTATAtATAC Totally 9 motifs of 9 different REs have been found Description of REs found 111. Group RE: TGA2 /AC: RSP00113//OS: Glycine max /GENE: GH3/RE: TGA2 /TF: unknown 201. Group TF: MAT2 (ROM2) /AC: RSP00208//OS: French Phaseolus vulgaris /GENE: DLEC2/RE: DLEC2,A /TF: MAT2 (ROM2) 207. Group TF: TGA1; GBF1 /AC: RSP00214//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: TGA1; GBF1 ||Identical REs AC: RSP01257 RSP01474 208. Group TF: HBP-11(17); HBP-1b(c38) /AC: RSP00215//OS: Triticum aestivum /GENE: H3/RE: Hex /TF: HBP-11(17); HBP-1b(c38) 240. Group TF: REB /AC: RSP00247//OS: Oryza sativa /GENE: alpha-globulin/RE: REB1 /TF: REB ||Identical REs AC: RSP00738 241. Group TF: REB /AC: RSP00248//OS: Oryza sativa /GENE: alpha-globulin/RE: REB2 /TF: REB 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1179. Group TF: OBF4; OBF5 /AC: RSP01280//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: OBF4; OBF5 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G14190 |PROD: the same as GENE |4710490..4711976 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +424 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.18 T - 0.36 C - 0.19 1 ctagccgata agaagataac ttagagaagt gtgacatgtt ttgcttctat 51 cttacatgat agtttgatgc cgtcaatttg atttatgtga tgggcctgta 101 cctgggCCAA Ttcttgatta ggcctgcatt aaaatattct gccaacggct 151 agaaactttt tctcttcttc TATAAATTta ctttttttgg cctaatcccg 201 GAGGTTCTTC ATTATTTCGT CAGAACAACA TTGAAAAGTT ACCGTTAAAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00442 Mean Expected Number 0.007 -strand +41 : +32 TAACTTTtCA AC RSP01030 Mean Expected Number 0.006 +strand -50 : -43 AGAAACTT AC RSP01087 Mean Expected Number 0.004 +strand -105 : -98 CTGTACCT AC RSP01209 Mean Expected Number 0.001 +strand -20 : -11 CTTTTTTTGG AC RSP01678 Mean Expected Number 0.003 +strand -74 : -63 CAtTAAAATATT Totally 5 motifs of 5 different REs have been found Description of REs found 422. Group TF: Dof1 /AC: RSP00442//OS: Zea mays /GENE: cyPPDK1/RE: box b /TF: Dof1 955. Group TF: AEF /AC: RSP01030//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 1 /TF: AEF 1005. Group TF: CRR1 /AC: RSP01087//OS: Helianthus annuus /GENE: CYC6; CPX1; CRD1; CTR; CTH1locus;/RE: CuRE 1 /TF: CRR1 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs 1496. Group TF: AT-Hook TFs /AC: RSP01678//OS: Catharanthus roseus /GENE: ORSA3/RE: JRE (Quant. Seq.) /TF: AT-Hook TFs ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ATPME3 |LOCUS: AT3G14310 |PROD: pectinesterase family protein |complement(4771909..4775126) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +24 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.13 T - 0.31 C - 0.18 1 aacgaagatc ttatctttac gagcgaggca gcttatataa cccagtggaa 51 cgttttttgt ttttctgaaa attccactca aataatagaa tcaagaaaag 101 taaaaccaga aaaagccatt ttaaataaat agtatcgtgt ttgattttaa 151 tttcatcaac ataattatta TATAAACAcc cactcttcac gagtacattc 201 ATCATCACTC ACTAGTGTCG AACAATGGCA CCATCAATGA AAGAAATTTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00227 Mean Expected Number 0.003 -strand -184 : -192 AAGATAAGA Totally 1 motifs of 1 different REs have been found Description of REs found 220. Group TF: GT-1 /AC: RSP00227//OS: Pisum sativum /GENE: rbcS-3A/RE: BOX III* /TF: GT-1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: protein kinase family protein |LOCUS: AT3G14370 |PROD: the same as GENE |complement(4797852..4799511) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +36 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.08 T - 0.28 C - 0.21 1 aatagttgtt taatacctaa aatcacataa taataaatga cccgttaagg 51 tcaaacatat catcactttc ccttgtcatt tcccaacttc ccaaaacccc 101 caaacataaa cttttttaaa atcatttttt caaataacta attaactatc 151 aagtctccaa tgtcttcttT ATAAATAact cagaactctc tgcctcaaag 201 ACACACAAAA AAAAAAGTGA ATCAAGAAAG AAAAAAATGG AACAAGAAGA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00383 Mean Expected Number 0.007 +strand -152 : -146 GGTCAAA AC RSP00860 Mean Expected Number 0.004 +strand +25 : +33 AGAAAGAAA AC RSP01598 Mean Expected Number 0.003 +strand -127 : -120 TGTCATTT Totally 3 motifs of 3 different REs have been found Description of REs found 368. Group TF: WRKY1 /AC: RSP00383//OS: Petroselinum crispum /GENE: WRKY1/RE: WA /TF: WRKY1 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 1419. Group RE: Inr /AC: RSP01598//OS: Spinacia oleracea /GENE: RPL21/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G14395 |PROD: the same as GENE |4810930..4811486 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +121 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.28 G - 0.12 T - 0.40 C - 0.20 1 gtgtgtaaaa tatggtggtt gattaattgt gcatatctaa agataaaatc 51 atatcattga aaattaggtt tgattttgtc gggagtgtaa gttctctttc 101 acatatattA TTGTcctttt gtagatgcaa tcatgcaagt gctttaacac 151 ttccattcat actctcTATA AATTcacttc atcacttctc accaaaaccc 201 TTCACAAATA ATCTTGTCCA ACAATCTCTC ATTTCTCTCT TTCTTTTTTC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00628 Mean Expected Number 0.010 +strand +20 : +27 AACAATCT AC RSP00861 Mean Expected Number 0.008 -strand +44 : +36 AGAAAGAGA AC RSP00881 Mean Expected Number 0.006 -strand -178 : -187 ATCAACcACC AC RSP00916 Mean Expected Number 0.004 -strand -18 : -27 GATGAAGTGA AC RSP00988 Mean Expected Number 0.000 -strand -116 : -127 CTCCCGaCAAAA AC RSP01470 Mean Expected Number 0.010 +strand -70 : -61 TCATGCAaGT AC RSP01755 Mean Expected Number 0.000 -strand -180 : -187 CAACCACC Totally 7 motifs of 7 different REs have been found Description of REs found 604. Group TF: CCA1 /AC: RSP00628//OS: Arabidopsis thaliana /GENE: Lhcb1*3/RE: CCA1 BS1 /TF: CCA1 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 817. Group TF: Dof family /AC: RSP00881//OS: Hordeum vulgare /GENE: Al21/RE: M2 /TF: Dof family 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 909. Group TF: E2F/DP /AC: RSP00988//OS: Zea mays /GENE: RBR3/RE: E2F/DP I /TF: E2F/DP 1340. Group TF: Opaque-2 (O2) /AC: RSP01470//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z2 /TF: Opaque-2 (O2) 1560. Group TF: C1 /AC: RSP01755//OS: Glycine max /GENE: a2/RE: C1BS1 /TF: C1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G14560 |PROD: the same as GENE |4889079..4890166 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +296 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.15 T - 0.35 C - 0.19 1 taaattaaat gcaaacacga gtaaagtaga tgtctcggct ttgtttcttt 51 gcctgtccta aaaccatatc tataagtggg ttgtgcattg taccaaactt 101 gaaagatctt gcctatacgc atattccact tgtacatttg gaatttgaca 151 ttcaactaac tttattatta TATAAACAtg cccaagaatt aatttcattc 201 AGTCATGTCT CATCGATGGT CCATTATCAG TTGTTAGGCC AAAAGCTATA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00522 Mean Expected Number 0.010 +strand -75 : -69 CCACTTG AC RSP00642 Mean Expected Number 0.008 +strand -195 : -188 TAAATGCA AC RSP00960 Mean Expected Number 0.006 +strand -48 : -41 CAACTAAC AC RSP01071 Mean Expected Number 0.008 -strand -61 : -70 CAAAtGTACA AC RSP01687 Mean Expected Number 0.009 +strand -165 : -159 CGGCTTT AC RSP01751 Mean Expected Number 0.001 +strand -76 : -68 TCCACTTGT Totally 6 motifs of 6 different REs have been found Description of REs found 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 617. Group RE: L1-box /AC: RSP00642//OS: Arabidopsis thaliana /GENE: PDF1/RE: L1-box /TF: unknown 885. Group TF: HvGAMYB /AC: RSP00960//OS: Hordeum vulgare /GENE: ITR1/RE: MYB BS /TF: HvGAMYB 989. Group TF: PvAlf /AC: RSP01071//OS: Arachis hypogea; Phaseolus vulgaris /GENE: Em/RE: Em1c /TF: PvAlf ||Identical REs AC: RSP01153 1505. Group RE: CARE E /AC: RSP01687//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE E /TF: unknown 1557. Group TF: AREB2/ABF4 /AC: RSP01751//OS: Arabidopsis thaliana /GENE: COX5b-1/RE: distalB-like /TF: AREB2/ABF4 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ATERF-4/ATERF4/ERF4/RAP2.5 |LOCUS: AT3G15210 |PROD: |5121429..5122569 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +50 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.15 T - 0.25 C - 0.26 1 gaaagaggaa agaaaaacac gtggcaaaag ataagtggag gtaaaaaaga 51 aaaccatgaa aaccgctggt gttttgtaag agaagccgct aaaaccattt 101 caggctttga ctgttcacaa caaagcgccc caaaaggagc gtcgctttta 151 ctctctctcc catcctataT ATAAACAact ctctcctttc ctcttctccc 201 TTCAATTATC TATCACACCA CCACTCTCTC TCTAATCTAT CTATCCGAGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00002 Mean Expected Number 0.000 +strand -184 : -176 ACACGTGGC AC RSP00175 Mean Expected Number 0.001 +strand -183 : -176 CACGTGGC AC RSP00204 Mean Expected Number 0.002 +strand -185 : -176 aACACGTGGC AC RSP00530 Mean Expected Number 0.002 -strand -151 : -162 TCTTTTTTAcCT AC RSP00819 Mean Expected Number 0.002 -strand -176 : -185 GCCACGTgTT AC RSP00864 Mean Expected Number 0.001 -strand +33 : +25 AGAGAGAGA AC RSP00865 Mean Expected Number 0.001 -strand -41 : -49 GGAGAGAGA AC RSP01034 Mean Expected Number 0.005 +strand -182 : -176 ACGTGGC AC RSP01063 Mean Expected Number 0.001 -strand +16 : +5 gTGATAGATAAT AC RSP01214 Mean Expected Number 0.006 -strand -64 : -73 CCTTTTGGGG AC RSP01255 Mean Expected Number 0.002 +strand -184 : -177 ACACGTGG AC RSP01669 Mean Expected Number 0.000 -strand -172 : -189 TTTTGCCACGTGTTTTTC Totally 12 motifs of 12 different REs have been found Description of REs found 2. Group RE: ABRE-3 /AC: RSP00002//OS: Brassica napus /GENE: Oleosin/RE: ABRE-3 /TF: unknown 169. Group RE: ABRE /Group TF: ABF /AC: RSP00175//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: ABRE /TF: ABF ||Identical REs AC: RSP00723 RSP01570 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 506. Group RE: AT-rich F /AC: RSP00530//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: AT-rich F /TF: unknown 765. Group TF: ACE-binding TF /AC: RSP00819//OS: Arabidopsis thaliana /GENE: F3H/RE: ACE-core (AtF3H) /TF: ACE-binding TF 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 982. Group RE: Fungus RE /Group TF: homeodomain TF /AC: RSP01063//OS: Arabidopsis thaliana /GENE: Nia2/RE: Fungus RE /TF: homeodomain TF 1122. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01214//OS: Brassica oleracea /GENE: BoCRC/RE: EM1 /TF: MADS box TFs 1158. Group TF: GBF1 /AC: RSP01255//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS2 /TF: GBF1 1487. Group TF: MYC2 /AC: RSP01669//OS: Arabidopsis thaliana /GENE: ERF4/RE: MYC2 BS (ERF4) /TF: MYC2 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: MT3 |LOCUS: AT3G15353 |PROD: metallothionein protein, putative |complement(5180674..5181407) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +75 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.42 G - 0.16 T - 0.22 C - 0.21 1 tgtaatggat tactacaaaa aaagggaaga ataacgaata tagtgggaaa 51 aaaggagtga aatggacacg agaggttggc aacgaaaggc ttttctctcc 101 ataacccaaa aaagattcgg ttgtcacata atttgcagag attctccact 151 ctctctatcc ttcTATAAAT Tacatagcca tcggatcaca aaacagaaca 201 ACAACAACAA CAACAAACAA GAACTCAAAC ACTTCATAAC TAAACATCCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00400 Mean Expected Number 0.009 +strand -83 : -78 CGGTTG AC RSP00850 Mean Expected Number 0.009 -strand -121 : -126 GCCAAC AC RSP01497 Mean Expected Number 0.001 +strand -24 : -15 GCCaTCGGAT Totally 3 motifs of 3 different REs have been found Description of REs found 382. Group TF: Myb /AC: RSP00400//OS: Nicotiana tabacum /GENE: RNP2/RE: Myba /TF: Myb 790. Group RE: CAT /AC: RSP00850//OS: Zea mays /GENE: H4C7/RE: CAT /TF: unknown 1359. Group RE: CS5 /AC: RSP01497//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS5 /TF: unknown ||Identical REs AC: RSP01498 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G15760 |PROD: the same as GENE |5337560..5338470 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +181 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.10 T - 0.32 C - 0.17 1 atattgacca aaaaaaagtc ttattctaat taaacttggt ctacatatta 51 tttttttcct tctcccacta ggacatgtga gtaacgaagc atcaaaatcc 101 atatcGCAAT ctttttctaa attttaatat atagcttttc attaaataaa 151 aaaaaacttg TATAAATAta ggagagagtc aagaaaagag ttccaaccat 201 AAAAATTTCA ACAGTTGTTA AGTTACAAGT CTCTTCAAAA ACACACACAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00122 Mean Expected Number 0.005 +strand -139 : -133 CTCCCAC Totally 1 motifs of 1 different REs have been found Description of REs found 120. Group RE: Box C /AC: RSP00122//OS: Pisum sativum /GENE: AS1/RE: Box C /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: protein kinase family protein |LOCUS: AT3G15890 |PROD: the same as GENE |5374254..5376281 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +141 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.10 T - 0.41 C - 0.14 1 gttcaaaaat tttattcttc ttttggttaa agttttattt attgtttatg 51 acttttccat atcagcttct tttttaatac tatatatata tttttaaaat 101 ttgtttattt tatgcgagca aaaaaaaaaa aaagtgtgca aaaataataa 151 aaaagaacaa AATAAATAgt ctacttgtac ttctgtctct ctctctctct 201 GTTTATCAAT CTCACATCGA GACGAAATTA GAGCTACTCA GACTTGTTCT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00441 Mean Expected Number 0.007 +strand -73 : -64 AAaAAAGTGT AC RSP00864 Mean Expected Number 0.001 -strand -1 : -9 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand -3 : -11 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand -5 : -13 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand -7 : -15 AGAGAGAGA AC RSP00914 Mean Expected Number 0.004 -strand -135 : -144 GCTGATATGG AC RSP01032 Mean Expected Number 0.007 -strand -175 : -184 CCAAAAGAAG AC RSP01209 Mean Expected Number 0.007 +strand -184 : -175 CTTCTTTTGG AC RSP01283 Mean Expected Number 0.000 -strand -4 : -20 GAGAGAGAGAGAcAGAA Totally 9 motifs of 6 different REs have been found Description of REs found 421. Group TF: Dof1 /AC: RSP00441//OS: Zea mays /GENE: cyPPDK1/RE: box a /TF: Dof1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 845. Group RE: B2 /Group TF: Opaque-2 /AC: RSP00914//OS: Zea mays /GENE: b-32/RE: B2 /TF: Opaque-2 957. Group TF: FLC /AC: RSP01032//OS: Arabidopsis thaliana /GENE: SOC1/RE: CArG box /TF: FLC 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs 1180. Group RE: GAGA element /AC: RSP01283//OS: OS: Glycine max /GENE: gsa1/RE: GAGA element /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G15970 |PROD: the same as GENE |complement(5408803..5411114) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +729 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.11 T - 0.32 C - 0.20 1 aaagttataa cattagctat acaaatctgc aagaagtatt ttacaacaaa 51 tgagctacga caatacaaca tgttatatac aaaacgtaaa catcttatta 101 catgcgatga ctatcagcaA CAATatcgat ttggatataa atataacaaa 151 taatacaaaa aTATAAACTc gatttattac catttttcca atgtgctgac 201 AAGATTCGTT TTCTCTTTTA TCACTCCCCT CGGCGATCTC TCTTCTTGCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00750 Mean Expected Number 0.009 -strand -152 : -163 TTgTTGTAAAAT AC RSP01086 Mean Expected Number 0.008 -strand -111 : -120 TTTACGTTTt Totally 2 motifs of 2 different REs have been found Description of REs found 712. Group TF: GT-1 /AC: RSP00750//OS: Catharanthus roseus /GENE: STR/RE: BN rev /TF: GT-1 1004. Group TF: bZIP TF /AC: RSP01086//OS: Helianthus annuus /GENE: sHSP/RE: bZIP BS /TF: bZIP TF ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G16040 |PROD: the same as GENE |5443097..5443957 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +111 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.20 T - 0.34 C - 0.17 1 tctagttgga taatggcatt atgatgactg atcgtataag attcaaagta 51 tcgttttctc gttctgtcac tcgcttatga atttgaatac aaaattagac 101 atttcacgtg gacatgattc tgtggcgcgg agtgatcgcg cgaattcacg 151 cctactacTA TATATAtata tatatatgat cacgcagaac agaatcaaat 201 ATCTGAAACT CGAAGAAACA GAGGTTCCTC TTGTGTTTTT GTTTTGGGAT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00535 Mean Expected Number 0.001 +strand -51 : -35 GCCT-- +7 bp --TATATA AC RSP00593 Mean Expected Number 0.002 -strand -157 : -165 GAATCTTAT AC RSP00640 Mean Expected Number 0.002 +strand -97 : -90 TCACGTGG AC RSP01091 Mean Expected Number 0.005 +strand -12 : -2 AcAGAATCAAA AC RSP01237 Mean Expected Number 0.010 +strand -43 : -34 CTaTATATAT AC RSP01734 Mean Expected Number 0.010 -strand -89 : -95 TCCACGT Totally 6 motifs of 6 different REs have been found Description of REs found 511. Group RE: LRE-TATA AA1 /AC: RSP00535//OS: Lycopersicon esculentum /GENE: rbcS3C/RE: LRE-TATA AA1 /TF: unknown 569. Group RE: GATA/2 B /AC: RSP00593//OS: Lycopersicon esculentum /GENE: rbcS1/RE: GATA/2 B /TF: unknown 616. Group RE: G-box /Group TF: GBF /AC: RSP00640//OS: Zea mays /GENE: GRF1/RE: G-box /TF: GBF ||Identical REs AC: RSP00641 1009. Group RE: box 1 /AC: RSP01091//OS: Pisum sativum /GENE: GS2/RE: box 1 /TF: unknown 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: DELTA-TIP |LOCUS: AT3G16240 |PROD: delta tonoplast integral protein (delta-TIP) |5505430..5507056 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +110 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.12 T - 0.32 C - 0.19 1 gagttttctt acgtagatgt catatatttt agtcatttta ggcaccttcc 51 taactcaaat cacgaataga acttatgtag caaaatgtaa acacatgaaa 101 tcatttatta attcgggtcc aacgtaaccc accacaccac agaaactcat 151 taaatagtat tttttTATAA AACttaagtt atatgcatgg atacatgaac 201 GATACTCCTA TATAAAGAGA ACAGCATTCA AAAGGTCTTA TCATCTTCTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00331 Mean Expected Number 0.005 -strand -7 : -15 GTATCCATG AC RSP00349 Mean Expected Number 0.000 -strand -10 : -18 TCCATGCAT AC RSP00395 Mean Expected Number 0.000 +strand -192 : -183 TTACGTAGAT Totally 3 motifs of 3 different REs have been found Description of REs found 317. Group TF: S1F /AC: RSP00331//OS: Spinacia oleracea; Pisum sativum; Arabidopsis thaliana; /GENE: prs 1 and RPL21 (spinach), rbcS-3a (pea, tomato, Arabidopsis),/RE: S1, consensus /TF: S1F 334. Group TF: VP1 (VIVAPAROUS1) /AC: RSP00349//OS: Zea mays, Zea mays /GENE: C1/RE: Sph-core /TF: VP1 (VIVAPAROUS1) 378. Group TF: Opaque-1 /AC: RSP00395//OS: Zea mays /GENE: gamma-27kDa zein/RE: O2-like-box /TF: Opaque-1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G16850 |PROD: the same as GENE |5748580..5751303 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +118 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.14 T - 0.34 C - 0.16 1 ttataggagt gaagtctctc attaattcat tttacttagg ggaagaaggc 51 taatataacg ctccaaaaat ctcagtgaat gatattgtct ggtcctttta 101 tgtaaaatta ataataataa ggttgattag ttactgggat caaacaaaat 151 gattaaTATT AATAttaata gcaaattcca acaaacagta agtgttaaac 201 AAATAATAAC ATGTACTTGT TTCGCAACTC TCTCTTCATC TCCTCTTCCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00773 Mean Expected Number 0.004 -strand -172 : -181 TGAATTAATG AC RSP00778 Mean Expected Number 0.005 -strand -172 : -181 TGAATTAATG Totally 2 motifs of 2 different REs have been found Description of REs found 729. Group RE: Box III /AC: RSP00773//OS: Brassica oleracea /GENE: SLR1/RE: Box III /TF: unknown 733. Group RE: Box III /AC: RSP00778//OS: Arabidopsis thaliana /GENE: AtS1/RE: Box III /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: self-incompatibility protein-related |LOCUS: AT3G17080 |PROD: the same as GENE |5825295..5825873 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +50 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.16 T - 0.35 C - 0.10 1 gtagcgatca taatttggaa agtgttgatc atataacaac atatacttgg 51 atattttttt taaaaaaagt tagtgtcaaa acaaacatgg atcataattt 101 ggaaagtgtt gacttaagat gttacctttt tttttgtgca aaaagatgtt 151 acctatacag TATAAATAct gaacaagttt gattgaaata gttatcaaca 201 TATACTTGGA TATTTTCCAG GATTAAAAAA AAAAAAAGTT TAGACGAATT 251 A Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G17380 |PROD: the same as GENE |5950206..5953699 |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +40 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.16 T - 0.36 C - 0.18 1 aatccccttg tttaaggggt gtagtatata tgcttgctaa gttgatgttt 51 attcttgctt tttgattctg caacctcaca gggcataagt ctaaacatgg 101 aaaaagctaa aatccttaca agcaaagtat aaaggtttga tcctaaaaaa 151 cacaagattc attcTATAAA TAgaaattta atatactgat gcttatctgt 201 ATATTGACTA GTTTTCTCTC TCGTTTCTGC ATATCTTCTC ATGGCCAGTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00085 Mean Expected Number 0.006 +strand -40 : -25 aTTCTATAAATAGAAA AC RSP00085 Mean Expected Number 0.006 -strand -25 : -40 TTTCTATTTATAGAAt AC RSP00234 Mean Expected Number 0.002 -strand -78 : -87 GCTTGTAAGG AC RSP00653 Mean Expected Number 0.003 +strand +14 : +24 TTCTCTCTCgT AC RSP01296 Mean Expected Number 0.006 +strand -37 : -29 CTATAAATA Totally 5 motifs of 4 different REs have been found Description of REs found 83. Group TF: AGL3 /AC: RSP00085//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AGL3-BE /TF: AGL3 227. Group RE: CArG Box 2 /AC: RSP00234//OS: Arabidopsis thaliana /GENE: AGAMAOUS (AG)/RE: CArG Box 2 /TF: unknown 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G17860 |PROD: the same as GENE |6119773..6123017 |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +201 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.19 T - 0.28 C - 0.23 1 cacgtgcctc gccacgcgtc tcaccacaaa aagaaacgcc acacactgca 51 cgacgatgca cgtgcctttt taaccgacta tatccggtga cgtaaccggg 101 acaacctgta gctggttttt gcgCCAATag gatatgagaa aaaagaatct 151 tttttttctt gttatagtTA TAAATTaatg gtacgattca catgtcgcat 201 GCGATTTGTT AATAAAACTA GAAATTGCGG TGAATTAACT TCATTCCACG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00044 Mean Expected Number 0.001 -strand -180 : -190 aGACGCGTGGC AC RSP00063 Mean Expected Number 0.002 -strand -181 : -190 GaCGCGTGGC AC RSP00112 Mean Expected Number 0.004 +strand -113 : -106 TGACGTAA AC RSP00143 Mean Expected Number 0.004 -strand -181 : -190 GACGCGTGgC AC RSP01031 Mean Expected Number 0.006 +strand -57 : -50 AGAATCTT AC RSP01209 Mean Expected Number 0.008 -strand -168 : -177 CTTTTTGTGG AC RSP01437 Mean Expected Number 0.002 +strand -75 : -67 AATAGGATA Totally 7 motifs of 7 different REs have been found Description of REs found 43. Group TF: ASF1 /AC: RSP00044//OS: Triticum aestivum /GENE: H3/RE: hex3 /TF: ASF1 62. Group RE: Motif III /AC: RSP00063//OS: Oryza sativa /GENE: rab16B/RE: Motif III /TF: unknown 110. Group RE: TGA1 /AC: RSP00112//OS: Glycine max /GENE: GH3/RE: TGA1 /TF: unknown 139. Group TF: TRAB1 /AC: RSP00143//OS: Oryza sativa /GENE: Osem/RE: CE3 /TF: TRAB1 956. Group TF: AEF /AC: RSP01031//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 2 /TF: AEF 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs 1310. Group RE: GATA /Group TF: R-GATA /AC: RSP01437//OS: Oryza sativa /GENE: RSs1/RE: GATA /TF: R-GATA ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: glycosyl hydrolase family 1 protein |LOCUS: AT3G18080 |PROD: the same as GENE |6191565..6194458 |SUPPORT | 12 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +27 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.08 T - 0.33 C - 0.24 1 tgaaatatat ctagttttat ttagtattca attttaaatt cataatgctt 51 acagccttat cctatttatt aaaaaaaaat ccaacctttc cactaatgca 101 ctcccataAC AATttaacat cgttggttca tgtattattt gttttgaaaa 151 caaaaggctt ttaaaagccT ATAAATAtcc acccaattgt tatcctcccc 201 AAACCAAACG GTCAAACCTC ACTCACCATG AGACACCTTA GCTCACCTCC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00035 Mean Expected Number 0.006 +strand -50 : -44 CAAAAGG AC RSP00383 Mean Expected Number 0.006 +strand +10 : +16 GGTCAAA AC RSP01437 Mean Expected Number 0.007 -strand -135 : -143 AATAGGATA Totally 3 motifs of 3 different REs have been found Description of REs found 34. Group RE: D1 /Group TF: Dof family /AC: RSP00035//OS: Hordeum vulgare /GENE: Al21/RE: D1 /TF: Dof family 368. Group TF: WRKY1 /AC: RSP00383//OS: Petroselinum crispum /GENE: WRKY1/RE: WA /TF: WRKY1 1310. Group RE: GATA /Group TF: R-GATA /AC: RSP01437//OS: Oryza sativa /GENE: RSs1/RE: GATA /TF: R-GATA ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: oxidoreductase |LOCUS: AT3G19010 |PROD: the same as GENE |complement(6556203..6557944) |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +76 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.14 T - 0.33 C - 0.15 1 ttttaaaaat cattcaacga ggaaaagtct cggtactttg agcggtcgtc 51 gaagaaaacg ttgtagtttt agtatcttat atcattaaca aaaacatatg 101 catataaaaa caaaacaaaa tcgatttatg tatcctaata atatattact 151 taaaaaaagt agtggtgtaT ATAATTAgca cattttcgtt gtagatatcc 201 ATCCAAAGTC CAAACACAGC ATAAAAGTAG CTCTATTGAC TTTTTTTCTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00117 Mean Expected Number 0.005 -strand -187 : -199 AATgATTTTTAAA AC RSP00421 Mean Expected Number 0.004 -strand -167 : -173 ACCGAGA AC RSP01078 Mean Expected Number 0.001 +strand -6 : +6 ATAtCCATCCAA Totally 3 motifs of 3 different REs have been found Description of REs found 115. Group RE: AT-1 (2) /AC: RSP00117//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (2) /TF: unknown 402. Group RE: DRE1 /AC: RSP00421//OS: Zea mays /GENE: rab17/RE: DRE1 /TF: unknown 996. Group TF: DcMYB1 /AC: RSP01078//OS: Daucus carota /GENE: DcPAL1/RE: box-L0 /TF: DcMYB1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: CYP707A4 |LOCUS: AT3G19270 |PROD: cytochrome P450 family protein |complement(6673733..6676526) |SUPPORT | 9 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +120 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.11 T - 0.39 C - 0.20 1 atttagatct attcagcttt ttcgcctgag aagccaaaat tgtgaataga 51 agaaagcagt cgtcatcttc ccacgtttgg acgaaataaa acataacaat 101 aataaaataa taaatcaaat atataaatcc ctaatttgtc tttattactc 151 cacaattttc tatgtgTATA TATAtaccca cctctctctt gtgtatttgt 201 GTATGTTTTT GTTCCCTATT ATATCTTCTA GCTTCTTTCT TCCTCTTCTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00022 Mean Expected Number 0.008 +strand -102 : -94 ATAATAAAA AC RSP01463 Mean Expected Number 0.004 -strand -73 : -85 ATTTATATATTTg Totally 2 motifs of 2 different REs have been found Description of REs found 21. Group TF: PCF1 /AC: RSP00022//OS: Pisum sativum /GENE: petE/RE: A/T-rich BOX1 /TF: PCF1 1333. Group RE: AT-rich ELS /AC: RSP01463//OS: Glycine max /GENE: BiP6/RE: AT-rich ELS /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: U-box domain-containing protein |LOCUS: AT3G19380 |PROD: the same as GENE |complement(6714398..6716105) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +232 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.10 T - 0.38 C - 0.14 1 atatatattt tgtatgcttt gacaaaaatc aaccatgttt atttattttg 51 ttcaaattaa gcattattga gagtttttac aaatccattt gaacgttata 101 atagaacata aacatagtcg taaaaattat cataaagaga tgtataATTG 151 Tatatcattc aTATAAATCt taagcttcac ttcaaagatg cgactttctc 201 CCACAAAACA TATTTACGTA TATATCATCT CATGATGTTC ACTTGATTAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00122 Mean Expected Number 0.002 +strand -3 : +4 CTCCCAC AC RSP00857 Mean Expected Number 0.003 +strand -116 : -107 CCATtTGAAC Totally 2 motifs of 2 different REs have been found Description of REs found 120. Group RE: Box C /AC: RSP00122//OS: Pisum sativum /GENE: AS1/RE: Box C /TF: unknown 793. Group RE: NON /AC: RSP00857//OS: Zea mays /GENE: H4C7/RE: NON /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G19550 |PROD: the same as GENE |complement(6787247..6788296) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +125 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.10 T - 0.31 C - 0.20 1 cttaatacat tgatcacgtt ataaactctt tcaaactaca agtaacaact 51 tttaagctaa ccaaacaaaa aaacaaggaa caactgatga ataactttta 101 aattactatc ctcttctctt attcctccac tctcaagatt ctctacccgt 151 acagtttctg aagttTATAT ATAgaataga ccaaagagat gtcagaacac 201 AAGATCAAGT TATAGATTGA TAGAAATATA CTCGTACTAA TATCAATATA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01031 Mean Expected Number 0.009 -strand -59 : -66 AGAATCTT Totally 1 motifs of 1 different REs have been found Description of REs found 956. Group TF: AEF /AC: RSP01031//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 2 /TF: AEF ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G20300 |PROD: the same as GENE |complement(7079623..7081925) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +110 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.10 T - 0.32 C - 0.20 1 aaaccccaag tcactagtat tattgaaaat gtaaatattc gaataaaaca 51 gagccaataa gatacaaaac atgtacatct taatacgaaa tattgtagta 101 atttgtttta cgatactaaa ttACAATtta aatacggttg tcaaatccac 151 ctaaacatcg atccttTATA AATAaccata agacaatttt agccattcct 201 GATTCTGTCT TCTCCTTCTT CCAACCGCGT CATCAATTTA TATTTAGACA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00400 Mean Expected Number 0.005 +strand -66 : -61 CGGTTG AC RSP01065 Mean Expected Number 0.001 -strand -36 : -46 AGGATCGATGt AC RSP01733 Mean Expected Number 0.006 +strand +25 : +30 CCGCGT Totally 3 motifs of 3 different REs have been found Description of REs found 382. Group TF: Myb /AC: RSP00400//OS: Nicotiana tabacum /GENE: RNP2/RE: Myba /TF: Myb 984. Group RE: Fungus RE /Group TF: homeodomain TF /AC: RSP01065//OS: Arabidopsis thaliana /GENE: At5g64250/RE: Fungus RE /TF: homeodomain TF 1541. Group TF: CAMTA3 /AC: RSP01733//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM2 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: plastocyanin-like domain-containing protein |LOCUS: AT3G20570 |PROD: the same as GENE |complement(7186312..7187527) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +68 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.10 T - 0.27 C - 0.24 1 tataacacaa agattctgaa gcaaagaaca aaagccattg acagaagaag 51 caagtcacat gagattccaa aactgaaaca cttctggcat ttatgctttg 101 cttagaattt gaaaaaagAC AATaaaaagc ttctctgcaa catttcctca 151 aaatcaaaaa gcatcacctt taTATAAACC catttgcctt tcatcatctc 201 ATATCAAACC CTATACCACA CTAGATTCAC CTTCACCTTT CTAAAATCTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00447 Mean Expected Number 0.002 -strand -99 : -108 AGCAAAGCAt AC RSP01031 Mean Expected Number 0.007 -strand -184 : -191 AGAATCTT AC RSP01093 Mean Expected Number 0.001 -strand -95 : -105 TCTAAGCAAAG Totally 3 motifs of 3 different REs have been found Description of REs found 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 956. Group TF: AEF /AC: RSP01031//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 2 /TF: AEF 1011. Group RE: box 2 /AC: RSP01093//OS: Pisum sativum /GENE: GS2/RE: box 2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: histone H2A, putative |LOCUS: AT3G20670 |PROD: the same as GENE |7229417..7230508 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +61 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.13 T - 0.32 C - 0.24 1 gtatttccgt caatcccaat tctaacaatg aattcaggag tataaaaacg 51 taaattcaag cgtgccaatt ataaaccgtc gatcataatc taatccaacg 101 gcagtaacat cgatccgcgt gATTGTttat tattggataa gaatcactca 151 accgtctcta cacagTATAT ATAataacca aagagcgtcc tcttacgctt 201 ATCTTAATTT CCCTCGCATT GAGAATTTTC AACTTTTTCT ATCTCTCTTC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00272 Mean Expected Number 0.000 -strand -79 : -89 TCACGCGGATC AC RSP00837 Mean Expected Number 0.005 -strand -116 : -125 tGATCGACGG AC RSP00839 Mean Expected Number 0.001 -strand -82 : -89 CGCGGATC AC RSP00894 Mean Expected Number 0.007 +strand -148 : -141 AATTCAAG AC RSP01086 Mean Expected Number 0.005 -strand -147 : -156 TTTACGTTTt AC RSP01497 Mean Expected Number 0.002 -strand -99 : -108 GCCGTtGGAT AC RSP01604 Mean Expected Number 0.006 -strand -35 : -42 ACTGTGTA Totally 7 motifs of 7 different REs have been found Description of REs found 264. Group RE: Type II element /AC: RSP00272//OS: Nicotiana tabacum /GENE: artifical construction/RE: Type II element /TF: unknown 782. Group RE: NON /AC: RSP00837//OS: Arabidopsis thaliana /GENE: H4A748/RE: NON /TF: unknown 784. Group RE: OCT /AC: RSP00839//OS: Arabidopsis thaliana /GENE: H4A748/RE: OCT /TF: unknown ||Identical REs AC: RSP00845 825. Group TF: Dof family /AC: RSP00894//OS: Solanum melongena /GENE: SmCP/RE: ERE 2 /TF: Dof family 1004. Group TF: bZIP TF /AC: RSP01086//OS: Helianthus annuus /GENE: sHSP/RE: bZIP BS /TF: bZIP TF 1359. Group RE: CS5 /AC: RSP01497//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS5 /TF: unknown ||Identical REs AC: RSP01498 1425. Group TF: SPF1 /AC: RSP01604//OS: Ipomoea batatas /GENE: Sporamin; beta-amylase/RE: SP8a /TF: SPF1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: 1-deoxy-D-xylulose 5-phosphate synthase |LOCUS: AT3G21500 |PROD: the same as GENE |complement(7573643..7576579) |SUPPORT | 9 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +15 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.14 T - 0.36 C - 0.16 1 cgttgttaaa gagcgtaaac tttaataaga cgttaacatg tgtgtgaaca 51 gaaagctatt ctctaaaatt ttgatattaa atttgtacaa aatacatttc 101 tacgtggatt taaggtgtta aaagagttcg attagtaagc tttacatttt 151 attgatacta ccacTATATA TAcgttggaa tgtcatatca aacacagatt 201 AACAAATTCT CTCAAATGGC TCTCTCCGTA TTTGCCTTTC CTTCTTACAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00189 Mean Expected Number 0.001 -strand -93 : -102 TCCACGTAGa AC RSP00280 Mean Expected Number 0.004 -strand -93 : -102 TCCACGTAGA AC RSP00597 Mean Expected Number 0.002 -strand +3 : -9 GTTAATcTGTGT AC RSP00885 Mean Expected Number 0.000 +strand +1 : +13 AACAAATTCTCTC AC RSP01259 Mean Expected Number 0.001 +strand -101 : -94 CTACGTGG AC RSP01469 Mean Expected Number 0.008 +strand -167 : -158 TaACATGTGT AC RSP01734 Mean Expected Number 0.005 -strand -93 : -99 TCCACGT Totally 7 motifs of 7 different REs have been found Description of REs found 183. Group TF: ABI5 /AC: RSP00189//OS: Arabidopsis thaliana /GENE: AtEm1/RE: ABRE/1.3 /TF: ABI5 271. Group TF: Opaque-1 /AC: RSP00280//OS: Zea mays /GENE: alpha-22kDa zein/RE: O2-box /TF: Opaque-1 573. Group RE: GT-1/16 JJ1 /AC: RSP00597//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: GT-1/16 JJ1 /TF: unknown 818. Group RE: AACA motif /AC: RSP00885//OS: Zea mays /GENE: gamma-27kDa zein/RE: AACA motif /TF: unknown 1161. Group TF: GBF1 /AC: RSP01259//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS6 /TF: GBF1 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: nitrate transporter (NTP3) |LOCUS: AT3G21670 |PROD: the same as GENE |complement(7626764..7629158) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +197 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.12 T - 0.30 C - 0.23 1 taatggacat ggggaattac aaagaagcag aaaaccttgc aaccacatga 51 aataaacaaa tgtctttgtc ataagataat gaaatcacac tgttgtctca 101 atgtttgttt agatctatct gatcatatat cgctgaaaca accacacaaa 151 aagcaaagcc acattttaTA TAAAGAccca tcatatatca atcaatcccc 201 ATCTCTCTTC ACATGCCCAT TTGAATCGTA TCTCCTCTCA TTTCTTCTTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00040 Mean Expected Number 0.008 -strand -92 : -98 AACAAAC AC RSP00447 Mean Expected Number 0.007 +strand -49 : -40 AGCAAAGCcA Totally 2 motifs of 2 different REs have been found Description of REs found 39. Group RE: AACA box (D) /AC: RSP00040//OS: Oryza sativa /GENE: GluB-1/RE: AACA box (D) /TF: unknown 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: peroxidase 30 (PER30) (P30) (PRXR9) |LOCUS: AT3G21770 |PROD: the same as GENE |7673283..7674846 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +69 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.08 T - 0.35 C - 0.20 1 tctttaccat caacaaatta actaaaaatc acaaaactga cacacacaaa 51 aaaacacaac attttgttcg gctttttttt tcacttcctt tattgtttta 101 ttaaaaaaaa atttagttta gtttttacat aagttttata tttactttca 151 ccataatgaa caatcctctT ATAAATAgac cccttccatt attgctctat 201 ATCCTGTCTC TCTTCAGTGA CACAAACCCA AAGAAAAGTA GTGAGAAACA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01017 Mean Expected Number 0.010 +strand +44 : +51 AGAAACAA AC RSP01641 Mean Expected Number 0.005 +strand +2 : +11 TCcTGTCTCT AC RSP01687 Mean Expected Number 0.002 +strand -132 : -126 CGGCTTT Totally 3 motifs of 3 different REs have been found Description of REs found 942. Group TF: AEF /AC: RSP01017//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 2 /TF: AEF 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown 1505. Group RE: CARE E /AC: RSP01687//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE E /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: proline-rich family protein |LOCUS: AT3G22070 |PROD: the same as GENE |complement(7775336..7776116) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +43 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.45 G - 0.10 T - 0.31 C - 0.14 1 attacctaat ttataaatta tttttgaaaa agtgtttact tttcctacaa 51 atctttaaaa ataattatat aaaagcacac aaactgtgaa aataaaggag 101 atgaaagaga gataatagag agattcattt catttttgta atctaaaaat 151 tcattcacaa caacTATAAA AAtaaaataa aacaaacatc caaaaaaaat 201 AGTCACAGAA TTTTGGTTTC CGATCTTCTG AATATCCACA ACAATGCTCT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00117 Mean Expected Number 0.010 -strand -135 : -147 AATTATTTTTAAA Totally 1 motifs of 1 different REs have been found Description of REs found 115. Group RE: AT-1 (2) /AC: RSP00117//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (2) /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ELIP1 |LOCUS: AT3G22840 |PROD: |complement(8084471..8085567) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +115 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.14 T - 0.33 C - 0.19 1 tgaacctttc aaatactata tgattcacgt gtaatgtttt tgaccgttgg 51 ttatttttgt gtgaactata ttaacttatc aatatcgaaa ggctaaataa 101 gtaaataact aaaagaaagt tcaggaaaca actcgaccta atgacctatc 151 atttctgatc acccgtccTA TAAATAcata cgtaagatca ttcgttactc 201 ATATCAAGCT TCTACACACG ATCTAGCTTA AAGTTCTGTA ACCTAAGCGA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00524 Mean Expected Number 0.006 -strand -169 : -175 ACACGTG AC RSP00974 Mean Expected Number 0.001 -strand -168 : -177 TACACGTGaA AC RSP01296 Mean Expected Number 0.008 +strand -33 : -25 CTATAAATA AC RSP01301 Mean Expected Number 0.002 +strand -33 : -24 CTATAAATAC Totally 4 motifs of 4 different REs have been found Description of REs found 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 897. Group RE: G-box /AC: RSP00974//OS: Glycine max /GENE: vspB/RE: G-box /TF: unknown ||Identical REs AC: RSP00981 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G22900 |PROD: the same as GENE |8115184..8116260 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +468 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.22 G - 0.14 T - 0.43 C - 0.22 1 ttgacttttg actacatctt tttctattta atcactcact tttttttttt 51 tttttttcgc catttaatca ctcacttttg acttcatata tgtattctag 101 tagtcgtacc caATTGTtgt aatgggcctt caaaggcctc ttgtagtaat 151 gggcctatta attTGTAAAT Aaccaaaccc gaagtttcgt ctcctgagtc 201 ATTTCACGAC TGATGTTTTT CTTCTCCGAC GCTACAATCG GTGTCTGTTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00190 Mean Expected Number 0.009 +strand -6 : +1 TGAGTCA AC RSP00943 Mean Expected Number 0.006 +strand -2 : +9 TCATTTCACgA AC RSP01596 Mean Expected Number 0.006 -strand +9 : -2 TcGTGAAATGA Totally 3 motifs of 3 different REs have been found Description of REs found 184. Group RE: GCN4 box /AC: RSP00190//OS: Oryza sativa /GENE: GluB-1/RE: GCN4 box /TF: unknown ||Identical REs AC: RSP00666 RSP00959 872. Group TF: GBF /AC: RSP00943//OS: Lycopersicon esculentum /GENE: RbcS-3.6/RE: box III /TF: GBF 1417. Group RE: Box III /AC: RSP01596//OS: Pisum sativum /GENE: rbcS-3.6/RE: Box III /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: 60S ribosomal protein L36a/L44 (RPL36aA) |LOCUS: AT3G23390 |PROD: the same as GENE |8375382..8376397 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +52 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.18 T - 0.26 C - 0.19 1 gtcttgacga tttaattcaa aaagcaaaaa aatcaatagg aaacaaaaac 51 tcataaagga ctttgacata cagatgggcc cattgtttat gaccaatcct 101 tatactatat atgggcctta ttagttaaac ctaaggccca aagtcagatt 151 agggttttca gaaagtgtac TATAAATTct tcttctttaa acaacttcgt 201 CTAGTGGAAC GACGACGGCA CAAAAGCTTC ACCGGAGATC AGAGACGCGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.001 +strand -52 : -44 TTAGGGTTT AC RSP00369 Mean Expected Number 0.001 -strand -44 : -52 AAACCCTAA AC RSP01303 Mean Expected Number 0.002 -strand -43 : -52 aAAACCCTAA AC RSP01757 Mean Expected Number 0.002 -strand -193 : -200 GTCAAGAC Totally 4 motifs of 4 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1562. Group TF: B /AC: RSP01757//OS: Glycine max /GENE: a2/RE: BBS /TF: B ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: CYN |LOCUS: AT3G23490 |PROD: cyanate lyase family |complement(8423042..8424659) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +237 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.14 T - 0.40 C - 0.14 1 catgctgcac ataatggtta tgaatatatt atgattaaaa gacaacacat 51 attgattgac ttttgattta tatatattac atctatgatc tatcttcatt 101 atataagata tcacgtttct ctcggttaca tatatatatt atgtttgatt 151 attgaatgaa TATAATTAta taagataact gtctctctgt ctgtctgtct 201 GTCTGTCTGA GTGGATTCGT ATACTATATT GTGATGAGAG TCACCACAAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00421 Mean Expected Number 0.006 -strand -75 : -81 ACCGAGA Totally 1 motifs of 1 different REs have been found Description of REs found 402. Group RE: DRE1 /AC: RSP00421//OS: Zea mays /GENE: rab17/RE: DRE1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ATIPT7 |LOCUS: AT3G23630 |PROD: |8488702..8490217 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +183 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.26 G - 0.16 T - 0.42 C - 0.17 1 tttgtttttc tttctgtttt ttttttgttg ttaagtttta gttgtggaat 51 ttcaaagggt ttaaccaact agtcttaatg aatttcctat agatggggca 101 tctaaaatct attttaataa ggtcgtagac caaagtcaga gaaaacacgg 151 ctagttagtt ctaggtgTAT ATATAtagcc tccttaatac ctcaaaactt 201 AATACTTGTG AGCATTTGCT TTCTTTCACC ATTCTCTCTT AGTCTTCCTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01237 Mean Expected Number 0.007 -strand -23 : -32 CTaTATATAT AC RSP01600 Mean Expected Number 0.008 +strand -151 : -144 TTTCAAAG Totally 2 motifs of 2 different REs have been found Description of REs found 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: glycine-rich RNA-binding protein, putative |LOCUS: AT3G23830 |PROD: the same as GENE |complement(8606484..8608062) |SUPPORT | 5 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +378 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.13 T - 0.34 C - 0.25 1 tctacatcag ctacattcta tatttgatac acttgcgctt ttccagtgtg 51 ttgacttctc tcattactca attctattgg acaactacgg tagtatacag 101 taatacgata cacctagcca caggtgatta gtttgagcaa aacaaaaatg 151 agagtttctg agctcagtaT ATAAATCcct taaaccctac tctttgtctt 201 CATCCTCTCA CTGCCTCTTT TCTCACTCAC TGTTACTTCG CTAAAACCCT 251 A Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: transferase family protein |LOCUS: AT3G23840 |PROD: the same as GENE |8611133..8612697 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +51 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.13 T - 0.27 C - 0.19 1 caggtgacgc aaacacctat tgtctctatg ataatattat gcataacaac 51 gtgaatgaat taatacaatc acaatctata aagcaagggt gaaagagaga 101 aagacacgta gccgaacatt aacaaatttg aaagaataaa aactcttaag 151 aacacaaaaa tatttcTATA TATAtcctac atagctaaga ccgaaatatc 201 ACTCAGAATC ATCTTTGTCA ATATTTCTCT ACCATCTTTT GTCTCATAGC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00036 Mean Expected Number 0.009 +strand -191 : -184 CAAACACC AC RSP00068 Mean Expected Number 0.005 +strand -98 : -89 GACACGTAGc AC RSP00070 Mean Expected Number 0.003 -strand -91 : -98 TACGTGTC AC RSP00163 Mean Expected Number 0.001 +strand -185 : -175 CCTaTTGTCTC AC RSP00163 Mean Expected Number 0.001 +strand +35 : +45 tCTTTTGTCTC AC RSP00204 Mean Expected Number 0.001 +strand -98 : -89 GACACGTaGC AC RSP00970 Mean Expected Number 0.000 +strand -197 : -189 GTGACGCAA AC RSP01035 Mean Expected Number 0.007 -strand -92 : -98 ACGTGTC AC RSP01260 Mean Expected Number 0.003 -strand -90 : -97 CTACGTGT AC RSP01636 Mean Expected Number 0.002 +strand -125 : -115 CTATAAAGCAA AC RSP01641 Mean Expected Number 0.002 +strand -183 : -174 TATTGTCTCT Totally 11 motifs of 10 different REs have been found Description of REs found 35. Group TF: ABI3 /AC: RSP00036//OS: Brassica napus /GENE: napA/RE: ABRE Bp /TF: ABI3 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 69. Group TF: TRAB1 /AC: RSP00070//OS: Oryza sativa /GENE: Osem/RE: ABRE motif A /TF: TRAB1 158. Group TF: ARF1 /AC: RSP00163//OS: Glycine max /GENE: Synthetic OLIGO/RE: DR5 /TF: ARF1 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 893. Group TF: STF1; STF2; STGA1 /AC: RSP00970//OS: Glycine max /GENE: Auxin-regulated genes/RE: CRE (G/A) /TF: STF1; STF2; STGA1 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1162. Group TF: GBF1 /AC: RSP01260//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS7 /TF: GBF1 1456. Group RE: TERE /AC: RSP01636//OS: Arabidopsis thaliana /GENE: XCP2/RE: TERE /TF: unknown 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: myb family transcription factor |LOCUS: AT3G24120 |PROD: the same as GENE |complement(8705643..8708322) |SUPPORT | 6 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +167 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.14 T - 0.34 C - 0.15 1 atataagcaa gaaaaagggt ctaaatagtt taatattgtt ggtgtaataa 51 tttagattag agcaatcaaa tgtctaaata ttataaaatt gttgattata 101 ttattactaa tagtttaatt aaagtacctc tgctacaaat aattaaatgg 151 gatttgatTA TAAACAtgtt ccttctatgt ttaaacgcaa atcggagcct 201 AATACGTCCA AACTATATCC ACCCGTCTCT TCGCTGTCCA TAAATCCGGA 251 G Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ethylene-responsive transcriptional coactivator |LOCUS: AT3G24500 |PROD: the same as GENE |8918686..8919315 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +76 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.13 T - 0.27 C - 0.22 1 accattgagc caaatcggat aatatggtgt accacgaatc caacccaaaa 51 agcattggtt aactgcaaat cagataatga cacgtcgtca atcatctcta 101 agaacgttcc agagacgaaa atggagaaaa agatgatcga attctccaga 151 aaccaatctt cgtataTATA AATAtcacaa tcctctcaac aacattcttc 201 ATCTTCATCG TTTCTCAATT TCAAAACTCA GATTAATAAA ATTTTCGCGT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00460 Mean Expected Number 0.004 -strand -115 : -124 GACgTGTCAT AC RSP01013 Mean Expected Number 0.006 +strand -83 : -74 aAAATGGAGA AC RSP01035 Mean Expected Number 0.008 -strand -116 : -122 ACGTGTC AC RSP01692 Mean Expected Number 0.004 -strand -60 : -67 TTCGATCA Totally 4 motifs of 4 different REs have been found Description of REs found 438. Group TF: O2 /AC: RSP00460//OS: coix /GENE: alpha-coixin/RE: O2d /TF: O2 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1509. Group RE: CARE J /AC: RSP01692//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE J /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: PRT1 |LOCUS: AT3G24800 |PROD: PRT1 protein (PRT1), E3 |9055516..9058005 |SUPPORT | 8 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +144 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.16 T - 0.29 C - 0.16 1 gaactcgatt acccaaatat ctacccttat atggcatggc atgaaacatc 51 atctctcaag aatatagtaa tgccatgaag gaaaattggc aaataaaaat 101 ataaaatata catgaaattc ttttttttta aaagttttgt ttttgcttat 151 agtaataaac TATAAATTaa tttataatta gaaaaaagaa agaagaaggt 201 ACGGCGGTGG ATATTGGCCC TTGCCGCAAA AGCAAAAGCT ATCGCCACCA 251 C Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: 60S ribosomal protein L13A (RPL13aB) |LOCUS: AT3G24830 |PROD: the same as GENE |9064570..9066089 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +50 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.24 T - 0.24 C - 0.17 1 tcattgctga tcctgtgaag aagaagaaga atctgaaaat ctccaatgcc 51 ttagaaagta gaaaaaatgg gcctgggcat ggcctgttac tgggctactg 101 ggccttatta taataacaaa aggcCCAATa aattagggtt tagagaactc 151 ttaaccctaa tgtcgcatca taTATAAAGT cgccattgaa gtgaagctga 201 GATCTTTTCG AAGAGCGGAA GCTAAGGAGA GGCGAATTCG AATCGAGAAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.001 +strand -68 : -60 TTAGGGTTT AC RSP00369 Mean Expected Number 0.001 -strand -60 : -68 AAACCCTAA AC RSP01004 Mean Expected Number 0.008 -strand -9 : -18 ACTTcAATGG AC RSP01237 Mean Expected Number 0.009 -strand -22 : -31 CTtTATATAT AC RSP01303 Mean Expected Number 0.003 +strand -50 : -41 TtAACCCTAA AC RSP01303 Mean Expected Number 0.003 -strand -59 : -68 TAAACCCTAA AC RSP01304 Mean Expected Number 0.002 +strand -50 : -41 TtAACCCTAA AC RSP01304 Mean Expected Number 0.003 -strand -59 : -68 TaAACCCTAA Totally 8 motifs of 6 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 929. Group TF: DEF/GLO /AC: RSP01004//OS: Antirrhinum majus /GENE: DEFH125/RE: CArG2 /TF: DEF/GLO 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1197. Group RE: Telo box /AC: RSP01304//OS: Lycopersicon esculentum /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: basic helix-loop-helix (bHLH) family protein |LOCUS: AT3G25710 |PROD: the same as GENE |9370756..9372631 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +79 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.14 T - 0.38 C - 0.15 1 tatatggaac taagttcata cgttatttct cacaattctc cttgatgtga 51 tcaaagataa tggcggtctg attgtataac ccggtgaaaa aggttttttg 101 gaaagaattc tttaatatta aaatatcaaa taaattttgt ttaaaaatta 151 aggacacatt atatagcacT ATATATAcac atgtgtatgc attatcaaat 201 GGGATGTTTG TGACCTTTTG TCTCTTCTTC TCTAAAATTC TCTTTCTCCC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00163 Mean Expected Number 0.002 +strand +14 : +24 CCTTTTGTCTC AC RSP00861 Mean Expected Number 0.003 -strand +47 : +39 AGAAAGAGA AC RSP01469 Mean Expected Number 0.009 +strand -24 : -15 aCACATGTGT AC RSP01469 Mean Expected Number 0.006 -strand -15 : -24 aCACATGTGT AC RSP01641 Mean Expected Number 0.007 +strand +16 : +25 TtTTGTCTCT Totally 5 motifs of 4 different REs have been found Description of REs found 158. Group TF: ARF1 /AC: RSP00163//OS: Glycine max /GENE: Synthetic OLIGO/RE: DR5 /TF: ARF1 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: AP2 domain-containing transcription factor |LOCUS: AT3G25730 |PROD: the same as GENE |9397657..9398896 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +85 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.06 T - 0.34 C - 0.26 1 tttaagttga cccacaacat atacacacac aaacccatat tattccgata 51 cacctaccca tatattatac catctcctta aaacacacta caagtaataa 101 aaaggacgga actttttttt ttaataacat acatgcacac ttgatgtttc 151 ttatttcccc ttgtctctcT ATATATAcac acattcattc acacacgttc 201 ACACATATAC ATTCACATTA CTAATCTCTC AAGATTTCAC AATTTTCTTG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00019 Mean Expected Number 0.006 -strand -126 : -137 AGATGGTATAaT AC RSP00284 Mean Expected Number 0.000 -strand -92 : -97 CCGTCC AC RSP00778 Mean Expected Number 0.010 -strand -10 : -19 TGAATGAATG AC RSP01016 Mean Expected Number 0.006 -strand -50 : -57 AGAAACAT AC RSP01079 Mean Expected Number 0.003 +strand -153 : -142 ATaCACCTACCC AC RSP01237 Mean Expected Number 0.003 +strand -34 : -25 CTCTATATAT AC RSP01641 Mean Expected Number 0.006 +strand -42 : -33 cCTTGTCTCT Totally 7 motifs of 7 different REs have been found Description of REs found 18. Group TF: GT-1 /AC: RSP00019//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box5 /TF: GT-1 275. Group RE: Box A /AC: RSP00284//OS: Petroselinum crispum /GENE: PAL-1/RE: Box A /TF: unknown ||Identical REs AC: RSP00849 RSP00856 733. Group RE: Box III /AC: RSP00778//OS: Arabidopsis thaliana /GENE: AtS1/RE: Box III /TF: unknown 941. Group TF: AEF /AC: RSP01016//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 1 /TF: AEF 997. Group TF: DcMYB1 /AC: RSP01079//OS: Daucus carota /GENE: DcPAL1/RE: box-L1 /TF: DcMYB1 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: myb family transcription factor |LOCUS: AT3G25790 |PROD: the same as GENE |9414364..9416240 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +69 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.14 T - 0.33 C - 0.17 1 tggatcaata ctactataca acaagggaaa aaaaaatatt taacttggga 51 aggtatatac ttattttata aacaaaagca agattcgcct tgtaatgcga 101 cggcccgact tctctctttc aaataatgat ccttgagaaa ccctatagag 151 ccatatatac gttgtcttTA TAAAGAgaca taactcatct cttcttgact 201 AACTTTATAG TTAAAGTTAT CAATTATTCG AAAACAAAGC TGGTTTTTTG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00838 Mean Expected Number 0.008 -strand -98 : -103 CCGTCG AC RSP01497 Mean Expected Number 0.001 -strand -97 : -106 GCCGTCGcAT AC RSP01640 Mean Expected Number 0.005 -strand -18 : -27 tTATGTCTCT Totally 3 motifs of 3 different REs have been found Description of REs found 783. Group RE: CCGTCG motif /AC: RSP00838//OS: Arabidopsis thaliana /GENE: H4A748/RE: CCGTCG motif /TF: unknown 1359. Group RE: CS5 /AC: RSP01497//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS5 /TF: unknown ||Identical REs AC: RSP01498 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: universal stress protein (USP) family protein |LOCUS: AT3G25930 |PROD: the same as GENE |complement(9494082..9495154) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +46 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.16 T - 0.30 C - 0.16 1 ccactacaca cgggtttaat atagtattac ttgtgtgtat aattttattt 51 tattttgcaa acgagaagaa gccagaatca agtcgttaac ccatgccttT 101 CAATtaccca atcacctaag attttttttt atattacttc ctttgacaag 151 ttaatccact tccaaatata cTATAAAGTt gcacattgac aagaggtttt 201 AGCAGAAGCT AGAAGAAGAA AGGAGAAGAA GAAACAAAGA GAGAAGATGA 251 A Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: major latex protein-related / MLP-related |LOCUS: AT3G26450 |PROD: the same as GENE |complement(9682535..9684605) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +69 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.44 G - 0.12 T - 0.30 C - 0.14 1 ttatcaaata aagaaaataa atttctatga cccaataatg taatgctcta 51 atattttatt ttataatttg taaaattaat gctcactaaa tactttaggt 101 tgaaaaatga agaagagaag tttctagcat gattaaaaga aacagtattc 151 ttaagcgtca tcttctctaT ATAAACCaag gcaacaagtg ttatttcatc 201 AACCAAAACA AAACAAAAGA AGAAACACGA GTGGAAGCTT TTAAACAAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01030 Mean Expected Number 0.006 -strand -76 : -83 AGAAACTT AC RSP01678 Mean Expected Number 0.007 -strand -140 : -151 aAATAAAATATT Totally 2 motifs of 2 different REs have been found Description of REs found 955. Group TF: AEF /AC: RSP01030//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 1 /TF: AEF 1496. Group TF: AT-Hook TFs /AC: RSP01678//OS: Catharanthus roseus /GENE: ORSA3/RE: JRE (Quant. Seq.) /TF: AT-Hook TFs ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: major latex protein-related / MLP-related |LOCUS: AT3G26460 |PROD: the same as GENE |complement(9685110..9685894) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +50 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.17 T - 0.27 C - 0.16 1 ttatcttgta aaggatgatg gaccaactat acacattaat aacgtggtcg 51 cggattcgtt taccaaatca agaaaataca tttctatgat ccactaatgc 101 tcttatattt tattttaatg attaaaagaa acggtagaaa ccatatttga 151 aagcgtcagc ttctgatcta TATAAACCaa caagtgttat ttcagcaacc 201 AAAACAAAAA CACGAGTGGA AACTTTTAAA CAAGAGAGGG AGAGAGCGAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00253 Mean Expected Number 0.001 -strand -145 : -152 AATCCGCG AC RSP00559 Mean Expected Number 0.004 +strand -16 : -6 TGTtATTTCAG AC RSP01058 Mean Expected Number 0.005 -strand -105 : -112 TAGTGGAT Totally 3 motifs of 3 different REs have been found Description of REs found 246. Group RE: Oct (r) /AC: RSP00253//OS: Triticum aestivum /GENE: H3/RE: Oct (r) /TF: unknown ||Identical REs AC: RSP01503 RSP01504 535. Group RE: 2'/Box II J1 /AC: RSP00559//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: 2'/Box II J1 /TF: unknown 978. Group TF: GT-3a /AC: RSP01058//OS: Brassica napus /GENE: extA/RE: GT-3a Box III /TF: GT-3a ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: light responsive protein-related |LOCUS: AT3G26740 |PROD: the same as GENE |9829039..9829917 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +66 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.09 T - 0.36 C - 0.18 1 ccttttgttc aaacttttat cttctttgtc atagaaagtt tggaccactg 51 attttagtcc gttggattat caattattga cctcaataat atcaaaattt 101 acttcaatga gaataagatt ACAATttttt attttttttt gaacaccaac 151 aaatctgctt cttctctggc TATAAATAaa gcataaactg ttccaaaaac 201 AGAACCAAAA AATATCTAAA ATCACTAAAC CTATCTTCTT AACCAAAAGA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00288 Mean Expected Number 0.009 -strand -154 : -159 TGGTCC AC RSP01060 Mean Expected Number 0.007 +strand -130 : -122 CAATTATTG AC RSP01060 Mean Expected Number 0.007 -strand -122 : -130 CAATAATTG AC RSP01077 Mean Expected Number 0.003 -strand -122 : -130 CAATAATTG AC RSP01209 Mean Expected Number 0.007 -strand +2 : -8 CTGTTTTTGG AC RSP01231 Mean Expected Number 0.009 +strand -142 : -137 CCGTTG Totally 6 motifs of 5 different REs have been found Description of REs found 279. Group RE: Motif VI /AC: RSP00288//OS: Pisum sativum /GENE: PSPAL2/RE: Motif VI /TF: unknown 980. Group TF: Hahb-4 /AC: RSP01060//OS: Helianthus annuus /GENE: OLIGOs/RE: Hahb-4 BS /TF: Hahb-4 995. Group TF: CpbZIP1; CpbZIP2 (short) /AC: RSP01077//OS: Craterostigma plantagineum (Scrophulariaceae) /GENE: CpC2/RE: HDZIP BS /TF: CpbZIP1; CpbZIP2 (short) 1119. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01209//OS: Lepidium africanum /GENE: LaCRC/RE: EM1 /TF: MADS box TFs 1136. Group RE: A-box (2) /AC: RSP01231//OS: Arabidopsis thaliana /GENE: C4H/RE: A-box (2) /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G26960 |PROD: the same as GENE |complement(9945905..9946816) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +120 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.11 T - 0.37 C - 0.21 1 atcttcactc caaatgcacc tttctttgta ctcccatcac tttctcttcg 51 atatggtatt tactttaatc cgattcgaat attgtaacta tgaaaaacaa 101 aatgaatagt aaaaatatcc gtttcgtatc caagcctatt tttaaaagac 151 acgtttgtat aactctctcT ATATATAgaa aggaaccacg aagctctttc 201 AAGAGAGTTC TATTCTTGTC TGAAAACTAG TTCCCTATAT TTCTTCTTTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00085 Mean Expected Number 0.006 +strand -35 : -20 TcTCTATATATAGAAA AC RSP00085 Mean Expected Number 0.006 -strand -20 : -35 TTTCTATATATAGAgA AC RSP00332 Mean Expected Number 0.005 +strand -148 : -141 ATGGTATT AC RSP00405 Mean Expected Number 0.008 -strand -187 : -194 TTTGGAGT AC RSP00862 Mean Expected Number 0.000 +strand -24 : -16 AGAAAGGAA AC RSP01035 Mean Expected Number 0.005 -strand -47 : -53 ACGTGTC AC RSP01039 Mean Expected Number 0.010 +strand -23 : -18 GAAAGG AC RSP01237 Mean Expected Number 0.002 +strand -34 : -25 CTCTATATAT AC RSP01237 Mean Expected Number 0.008 -strand -21 : -30 tTCTATATAT AC RSP01679 Mean Expected Number 0.000 -strand -45 : -56 AAACGTGtCTTT Totally 10 motifs of 8 different REs have been found Description of REs found 83. Group TF: AGL3 /AC: RSP00085//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AGL3-BE /TF: AGL3 318. Group TF: S1F /AC: RSP00332//OS: Spinacia oleracea /GENE: RPL21/RE: S1 /TF: S1F 387. Group RE: adjb /AC: RSP00405//OS: Nicotiana tabacum /GENE: RNP2/RE: adjb /TF: unknown 798. Group TF: BPC1 /AC: RSP00862//OS: Arabidopsis thaliana /GENE: STK/RE: GA-3 /TF: BPC1 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 963. Group RE: Dof BS1 /Group TF: Dof family /AC: RSP01039//OS: Petroselinum crispum /GENE: Icy/RE: Dof BS1 /TF: Dof family 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1497. Group RE: JRE (Qualt. Seq.) /AC: RSP01679//OS: Catharanthus roseus /GENE: ORSA3/RE: JRE (Qualt. Seq.) /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: AIG2 |LOCUS: AT3G28930 |PROD: avrRpt2-induced AIG2 protein (AIG2) |complement(10960944..10961991) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +26 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.49 G - 0.11 T - 0.21 C - 0.20 1 caaaaatata atatcaaaaa tctaaaacga aaatctaaaa tctataaact 51 aaaatctaaa tccaaaaact gaatcgaaat acagcatcca ttcagggcct 101 ttataacaaa aagCCAATga gaaaagtctg aaggaagaga atcgtcaaca 151 aacgatggct atacaacaag AATAAATAca tcacattttt cagacaaact 201 CCAATTTCAC AGTGAAAATA AAAACAATGA CAAGCTCCGA TCAATCTCCA 251 T Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: UDP-glucose 6-dehydrogenase, putative |LOCUS: AT3G29360 |PROD: the same as GENE |complement(11268328..11270465) |SUPPORT | 2 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +411 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.16 T - 0.32 C - 0.23 1 cacagtaatt actcgatttt tttataaccc tcatttcttg gaaagtgaga 51 ataataatgc cagatgtaaa atgtaatgaa cagtggctcc accatcaccg 101 aacctgcagg ttcgcttttt tttaagtctc tctctggtcg gtcaggggca 151 aaatcggaaa tctacttgtT ATAAAACgaa actttggtct taagatcatc 201 ATCATTGTCC CTCAGACAAA TTTCACTCGC TCATCTCTGT CTGAATCTCA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00864 Mean Expected Number 0.002 -strand -66 : -74 AGAGAGAGA Totally 1 motifs of 1 different REs have been found Description of REs found 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: histone H2B |LOCUS: AT3G45980 |PROD: the same as GENE |complement(16907801..16908998) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +69 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.10 T - 0.29 C - 0.25 1 aacggagatt ttaacaccgc gctaaaacat aaaccaatat tgacacgtca 51 tcgatcccgc ttcataagtt tataaaccgt cgattaaaaa caatttcaac 101 ggttgcgatc tcccatctca tcgatcctcg tcaacatcta ataaCCAATc 151 atatcaatta ttctaactac TATAAAATca aaactcgtct tcatcaaatt 201 AGATATCAAA ATCACTCAGA TCTGTGCTTC TTCTTCTTCA CCCAGAAAAG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00232 Mean Expected Number 0.008 +strand -156 : -147 ACGTCATcGA AC RSP00400 Mean Expected Number 0.005 +strand -101 : -96 CGGTTG AC RSP00459 Mean Expected Number 0.007 -strand -67 : -76 TTGACgAGGA AC RSP00460 Mean Expected Number 0.004 +strand -159 : -150 GACAcGTCAT AC RSP00913 Mean Expected Number 0.006 -strand -79 : -88 GATGAGATGG AC RSP00916 Mean Expected Number 0.006 -strand -149 : -158 GATGACGTGT AC RSP00997 Mean Expected Number 0.008 -strand -149 : -158 GATGACGTGT AC RSP01035 Mean Expected Number 0.006 -strand -153 : -159 ACGTGTC AC RSP01065 Mean Expected Number 0.002 -strand -73 : -83 AGGATCGATGA AC RSP01065 Mean Expected Number 0.002 -strand -143 : -153 gGGATCGATGA AC RSP01258 Mean Expected Number 0.005 -strand -151 : -158 TGACGTGT AC RSP01654 Mean Expected Number 0.009 -strand -149 : -158 GATGACGTGT AC RSP01658 Mean Expected Number 0.000 -strand -149 : -160 GATGACGTGTCA Totally 13 motifs of 12 different REs have been found Description of REs found 225. Group RE: LS7 /Group TF: TGA2 & NPR1/NIM1 /AC: RSP00232//OS: Arabidopsis thaliana /GENE: PR-1/RE: LS7 /TF: TGA2 & NPR1/NIM1 382. Group TF: Myb /AC: RSP00400//OS: Nicotiana tabacum /GENE: RNP2/RE: Myba /TF: Myb 437. Group TF: O2 /AC: RSP00459//OS: coix /GENE: alpha-coixin/RE: O2u /TF: O2 438. Group TF: O2 /AC: RSP00460//OS: coix /GENE: alpha-coixin/RE: O2d /TF: O2 844. Group TF: Opaque-2 /AC: RSP00913//OS: Zea mays /GENE: b-32/RE: B1 /TF: Opaque-2 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 984. Group RE: Fungus RE /Group TF: homeodomain TF /AC: RSP01065//OS: Arabidopsis thaliana /GENE: At5g64250/RE: Fungus RE /TF: homeodomain TF 1160. Group TF: GBF1 /AC: RSP01258//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS5 /TF: GBF1 1472. Group TF: STF1/HY5 /AC: RSP01654//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: STF1/HY5 BS (cons) /TF: STF1/HY5 1476. Group TF: HY5 /AC: RSP01658//OS: Arabidopsis thaliana /GENE: SAUR-AC1-like (At4g38810)/RE: C/G-box /TF: HY5 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: histone H2B, putative |LOCUS: AT3G46030 |PROD: the same as GENE |complement(16924433..16925116) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +80 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.14 T - 0.29 C - 0.22 1 cgaaattaat tttgattcgc tgcttaatgg cccatttaaa aaggtgagag 51 atgcttagcc gttcactgcc aacgacggat ttattctaat ctaacggtac 101 gtaatatatt ccacgtcaTC AATcctcgtg aaacgagaat taaccaatct 151 gtatctaatt catggtcaTA TATATAcatg agctaccgaa tcgtctaaac 201 AACAAACACA AAACTTGATC TCACGACTCC ATCTTCTAAA ATTCAGAATC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00214 Mean Expected Number 0.003 -strand -83 : -90 TGACGTGG AC RSP00215 Mean Expected Number 0.003 +strand -90 : -83 CCACGTCA AC RSP00847 Mean Expected Number 0.009 +strand -90 : -81 CCACgTCATC AC RSP00913 Mean Expected Number 0.004 -strand -81 : -90 GATGACGTGG AC RSP00915 Mean Expected Number 0.006 -strand -81 : -90 GATGACGTGG AC RSP00916 Mean Expected Number 0.004 -strand -81 : -90 GATGACGTGG AC RSP00997 Mean Expected Number 0.005 -strand -81 : -90 GATGACGTGG AC RSP01065 Mean Expected Number 0.001 -strand -75 : -85 AGGATtGATGA AC RSP01275 Mean Expected Number 0.005 +strand -91 : -82 TCCACGTCAT Totally 9 motifs of 9 different REs have been found Description of REs found 207. Group TF: TGA1; GBF1 /AC: RSP00214//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: Hex motif /TF: TGA1; GBF1 ||Identical REs AC: RSP01257 RSP01474 208. Group TF: HBP-11(17); HBP-1b(c38) /AC: RSP00215//OS: Triticum aestivum /GENE: H3/RE: Hex /TF: HBP-11(17); HBP-1b(c38) 789. Group RE: NON /AC: RSP00847//OS: Zea mays /GENE: H3C4/RE: NON /TF: unknown 844. Group TF: Opaque-2 /AC: RSP00913//OS: Zea mays /GENE: b-32/RE: B1 /TF: Opaque-2 846. Group TF: Opaque-2 /AC: RSP00915//OS: Zea mays /GENE: b-32/RE: B3 /TF: Opaque-2 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 918. Group TF: Opaque-2 (O2) /AC: RSP00997//OS: Zea mays /GENE: cyPPDK1/RE: O2 BS-2 /TF: Opaque-2 (O2) 984. Group RE: Fungus RE /Group TF: homeodomain TF /AC: RSP01065//OS: Arabidopsis thaliana /GENE: At5g64250/RE: Fungus RE /TF: homeodomain TF 1174. Group RE: ACE 2 /AC: RSP01275//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: histone H4 |LOCUS: AT3G46320 |PROD: the same as GENE |complement(17030897..17031413) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +74 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.12 T - 0.30 C - 0.22 1 aaattttcat aaactttcac ttacaggcat cacggggatc gacaatatta 51 agcgtcgata aaattaaatc aacggctaat aagtaatctc attgttcacc 101 cggatcgtta tctgcaaccg ttagatctaa aaacacatct gacggttcaa 151 atcaattaga tccatcttgt aTATAAATGa catctcctct taacaagatt 201 CTCAAATCAT CTCAATCTCA ATTAAATCTT CAAATCGAAA AGTTTCCGAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00272 Mean Expected Number 0.001 +strand -171 : -161 TCACGgGGATC AC RSP00272 Mean Expected Number 0.001 +strand -105 : -95 TCACcCGGATC AC RSP00460 Mean Expected Number 0.004 -strand -15 : -24 GAgATGTCAT AC RSP00701 Mean Expected Number 0.001 +strand -102 : -95 CCCGGATC AC RSP01031 Mean Expected Number 0.008 -strand +2 : -6 AGAATCTT AC RSP01068 Mean Expected Number 0.008 +strand -63 : -55 TCTGACGGT AC RSP01469 Mean Expected Number 0.009 -strand -59 : -68 TCAgATGTGT AC RSP01601 Mean Expected Number 0.010 +strand -186 : -179 TTTCACTT AC RSP01602 Mean Expected Number 0.009 +strand +10 : +17 TCTCAATC AC RSP01735 Mean Expected Number 0.002 +strand -5 : +4 AGATTCTCA Totally 10 motifs of 9 different REs have been found Description of REs found 264. Group RE: Type II element /AC: RSP00272//OS: Nicotiana tabacum /GENE: artifical construction/RE: Type II element /TF: unknown 438. Group TF: O2 /AC: RSP00460//OS: coix /GENE: alpha-coixin/RE: O2d /TF: O2 667. Group RE: Oct (d) /AC: RSP00701//OS: Triticum aestivum /GENE: H3/RE: Oct (d) /TF: unknown 956. Group TF: AEF /AC: RSP01031//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 2 /TF: AEF 987. Group TF: HvH21 /AC: RSP01068//OS: Hordeum vulgare /GENE: Synthetic OLIGOs/RE: HvH21 BS /TF: HvH21 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) 1422. Group RE: Inr /AC: RSP01601//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown 1423. Group RE: Inr /AC: RSP01602//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown 1543. Group TF: CAMTA3 /AC: RSP01735//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM6 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: TOPP5 |LOCUS: AT3G46820 |PROD: |complement(17252768..17255262) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +285 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.44 G - 0.11 T - 0.37 C - 0.09 1 tataaagaaa atctatacaa attaaccatg aattctatat aaaccttttt 51 ttgtgaatat atttatgaag tttgtgaata tttaatattt ttttgtttga 101 cctaataata acagcagaaa tcgacgtcga tacgaaaata tatatatata 151 taTATATATA tatatatata tatatatatg aaaaaaatga aaatgtgtca 201 TTTATCTAAA ACGAAAAAAA AGAAAAGAAG AGAAGCTTTT TTAGTTCTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00071 Mean Expected Number 0.004 +strand -78 : -73 GACGTC AC RSP00071 Mean Expected Number 0.004 -strand -73 : -78 GACGTC AC RSP00148 Mean Expected Number 0.010 +strand -79 : -75 CGACG AC RSP00148 Mean Expected Number 0.008 -strand -72 : -76 CGACG AC RSP00171 Mean Expected Number 0.008 -strand +51 : +46 GAGAGA AC RSP00383 Mean Expected Number 0.004 -strand -99 : -105 GGTCAAA AC RSP00492 Mean Expected Number 0.000 +strand -71 : -30 ATAcgaAaATATATATATATATATATATATATATATATATAT AC RSP00492 Mean Expected Number 0.000 +strand -69 : -28 AcgaAaATATATATATATATATATATATATATATATATATAT AC RSP00492 Mean Expected Number 0.000 +strand -67 : -26 gaAaATATATATATATATATATATATATATATATATATATAT AC RSP00492 Mean Expected Number 0.000 +strand -65 : -24 AaATATATATATATATATATATATATATATATATATATATAT AC RSP00492 Mean Expected Number 0.000 +strand -63 : -22 ATATATATATATATATATATATATATATATATATATATATAT AC RSP00492 Mean Expected Number 0.000 +strand -61 : -20 ATATATATATATATATATATATATATATATATATATATATga AC RSP00492 Mean Expected Number 0.000 +strand -59 : -18 ATATATATATATATATATATATATATATATATATATATgaAa AC RSP00492 Mean Expected Number 0.000 +strand -57 : -16 ATATATATATATATATATATATATATATATATATATgaAaAa AC RSP00492 Mean Expected Number 0.000 -strand -16 : -57 tTtTtcATATATATATATATATATATATATATATATATATAT AC RSP00492 Mean Expected Number 0.000 -strand -18 : -59 tTtcATATATATATATATATATATATATATATATATATATAT AC RSP00492 Mean Expected Number 0.000 -strand -20 : -61 tcATATATATATATATATATATATATATATATATATATATAT AC RSP00492 Mean Expected Number 0.000 -strand -22 : -63 ATATATATATATATATATATATATATATATATATATATATAT AC RSP00492 Mean Expected Number 0.000 -strand -24 : -65 ATATATATATATATATATATATATATATATATATATATATtT AC RSP00492 Mean Expected Number 0.000 -strand -26 : -67 ATATATATATATATATATATATATATATATATATATATtTtc AC RSP00492 Mean Expected Number 0.000 -strand -28 : -69 ATATATATATATATATATATATATATATATATATATtTtcgT AC RSP00492 Mean Expected Number 0.000 -strand -30 : -71 ATATATATATATATATATATATATATATATATATtTtcgTAT AC RSP00597 Mean Expected Number 0.003 -strand -175 : -186 GTTAATTTGTaT AC RSP01033 Mean Expected Number 0.001 +strand -157 : -148 CCTTTTTTTG AC RSP01598 Mean Expected Number 0.007 +strand -5 : +3 TGTCATTT Totally 25 motifs of 8 different REs have been found Description of REs found 70. Group RE: C-box /Group TF: RITA-1 /AC: RSP00071//OS: Oryza sativa /GENE: rifa-7-P-glucuronidase transgene/RE: C-box /TF: RITA-1 144. Group RE: CGACG-element /AC: RSP00148//OS: Oryza sativa /GENE: Amy3D/RE: CGACG-element /TF: unknown 165. Group RE: GAGAGA motif /AC: RSP00171//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: GAGAGA motif /TF: unknown 368. Group TF: WRKY1 /AC: RSP00383//OS: Petroselinum crispum /GENE: WRKY1/RE: WA /TF: WRKY1 468. Group RE: Zc2 A/T-2 /AC: RSP00492//OS: Zea mays /GENE: Zc2/RE: Zc2 A/T-2 /TF: unknown 573. Group RE: GT-1/16 JJ1 /AC: RSP00597//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: GT-1/16 JJ1 /TF: unknown 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1419. Group RE: Inr /AC: RSP01598//OS: Spinacia oleracea /GENE: RPL21/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: aldose 1-epimerase family protein |LOCUS: AT3G47800 |PROD: the same as GENE |17645795..17648595 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +161 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.46 G - 0.09 T - 0.32 C - 0.13 1 tagaatagaa aaattcaaaa tatacacctt aaatttcatg tttctaccca 51 caaaaaaaaa gaatgtagaa cattcaaaaa cttatttttt tgtatatttc 101 tgttaaaaaa caactgtaat atgaaaagtc ctaaaataaa aggtcaagac 151 taaaaatatc tTATAAAAAt ctaaaattac aaaacaagga aaatttgttt 201 ATCAAAGTTT GGGATAATAG TCTTATCTCT TTCATCCACA CTAATATAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00355 Mean Expected Number 0.004 -strand -96 : -103 TAACAGAA AC RSP00440 Mean Expected Number 0.000 -strand -70 : -78 GGACTTTTC AC RSP00559 Mean Expected Number 0.009 -strand -20 : -30 TGTAATTTtAG AC RSP00620 Mean Expected Number 0.000 -strand +29 : +13 GAGATAAGACTATTaTC AC RSP01016 Mean Expected Number 0.004 -strand -156 : -163 AGAAACAT AC RSP01757 Mean Expected Number 0.001 +strand -58 : -51 GTCAAGAC Totally 6 motifs of 6 different REs have been found Description of REs found 340. Group RE: GARE2 /AC: RSP00355//OS: Oryza sativa /GENE: Rep-1/RE: GARE2 /TF: unknown 420. Group RE: -NF-kB-box /AC: RSP00440//OS: Arabidopsis thaliana /GENE: PR-1/RE: -NF-kB-box /TF: unknown 535. Group RE: 2'/Box II J1 /AC: RSP00559//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: 2'/Box II J1 /TF: unknown 596. Group RE: 2 CC /AC: RSP00620//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: 2 CC /TF: unknown 941. Group TF: AEF /AC: RSP01016//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 1 /TF: AEF 1562. Group TF: B /AC: RSP01757//OS: Glycine max /GENE: a2/RE: BBS /TF: B ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G48510 |PROD: the same as GENE |complement(17978341..17979523) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +86 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.14 T - 0.25 C - 0.26 1 tgggagaata acttaggcaa aaaaacaaaa agagagaata actttccatg 51 tgcaacccaa accctttact actgtcttct agacccaaca caaccacaag 101 cgtgcaggca aagacacgtg tccatgtcac aactagtata gactccaaca 151 cgtgtccaga tcacagacgt TATAAAACcc ttaccatttc tgttcagtgt 201 ATTCCTCAGC TCAAGTAAAG CTTTTACCTA ATTCTCAAAC ATTCTTTACA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00143 Mean Expected Number 0.001 +strand -88 : -79 GACaCGTGTC AC RSP00143 Mean Expected Number 0.004 -strand -79 : -88 GACaCGTGTC AC RSP00204 Mean Expected Number 0.001 +strand -88 : -79 GACACGTGtC AC RSP00204 Mean Expected Number 0.002 -strand -79 : -88 GACACGTGtC AC RSP00442 Mean Expected Number 0.007 +strand -162 : -153 TAACTTTcCA AC RSP00524 Mean Expected Number 0.007 -strand -46 : -52 ACACGTG AC RSP00524 Mean Expected Number 0.007 -strand -80 : -86 ACACGTG AC RSP01035 Mean Expected Number 0.007 +strand -85 : -79 ACGTGTC AC RSP01035 Mean Expected Number 0.007 +strand -51 : -45 ACGTGTC AC RSP01256 Mean Expected Number 0.002 +strand -87 : -80 ACACGTGT AC RSP01256 Mean Expected Number 0.002 +strand -53 : -46 ACACGTGT AC RSP01256 Mean Expected Number 0.002 -strand -46 : -53 ACACGTGT AC RSP01256 Mean Expected Number 0.002 -strand -80 : -87 ACACGTGT Totally 13 motifs of 6 different REs have been found Description of REs found 139. Group TF: TRAB1 /AC: RSP00143//OS: Oryza sativa /GENE: Osem/RE: CE3 /TF: TRAB1 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 422. Group TF: Dof1 /AC: RSP00442//OS: Zea mays /GENE: cyPPDK1/RE: box b /TF: Dof1 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1159. Group TF: GBF1 /AC: RSP01256//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS3 /TF: GBF1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G48550 |PROD: the same as GENE |18004984..18005677 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +49 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.18 T - 0.25 C - 0.16 1 gacaacaaat tcacataatg gcggtacggt ggtcgtttgt taactttgag 51 gattatataa aaacccaatg atcaaataac ccaaaaagat atgcatattc 101 gaataagggg ttataagtgt aatttcaagt agatagtata tgtgcacaga 151 cacgaagcag cttacaTATA AAGTgattgg taattgccat ccccacactt 201 ATTGAGAAGT GCAGCCTTTT AGCCAAAAAA AACAAACAAG AATACAAAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00040 Mean Expected Number 0.008 -strand -160 : -166 AACAAAC AC RSP00231 Mean Expected Number 0.009 -strand -21 : -27 CCAATCA AC RSP00559 Mean Expected Number 0.003 +strand -83 : -73 TGTAATTTCAa AC RSP00760 Mean Expected Number 0.000 +strand -188 : -143 ACATAAT-- ** bp --ATTATAT Totally 4 motifs of 4 different REs have been found Description of REs found 39. Group RE: AACA box (D) /AC: RSP00040//OS: Oryza sativa /GENE: GluB-1/RE: AACA box (D) /TF: unknown 224. Group RE: CCAAT box 1 /AC: RSP00231//OS: Arabidopsis thaliana /GENE: AGAMAOUS (AG)/RE: CCAAT box 1 /TF: unknown 535. Group RE: 2'/Box II J1 /AC: RSP00559//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: 2'/Box II J1 /TF: unknown 722. Group RE: motif III /AC: RSP00760//OS: Solanum tuberosum /GENE: S2-RNase/RE: motif III /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: protein transport protein SEC61 gamma subunit |LOCUS: AT3G48570 |PROD: the same as GENE |complement(18014898..18015959) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +62 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.15 T - 0.27 C - 0.17 1 acatcactca attataattc ttaagatgtt gtagaaaaat attttataga 51 tggaaagtaa tcgatattaa gacaaataag aaaccaaacc ggactttgtg 101 ttcagaccga atcaaatctg aATTGGagaa attatggtgg aggcgaaagt 151 caacggaact aaagTATAAA ACcaaatgtc aaaaataaaa cccaattttc 201 ATCCTTAAAC GAACCTGCTG AAACCCTAAT TTCGATTACC AATTCCGATC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.004 -strand +29 : +21 TTAGGGTTT AC RSP00369 Mean Expected Number 0.004 +strand +21 : +29 AAACCCTAA AC RSP01303 Mean Expected Number 0.007 +strand +20 : +29 gAAACCCTAA AC RSP01678 Mean Expected Number 0.003 -strand -152 : -163 CtATAAAATATT Totally 4 motifs of 4 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1496. Group TF: AT-Hook TFs /AC: RSP01678//OS: Catharanthus roseus /GENE: ORSA3/RE: JRE (Quant. Seq.) /TF: AT-Hook TFs ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: copper-binding family protein |LOCUS: AT3G48970 |PROD: the same as GENE |complement(18163273..18164360) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +79 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.11 T - 0.34 C - 0.23 1 acactcacac cttttttgtt actatttcac gcgtgctatg ctcttccttt 51 gtctccctat ttcacaaccc aagaaccctt tccataataa cttatactat 101 cataaaatat gaaaatacta atcaaaatat tagtagtatt tattcacaca 151 catatacata atcgaccTAT ATATAtagac acacacactt aggagacttt 201 GTGCACTGCT TCATTCTCTA TAACCAAGTA TAAGCTTGGA GGGGGTTATT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01105 Mean Expected Number 0.001 -strand +45 : +40 CCCCCT AC RSP01237 Mean Expected Number 0.008 -strand -21 : -30 gTCTATATAT AC RSP01237 Mean Expected Number 0.008 -strand -23 : -32 CTaTATATAT Totally 3 motifs of 2 different REs have been found Description of REs found 1023. Group RE: C-rich motif /AC: RSP01105//OS: Spinacia oleracea /GENE: rps22/RE: C-rich motif /TF: unknown 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: AMP-dependent synthetase and ligase family protein |LOCUS: AT3G48990 |PROD: the same as GENE |complement(18169732..18172334) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +55 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.12 T - 0.34 C - 0.24 1 taatcgtaag gatatatatc agcgactccc accgttaaca aaataattaa 51 aaatgaaaac attatgacca cacgatcaat agaaaatccg ctacgatgat 101 aacacgtggc atcatctttt agccattttt tgcttccaca gatactgtag 151 taattgaata taaattTATA AATAtcgcat ttgctctctt ctctgctttc 201 ACATTCTCTC CTTCCTCATC ATCGTTACTC TCGTGTTTAT CTCTCCGACG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00002 Mean Expected Number 0.000 +strand -99 : -91 ACACGTGGC AC RSP00175 Mean Expected Number 0.001 +strand -98 : -91 CACGTGGC AC RSP00204 Mean Expected Number 0.001 +strand -100 : -91 aACACGTGGC AC RSP00219 Mean Expected Number 0.000 +strand -101 : -90 TaACACGTGGCA AC RSP00524 Mean Expected Number 0.006 +strand -99 : -93 ACACGTG AC RSP00709 Mean Expected Number 0.008 -strand -152 : -160 TAATTATTT AC RSP00819 Mean Expected Number 0.001 -strand -91 : -100 GCCACGTgTT AC RSP00915 Mean Expected Number 0.008 -strand +23 : +14 GATGATGAGG AC RSP00936 Mean Expected Number 0.000 -strand -90 : -101 TGCCACGTGTtA AC RSP01034 Mean Expected Number 0.002 +strand -97 : -91 ACGTGGC AC RSP01255 Mean Expected Number 0.001 +strand -99 : -92 ACACGTGG AC RSP01458 Mean Expected Number 0.003 -strand -28 : -40 ATTTAtAAATTTA AC RSP01463 Mean Expected Number 0.002 -strand -28 : -40 ATTTATAaATTTA AC RSP01593 Mean Expected Number 0.000 +strand -100 : -89 aACACGTGGCAT Totally 14 motifs of 14 different REs have been found Description of REs found 2. Group RE: ABRE-3 /AC: RSP00002//OS: Brassica napus /GENE: Oleosin/RE: ABRE-3 /TF: unknown 169. Group RE: ABRE /Group TF: ABF /AC: RSP00175//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: ABRE /TF: ABF ||Identical REs AC: RSP00723 RSP01570 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 212. Group TF: HY5 /AC: RSP00219//OS: Arabidopsis thaliana /GENE: RBCS-1A/RE: G box-1 /TF: HY5 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 675. Group RE: I-box /AC: RSP00709//OS: Pisum sativum /GENE: TOP2/RE: I-box /TF: unknown 765. Group TF: ACE-binding TF /AC: RSP00819//OS: Arabidopsis thaliana /GENE: F3H/RE: ACE-core (AtF3H) /TF: ACE-binding TF 846. Group TF: Opaque-2 /AC: RSP00915//OS: Zea mays /GENE: b-32/RE: B3 /TF: Opaque-2 865. Group TF: GBF /AC: RSP00936//OS: Lycopersicon esculentum /GENE: RbcS-3A/RE: G box /TF: GBF 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1158. Group TF: GBF1 /AC: RSP01255//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS2 /TF: GBF1 1328. Group RE: AT-rich ELS /AC: RSP01458//OS: Glycine max /GENE: BiP9/RE: AT-rich ELS /TF: unknown 1333. Group RE: AT-rich ELS /AC: RSP01463//OS: Glycine max /GENE: BiP6/RE: AT-rich ELS /TF: unknown 1415. Group TF: GBF /AC: RSP01593//OS: Pisum sativum /GENE: rbcS-3.6/RE: G box /TF: GBF ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: proline-rich family protein |LOCUS: AT3G49300 |PROD: the same as GENE |complement(18287802..18288590) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +15 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.14 T - 0.29 C - 0.16 1 tgatattttt tggaaactaa ttactaattt gatgaattat aaatatgttt 51 aaaaataaaa tcgccaaaag atttagtttg aattgtagta aatgcgaaat 101 gcatgtgTCA ATatcatcaa tctgccaaca catttttcca ccaaaacgta 151 actacatgta cacaTATATA TAtagaagcg tgagtccaaa caacaaaact 201 AAAACAAACA AAAAAATGCT TTCAAAGATA AAGCCGGTGG TTCTCATGTC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00792 Mean Expected Number 0.008 +strand -15 : -6 CCAAaCAACA AC RSP01600 Mean Expected Number 0.009 +strand +20 : +27 TTTCAAAG AC RSP01687 Mean Expected Number 0.008 -strand +36 : +30 CGGCTTT Totally 3 motifs of 3 different REs have been found Description of REs found 745. Group RE: DAE /AC: RSP00792//OS: Hordeum vulgare /GENE: Amy32b/RE: DAE /TF: unknown 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown 1505. Group RE: CARE E /AC: RSP01687//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE E /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G49720 |PROD: the same as GENE |complement(18450988..18453182) |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +542 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.23 T - 0.32 C - 0.16 1 tttttttgta ccacggaatc agagaagtgc gtgtcgtttt gaaacttgta 51 cgtgtgtaaa aaacggcaag aagtttgttg gtattctgat taataaatgg 101 acttaaaacg ctgtcgtttt cgtaacagcg cgtcatagac tcgtagccat 151 acgcgctttg tagaggcagg TATAAATAag tagatagcga tattgaagca 201 GTGATATTAA CACTTCGAAG CTTCTTCTTC CTTTAGTAAA TTCAAGTGTG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00120 Mean Expected Number 0.000 -strand -82 : -95 AAACGACAgCGTTT AC RSP00232 Mean Expected Number 0.008 +strand -71 : -62 gCGTCATAGA AC RSP00654 Mean Expected Number 0.009 -strand -168 : -177 CACgCACTTC AC RSP00894 Mean Expected Number 0.007 +strand +39 : +46 AATTCAAG AC RSP01185 Mean Expected Number 0.003 -strand -120 : -131 CCAACAAACTtC Totally 5 motifs of 5 different REs have been found Description of REs found 118. Group RE: Box B /AC: RSP00120//OS: Pisum sativum /GENE: AS1/RE: Box B /TF: unknown 225. Group RE: LS7 /Group TF: TGA2 & NPR1/NIM1 /AC: RSP00232//OS: Arabidopsis thaliana /GENE: PR-1/RE: LS7 /TF: TGA2 & NPR1/NIM1 628. Group RE: CT-B /AC: RSP00654//OS: Spinacia oleracea /GENE: PetH/RE: CT-B /TF: unknown 825. Group TF: Dof family /AC: RSP00894//OS: Solanum melongena /GENE: SmCP/RE: ERE 2 /TF: Dof family 1097. Group RE: box 2 /AC: RSP01185//OS: Petunia hybrida /GENE: chsA/RE: box 2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: bZIP transcription factor family protein |LOCUS: AT3G49760 |PROD: the same as GENE |complement(18466333..18467109) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +85 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.10 T - 0.34 C - 0.22 1 tcatttcctc atcttttggt ctttctcttt tcattcttag aaaaagaaaa 51 tttgaaaaaa agataaaaag aaaaagaaaa gtaaatctaa aaagttatta 101 ggaaaaaccc ccaTCAATat tctactaatg tctgaccaaa atagcctcat 151 gtgtgtattc tctcgtcCAT AAATAtggac ctccaacaat gcaattcttc 201 CCTTTTCCCC TTCTAATCTC TCTCGCATCT CTACATTTTG AGATCATTTT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00445 Mean Expected Number 0.009 +strand -145 : -136 AAAAAAGAtA AC RSP00473 Mean Expected Number 0.000 +strand -53 : -41 CATGTGTGTaTTC AC RSP01499 Mean Expected Number 0.006 +strand +5 : +14 TTCCCCtTCT AC RSP01686 Mean Expected Number 0.010 -strand -46 : -51 CACACA Totally 4 motifs of 4 different REs have been found Description of REs found 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 451. Group TF: Alfin1 /AC: RSP00473//OS: Medicago sativa /GENE: MSPRP2/RE: Alfin1 BS3 /TF: Alfin1 1360. Group RE: CS6 /AC: RSP01499//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS6 /TF: unknown ||Identical REs AC: RSP01500 1504. Group RE: CARE D /AC: RSP01686//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE D /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ATPSK3 |LOCUS: AT3G49780 |PROD: phytosulfokines 3 (PSK3) |18476664..18477361 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +71 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.10 T - 0.39 C - 0.22 1 ttatataatt attactaact aacataaaac tataattcaa taattaaaat 51 ttgagcgata tatatgactc gttttatgac gccataaagg tagttaactt 101 taccctttat aagtttctat ggttcacatt tggcagcatc tcgctatttg 151 tcaactcgtg tatcacTATA AATTcaccta actggcttca tctgctattc 201 ATCCTCACAT CTTATAATTC TCTATCTCTC TTCTCAGGCT CCCATTATCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01205 Mean Expected Number 0.010 +strand -97 : -88 CCTTTaTAAG Totally 1 motifs of 1 different REs have been found Description of REs found 1115. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01205//OS: Arabidopsis thaliana /GENE: AtCRC/RE: EM2 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G49940 |PROD: the same as GENE |18525328..18526460 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +122 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.08 T - 0.40 C - 0.19 1 taaattaaat tcagttaatg ataaaataaa tatattttgt agcaatcatt 51 ctattttgta atttggtagg gctctttaaa ctttgattat tatccaattt 101 ttattaaaat ataataaaat ctcaaagcca tgacccattc cttcactcaa 151 gtatcaatgt ctattgtcTA TAAATAttac ataactcttc ttcttcaacc 201 AAACATTGAA ACACTTTGTC CCACTCTCTC TCTTTCTCTT TCTTGTACCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00749 Mean Expected Number 0.007 +strand -148 : -137 ATTTTGTAATTt AC RSP00861 Mean Expected Number 0.007 -strand +43 : +35 AGAAAGAGA AC RSP00861 Mean Expected Number 0.007 -strand +37 : +29 AGAAAGAGA AC RSP00864 Mean Expected Number 0.003 -strand +33 : +25 AGAGAGAGA Totally 4 motifs of 3 different REs have been found Description of REs found 711. Group TF: GT-1 /AC: RSP00749//OS: Catharanthus roseus /GENE: STR/RE: BN /TF: GT-1 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G50560 |PROD: the same as GENE |complement(18772069..18774994) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +178 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.10 T - 0.34 C - 0.16 1 ctttcaccta gaacacatat attatatata tatagaatat taataattcg 51 ataaaggtat acgtatactt atgcaaattg ttacatcatt gcaatgttaa 101 aattatataA TTGCtatcaa aggaaatgaa acttttctga tataatgaca 151 aagaaaggtg tgtatatatg TATATATAac aaccaaaaat ttatctagtc 201 CACAAGAATA TTTCTCTCTC TCACTCTCTC AACACAATCT TATTAAAGGC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00864 Mean Expected Number 0.001 -strand +21 : +13 AGAGAGAGA AC RSP01094 Mean Expected Number 0.005 +strand -157 : -146 TAATTcGATAAA AC RSP01283 Mean Expected Number 0.000 -strand +28 : +12 GAGAGtGAGAGAGAGAA Totally 3 motifs of 3 different REs have been found Description of REs found 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1012. Group TF: GT-1 /AC: RSP01094//OS: Pisum sativum /GENE: GS2/RE: GT-1 box /TF: GT-1 1180. Group RE: GAGA element /AC: RSP01283//OS: OS: Glycine max /GENE: gsa1/RE: GAGA element /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: MNP |LOCUS: AT3G50870 |PROD: zinc finger (GATA type) family protein |18921971..18923589 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +122 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.11 T - 0.35 C - 0.19 1 gtattttgta attaataaaa cataaaaaag caaggaaaac ccatttgagt 51 aaatgatata ttaatattac ttcgtaaaaa gctgcgtccc cacatattct 101 ATTGAtttta aatactattc gtattaatat aaacctgcat ataagcgtac 151 atatacattt ctgattcTAT ATATAggtgt gagaccttct tctccattct 201 ACACTTCACT CCAACGTGAA ACCTGCAAAC TGAACTTATC TCTTCATATT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00749 Mean Expected Number 0.006 +strand -198 : -187 ATTTTGTAATTA Totally 1 motifs of 1 different REs have been found Description of REs found 711. Group TF: GT-1 /AC: RSP00749//OS: Catharanthus roseus /GENE: STR/RE: BN /TF: GT-1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: LTP12 |LOCUS: AT3G51590 |PROD: lipid transfer protein, putative |complement(19146644..19147654) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +21 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.14 T - 0.29 C - 0.18 1 gtaacaactt cttgaaactc aattaagcga tagggaatgc aacgtattta 51 ctttggaata tgtgtatttt aatcttaatt caacaaaaaa aataaaattt 101 tcattaaatt tgcatgcata tggaactaag cataattaac gggtacgcat 151 gaccttcatg agtgtttcca atTATAAAAT ccctaccgac ctcaacaaag 201 TAAAAGCAAT AAAAAACAAA AATGGCGTTT ACTCCGAAGA TCATCACATG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00107 Mean Expected Number 0.008 -strand -85 : -91 CATGCAA AC RSP00550 Mean Expected Number 0.001 +strand -147 : -137 TGGAaTATGTG Totally 2 motifs of 2 different REs have been found Description of REs found 105. Group RE: RY2 /AC: RSP00107//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY2 /TF: unknown 526. Group RE: CAAT/13 M /AC: RSP00550//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: CAAT/13 M /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G51660 |PROD: the same as GENE |complement(19175042..19176151) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +96 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.15 T - 0.34 C - 0.20 1 cttcgagggc gacgtagctg cggtaattga ttgagtcacg tccccaagtt 51 gtcagatttg aaactcaaag atattatttc aaaaattgtt cacatcaaaa 101 cgaaatttta aaataatgca atACAATaat ttctttcatt aatttttgga 151 cgcgataatt tagctcTATA TATAattggc catgtgagag atcttctctt 201 CCACAACTTC CAAACACCAT TTAAATCCCC TCTCATTTGG TTTCTTGAGA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00036 Mean Expected Number 0.003 +strand +11 : +18 CAAACACC AC RSP00207 Mean Expected Number 0.001 +strand -181 : -173 GCGGTAATT AC RSP00488 Mean Expected Number 0.002 -strand -184 : -193 CTACGTcGCC AC RSP01237 Mean Expected Number 0.001 +strand -37 : -28 CTCTATATAT Totally 4 motifs of 4 different REs have been found Description of REs found 35. Group TF: ABI3 /AC: RSP00036//OS: Brassica napus /GENE: napA/RE: ABRE Bp /TF: ABI3 200. Group TF: GT-2 /AC: RSP00207//OS: Oryza sativa /GENE: PHYA/RE: GTE /TF: GT-2 464. Group RE: UVLRE1 /AC: RSP00488//OS: Glycine max /GENE: chs1/RE: UVLRE1 /TF: unknown 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G51890 |PROD: the same as GENE |complement(19260457..19261942) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +138 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.20 T - 0.24 C - 0.22 1 tctgacggta gtaatcgtat acgtcaaggt ccaccatacg gatgcttttt 51 tgctcaatac aaaacatgac acgtaagcgt acaatcagat tagaggcaga 101 ttcacgatac acacgatgta cccttttcac tgctctcgtg tatttaagct 151 ccaaccaatT ATAAAACgcc gcgtagatcc taagagaaga agaattcgtc 201 GTTACGAAAA CCAGTGTGGA CACAAAGCAG AGCAAAGAAG ACTTTTGTAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00070 Mean Expected Number 0.004 -strand -126 : -133 TACGTGTC AC RSP00142 Mean Expected Number 0.004 +strand -34 : -28 CGCCGCG AC RSP00203 Mean Expected Number 0.005 +strand -183 : -174 TATACGTCAa AC RSP00247 Mean Expected Number 0.006 +strand -133 : -124 GaCACGTAAG AC RSP00254 Mean Expected Number 0.009 +strand -79 : -73 CCTTTTC AC RSP01082 Mean Expected Number 0.001 +strand -55 : -44 AAgCTCCAACCA AC RSP01210 Mean Expected Number 0.005 +strand +42 : +51 CTTTTgTAAG AC RSP01261 Mean Expected Number 0.007 -strand -125 : -132 TTACGTGT AC RSP01660 Mean Expected Number 0.000 -strand -173 : -184 CTTGACGTATAC Totally 9 motifs of 9 different REs have been found Description of REs found 69. Group TF: TRAB1 /AC: RSP00070//OS: Oryza sativa /GENE: Osem/RE: ABRE motif A /TF: TRAB1 138. Group RE: GC-rich motif /AC: RSP00142//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: GC-rich motif /TF: unknown 196. Group TF: ABI5 /AC: RSP00203//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.1 /TF: ABI5 240. Group TF: REB /AC: RSP00247//OS: Oryza sativa /GENE: alpha-globulin/RE: REB1 /TF: REB ||Identical REs AC: RSP00738 247. Group RE: Py box /AC: RSP00254//OS: Hordeum vulgare /GENE: Amy pHV19/RE: Py box /TF: unknown ||Identical REs AC: RSP00676 1000. Group TF: DcMYB1 /AC: RSP01082//OS: Daucus carota /GENE: DcPAL1/RE: box-L4 /TF: DcMYB1 1120. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01210//OS: Lepidium africanum /GENE: LaCRC/RE: EM2 /TF: MADS box TFs 1163. Group TF: GBF1 /AC: RSP01261//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS8 /TF: GBF1 1478. Group TF: STF1/HY5 /AC: RSP01660//OS: Arabidopsis thaliana /GENE: CKX5/6 (At1g75450)/RE: C/A-box /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G52360 |PROD: the same as GENE |19423098..19423896 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +223 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.13 T - 0.33 C - 0.15 1 acaaaaacaa aaaaaaaaaa aaaaggaaga ggtgactaat aatgaatgat 51 gcttttacac ttataaaaag gtcatgacgc atcgattaaa taaataaaat 101 gttgtttgtt tgttgaccaa ataagaaaag caaaattact taaaATTGAt 151 ttttttaaaa aaggcagtgt aTATAAAAAc ctttgtcgtt ctcaaatcct 201 CTCTGTAATT CTGGTTTTTC TTGCAATGCT TCTTCCATTT CTCTCCTCCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00029 Mean Expected Number 0.010 -strand -142 : -149 TGTAAAAG AC RSP00447 Mean Expected Number 0.008 +strand -77 : -68 AGaAAAGCAA AC RSP01741 Mean Expected Number 0.000 +strand -91 : -79 TTgTTGACCAAAT Totally 3 motifs of 3 different REs have been found Description of REs found 28. Group RE: P-box 1 /AC: RSP00029//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 1 /TF: unknown 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 1548. Group TF: WRKY11 /AC: RSP01741//OS: Arabidopsis thaliana /GENE: SIRK/FRK1 (At2g19190)/RE: AtSIRKp (WRKY11) BS3 /TF: WRKY11 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G52470 |PROD: the same as GENE |19461627..19462590 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +101 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.10 T - 0.27 C - 0.20 1 catatagtta aagaaaaaac agtaagatca ttacattttt agaaaagctt 51 atagaccaga gcttaaatgt aacaataaat atacaaattg gtaatggtct 101 taagtctatt agtctatgca caacggatat aaaacgcgca tacatatggc 151 ttttacacac aataataaTA TAAATAtaca caaccatctc tcccatacac 201 ATATTTCTTC CCATCGTCAC TAGTCACGAC CACACAAACA AAAAAAATAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00029 Mean Expected Number 0.009 -strand -44 : -51 TGTAAAAG AC RSP01559 Mean Expected Number 0.008 +strand -67 : -62 ACGCGC Totally 2 motifs of 2 different REs have been found Description of REs found 28. Group RE: P-box 1 /AC: RSP00029//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 1 /TF: unknown 1396. Group TF: AtCAMTA1; AtCAMTA5 /AC: RSP01559//OS: Arabidopsis thaliana /GENE: AVP1/RE: AtCAMTA1/AtCAMTA5 BS /TF: AtCAMTA1; AtCAMTA5 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: UBQ1 |LOCUS: AT3G52590 |PROD: |19516614..19517910 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +32 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.22 T - 0.25 C - 0.19 1 acgagaagtg gtcttttaat gagagagata tctaaaatgt tatcttaaaa 51 gcccactcaa atctcaaggc ataaggtaga aatgcaaatt tggaaagtgg 101 gctgggcctt ttgtggtaaa ggcctgtaac ctagcCCAAT attagcaaaa 151 ccctagacgc gtacattgac ataTATAAAC Ccgcctcctc cttgtttagg 201 GTTTCTACGT GAGAGAAGAC GAAACACAAA AGATGCAGAT CTTCGTGAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00035 Mean Expected Number 0.008 -strand -88 : -94 CAAAAGG AC RSP00060 Mean Expected Number 0.000 +strand -22 : -11 ACcCGCCTCCTC AC RSP00279 Mean Expected Number 0.001 +strand -5 : +4 TTAGGGTTT AC RSP00369 Mean Expected Number 0.001 -strand +4 : -5 AAACCCTAA AC RSP00572 Mean Expected Number 0.006 -strand -27 : -34 ATATGTCA AC RSP01033 Mean Expected Number 0.002 +strand -94 : -85 CCTTTTGTGG AC RSP01303 Mean Expected Number 0.003 -strand +5 : -5 gAAACCCTAA Totally 7 motifs of 7 different REs have been found Description of REs found 34. Group RE: D1 /Group TF: Dof family /AC: RSP00035//OS: Hordeum vulgare /GENE: Al21/RE: D1 /TF: Dof family 59. Group TF: ABF /AC: RSP00060//OS: Zea mays /GENE: rab28/RE: CE3 /TF: ABF 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 548. Group RE: 3'/AT-rich J1 /AC: RSP00572//OS: Lycopersicon esculentum /GENE: rbcS1/RE: 3'/AT-rich J1 /TF: unknown 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G52900 |PROD: the same as GENE |19624098..19625005 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +14 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.21 T - 0.32 C - 0.13 1 gatcatcaga ttggctccac tttaattacg aaattgattt ctttattttt 51 ccttttttac ttttcctttt ggcgggactg cttgctttga ttttggaatg 101 atgtaaaagc aaaGCAATta tgtttgggaa ggtttaagca aaagcaaaag 151 acaagtgaaa gtaAATAAAT Agatattgag agagacatag agactgttgt 201 AACAAGAAAA AAAAATGAGT AGCAAGAATA ACTCCGGAGC TGCTGCAGTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.003 -strand -136 : -147 gAAAAGTAAAAA AC RSP00035 Mean Expected Number 0.009 -strand -130 : -136 CAAAAGG AC RSP00069 Mean Expected Number 0.002 -strand -165 : -175 CAATTTCGTAA AC RSP00115 Mean Expected Number 0.008 -strand -157 : -167 AaAGAAATCAA AC RSP00447 Mean Expected Number 0.007 +strand -93 : -84 AGCAAAGCAA AC RSP00447 Mean Expected Number 0.004 -strand -110 : -119 AtCAAAGCAA AC RSP00749 Mean Expected Number 0.004 -strand -167 : -178 ATTTcGTAATTA AC RSP00859 Mean Expected Number 0.001 +strand -192 : -183 GAtTGGCTCC AC RSP00877 Mean Expected Number 0.000 -strand -125 : -133 CCCGCCAAA AC RSP00988 Mean Expected Number 0.000 -strand -123 : -134 gTCCCGCCAAAA AC RSP01640 Mean Expected Number 0.007 -strand -11 : -20 CTATGTCTCT Totally 11 motifs of 10 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 34. Group RE: D1 /Group TF: Dof family /AC: RSP00035//OS: Hordeum vulgare /GENE: Al21/RE: D1 /TF: Dof family 68. Group RE: Motif j/k /AC: RSP00069//OS: Pisum sativum /GENE: PSPAL2/RE: Motif j/k /TF: unknown 113. Group TF: ATBP-1 /AC: RSP00115//OS: Pisum sativum /GENE: GS2/RE: BOX 1 /TF: ATBP-1 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 711. Group TF: GT-1 /AC: RSP00749//OS: Catharanthus roseus /GENE: STR/RE: BN /TF: GT-1 795. Group RE: GACTGGCTCC motif /AC: RSP00859//OS: Zea mays /GENE: H4C7/RE: GACTGGCTCC motif /TF: unknown 813. Group TF: AtE2F /AC: RSP00877//OS: Arabidopsis thaliana /GENE: MCM3/RE: Site 2 E2F (D2) /TF: AtE2F 909. Group TF: E2F/DP /AC: RSP00988//OS: Zea mays /GENE: RBR3/RE: E2F/DP I /TF: E2F/DP 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: fructose-bisphosphate aldolase, putative |LOCUS: AT3G52930 |PROD: the same as GENE |complement(19637726..19639920) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +68 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.14 T - 0.31 C - 0.28 1 tacccctcag ctaatttgct gagaatccac gctattaagg ggtagaatta 51 agattagcca acattgccaa ttagagatcc aacggctgaa aaagctattt 101 cttggggaac atgcaaagat ctgaccctta attaatattt tcaccaacca 151 atagactctc atccgcagcT ATAAAACcaa cccttttcct ctactggtcc 201 ACCACTCGTC TGCCTTCTTC CGCATCTCTT TTCATTTCTC TCTGATTTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00301 Mean Expected Number 0.008 +strand -89 : -83 TGCAAAG AC RSP01497 Mean Expected Number 0.003 -strand -115 : -124 GCCGTtGGAT Totally 2 motifs of 2 different REs have been found Description of REs found 289. Group RE: PROL box /AC: RSP00301//OS: Oryza sativa /GENE: GluB-1/RE: PROL box /TF: unknown ||Identical REs AC: RSP00882 1359. Group RE: CS5 /AC: RSP01497//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS5 /TF: unknown ||Identical REs AC: RSP01498 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: O-diphenol-O-methyl transferase, putative |LOCUS: AT3G53140 |PROD: the same as GENE |19706621..19708520 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +49 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.12 T - 0.34 C - 0.18 1 gtgttatcat ttcaaatcaa actttcatac agcttgtgtt tgttctccat 51 ttttcagtaa ttacgaaaat caaaatttta tttttttttg aatttctaaa 101 taatagacta aggtctaaaa ccatcccatt ccatatggac cacacgtaac 151 attaacctta aaaaccaTAT AAAACcatat aaaaccaata ctagtgggtt 201 CTATAGCGAT GTGTAGTTTC ACTTTCACGT ACGAGGAAGA TTAAAAAAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00072 Mean Expected Number 0.007 -strand +32 : +26 GTACGTG AC RSP01013 Mean Expected Number 0.006 -strand -148 : -157 aAAATGGAGA AC RSP01261 Mean Expected Number 0.005 -strand -52 : -59 TTACGTGT Totally 3 motifs of 3 different REs have been found Description of REs found 71. Group RE: ACGT box /AC: RSP00072//OS: Oryza sativa /GENE: GluB-1/RE: ACGT box /TF: unknown 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 1163. Group TF: GBF1 /AC: RSP01261//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS8 /TF: GBF1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: CP29 |LOCUS: AT3G53460 |PROD: 29 kDa ribonucleoprotein |complement(19830188..19832483) |SUPPORT | 5 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +82 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.12 T - 0.35 C - 0.17 1 caatgctatt tttatatttt atgtaacaaa gtaactttta tttttaccaa 51 ctcttttgac tgacacagat tttagtaggt aaaaaaaaaa tccaagtggg 101 agatatttca agtggataaa gatttttatt ttttgcaaag aaaaaacgaa 151 aagttccatt ttttttgccA ATAAATAtca aaaactggac ttgttatctc 201 GCAGAACCCT TAAACCTTAT CTCTTCACCA CCAGCTTCTC AAAGCTTTAG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00093 Mean Expected Number 0.007 -strand -83 : -89 TATCCAC AC RSP00122 Mean Expected Number 0.001 -strand -99 : -105 CTCCCAC AC RSP00125 Mean Expected Number 0.009 +strand -82 : -71 AAgATTTTTATT AC RSP00301 Mean Expected Number 0.010 +strand -67 : -61 TGCAAAG AC RSP00314 Mean Expected Number 0.001 -strand -100 : -110 TCCcACTTGGA AC RSP00489 Mean Expected Number 0.004 -strand -120 : -129 TACCTACtAA AC RSP00522 Mean Expected Number 0.003 -strand -86 : -92 CCACTTG AC RSP00522 Mean Expected Number 0.003 -strand -102 : -108 CCACTTG AC RSP01056 Mean Expected Number 0.005 -strand -163 : -173 AAaGTTACTTT Totally 9 motifs of 8 different REs have been found Description of REs found 91. Group RE: TATCCAC box /AC: RSP00093//OS: Hordeum vulgare /GENE: Amy pHV19/RE: TATCCAC box /TF: unknown ||Identical REs AC: RSP01050 120. Group RE: Box C /AC: RSP00122//OS: Pisum sativum /GENE: AS1/RE: Box C /TF: unknown 123. Group RE: AT-1 (3) /AC: RSP00125//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (3) /TF: unknown ||Identical REs AC: RSP00133 RSP00788 289. Group RE: PROL box /AC: RSP00301//OS: Oryza sativa /GENE: GluB-1/RE: PROL box /TF: unknown ||Identical REs AC: RSP00882 300. Group TF: RSG /AC: RSP00314//OS: Arabidopsis thaliana /GENE: GA3/RE: rbe /TF: RSG 465. Group RE: UVLRE2 /AC: RSP00489//OS: Glycine max /GENE: chs1/RE: UVLRE2 /TF: unknown 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 976. Group TF: GT-3a /AC: RSP01056//OS: Arabidopsis thaliana /GENE: cab2/RE: GT-3a Box III (3) /TF: GT-3a ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: aldo/keto reductase family protein |LOCUS: AT3G53880 |PROD: the same as GENE |19964151..19966268 |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +65 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.13 T - 0.34 C - 0.22 1 aattaattcg taatattaca agaccagttt gtccaaattt tggtacatcc 51 atcgaattaa ctaatcgtaa ttactaatta ctaattactc tcatcacatg 101 aaatatgaaa acacaagtat ttgcgtttag ttatatccac gtgtttgaat 151 actaaccgtc tgttgtTATA AAACtccgac gattttcccg ctccgtcgac 201 ACAAACCTCC TCCGTCTTTC GTAAAAGGTT CTCGAGATCT AAGTCTCACT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00015 Mean Expected Number 0.003 +strand -17 : -10 TTTCCCGC AC RSP00340 Mean Expected Number 0.004 +strand -65 : -56 TCCACGTGTt AC RSP00524 Mean Expected Number 0.007 -strand -57 : -63 ACACGTG AC RSP01104 Mean Expected Number 0.006 +strand +3 : +10 AAACCTCC AC RSP01255 Mean Expected Number 0.002 -strand -57 : -64 ACACGTGG AC RSP01722 Mean Expected Number 0.000 +strand -66 : -55 ATCCACGTGTtT Totally 6 motifs of 6 different REs have been found Description of REs found 14. Group TF: E2F1 /AC: RSP00015//OS: Arabidopsis thaliana /GENE: AtCDC6/RE: E2F1-BE /TF: E2F1 ||Identical REs AC: RSP00165 RSP00298 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 1022. Group RE: AC2 /AC: RSP01104//OS: Spinacia oleracea /GENE: rps22/RE: AC2 /TF: unknown 1158. Group TF: GBF1 /AC: RSP01255//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS2 /TF: GBF1 1530. Group RE: G-box /Group TF: STF1/HY5 /AC: RSP01722//OS: Arabidopsis thaliana /GENE: IAA17/AXR3 (At1g04250)/RE: G-box /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G53980 |PROD: the same as GENE |complement(19998557..19999247) |SUPPORT | 2 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +66 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.10 T - 0.29 C - 0.25 1 accatccgat ttgataatcc caaataagaa ttatgaggtt tgttcagtga 51 tccctaagac atcaacacct ggaacttatg ttgttggtaa gaacactacc 101 tccctcactc aactcaagtg cttattccac tatctcttca gtgcctcaaa 151 tttccacaca attttccgct aTATAAACCa aacattcact aattgaattc 201 AAACACACAA CTAACAAACA AAAAAACACA AATCTTGGTT CATTTAAAAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00040 Mean Expected Number 0.005 -strand -157 : -163 AACAAAC AC RSP01103 Mean Expected Number 0.001 -strand -160 : -167 AAACCTCA AC RSP01109 Mean Expected Number 0.010 -strand -167 : -174 ATAATTCT AC RSP01520 Mean Expected Number 0.007 -strand -162 : -167 ACCTCA Totally 4 motifs of 4 different REs have been found Description of REs found 39. Group RE: AACA box (D) /AC: RSP00040//OS: Oryza sativa /GENE: GluB-1/RE: AACA box (D) /TF: unknown 1021. Group RE: AC1 /AC: RSP01103//OS: Spinacia oleracea /GENE: rps22/RE: AC1 /TF: unknown 1027. Group RE: rAT-2 /AC: RSP01109//OS: Spinacia oleracea /GENE: rps22/RE: rAT-2 /TF: unknown 1371. Group TF: HBP-1a /AC: RSP01520//OS: Triticum aestivum /GENE: H2B (TH 123)/RE: Hex123-a /TF: HBP-1a ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: protein kinase family protein |LOCUS: AT3G54030 |PROD: the same as GENE |20021931..20024671 |SUPPORT | 9 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +209 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.18 T - 0.29 C - 0.13 1 agtttttggg ggttaaagtt ccgccggctt tagtatttta ccatgtattc 51 ctcccttgta tttcaccttt ggatcaatct tatgaattat tcagaggaaa 101 aagaaaaaaa aaaaaaagaa tttaaaaATT GCcaaagttt tgtggaaaaa 151 caactttcgg ataaaaaaca TTTAAATAtt aatttagaaa agaaaaaaac 201 AATTCTCTTT GTAGAGGGAA GTCTGAAAAC GCCGAGAAGA AGACGAAGAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00104 Mean Expected Number 0.010 +strand -160 : -154 CCATGTA AC RSP00566 Mean Expected Number 0.008 +strand -147 : -138 CCTTGTATtT AC RSP01202 Mean Expected Number 0.001 -strand -129 : -136 CCAAAGGT AC RSP01687 Mean Expected Number 0.003 +strand -176 : -170 CGGCTTT Totally 4 motifs of 4 different REs have been found Description of REs found 102. Group RE: RY1 /AC: RSP00104//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY1 /TF: unknown 542. Group RE: TATA P /AC: RSP00566//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: TATA P /TF: unknown 1113. Group TF: NIT2 /AC: RSP01202//OS: Chlorella vulgaris /GENE: NR/RE: NIT2 BS III /TF: NIT2 1505. Group RE: CARE E /AC: RSP01687//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE E /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G54140 |PROD: the same as GENE |complement(20056641..20059550) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +418 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.18 T - 0.28 C - 0.21 1 acacgtcctt cgatattgat ctatttacac tttggagtca aaacaagata 51 atatcaaaat ctgatagcac aataggcctt gcggctctaa ctgaaatata 101 caaaaactca aagggttaaa ctgcaaacat gagaagaaaa gtgagcaacg 151 ctcctttcta tttccttgga TATAAAAGct gtacgggacc agagctctgc 201 AAGTCTTTTT TATAAGCTCA TGCTCATTAT TACTCCGACA AGTGCCGTGT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00056 Mean Expected Number 0.004 -strand +46 : +37 GgCACTTGTC AC RSP00405 Mean Expected Number 0.003 +strand -170 : -163 TTTGGAGT AC RSP01621 Mean Expected Number 0.007 +strand -175 : -166 TACACTTTgG Totally 3 motifs of 3 different REs have been found Description of REs found 55. Group TF: ABI3 /AC: RSP00056//OS: Brassica napus /GENE: napA/RE: ABRE Bd /TF: ABI3 387. Group RE: adjb /AC: RSP00405//OS: Nicotiana tabacum /GENE: RNP2/RE: adjb /TF: unknown 1441. Group TF: GmDof4; GmDof22 /AC: RSP01621//OS: Glycine max /GENE: Synthetic OLIGO/RE: E4 /TF: GmDof4; GmDof22 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: embryo-abundant protein-related |LOCUS: AT3G54150 |PROD: the same as GENE |complement(20061622..20063759) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +39 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.18 T - 0.27 C - 0.15 1 ctatatactg actattttgt cttcgacaaa aaatatatta aaacaaaaaa 51 gtcttaaacg acgtcttagg aaggacttgc agtgaaactt tacctcacgc 101 caagttggac ttggttaaac tttttcataa tatattaata gaaacaagac 151 tattcaagac tcgagagagT TTAAATAgaa aacgaattag ttgtgtattc 201 AAACCAAGGA AAGAAAACGA GAGAGGTACG TAGAAGAAAA TGGCTGCCTT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00314 Mean Expected Number 0.002 -strand -92 : -102 TCCAACTTGGc Totally 1 motifs of 1 different REs have been found Description of REs found 300. Group TF: RSG /AC: RSP00314//OS: Arabidopsis thaliana /GENE: GA3/RE: rbe /TF: RSG ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: aspartyl protease family protein |LOCUS: AT3G54400 |PROD: the same as GENE |complement(20151036..20153620) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +43 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.12 T - 0.24 C - 0.23 1 gcgcatgtcg atagagaaga gagccaatat tagtgtggac ccaaaaaaca 51 gatagaaaca acgaaaaaat aggagatgga atacagactg ttctctctac 101 gatatacaaa accccactct tcatttttat attcttatta ctttctacac 151 actcatcgta tatcactcac taTATAAACA cacactcaca cattcactct 201 ACAAACACTA GAAACCACAA AGACAAAATC AAGGTCTTAA ACAATGAGAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00038 Mean Expected Number 0.005 -strand -19 : -30 TGTGtTTATATA AC RSP00439 Mean Expected Number 0.007 +strand -72 : -65 ATATTCTT AC RSP00999 Mean Expected Number 0.008 +strand -34 : -24 TCACTATaTAA AC RSP01014 Mean Expected Number 0.003 -strand -74 : -83 aAAATGAAGA Totally 4 motifs of 4 different REs have been found Description of REs found 37. Group TF: GT-1 related TFs /AC: RSP00038//OS: Lycopersicon esculentum /GENE: LAT52; LAT56;/RE: 52/56 box /TF: GT-1 related TFs 419. Group RE: -624-box /AC: RSP00439//OS: Arabidopsis thaliana /GENE: PR-1/RE: -624-box /TF: unknown 920. Group TF: 3AF3 /AC: RSP00999//OS: Nicotiana tabacum /GENE: rbcS-3A/RE: 3'-III element /TF: 3AF3 939. Group TF: GAPF /AC: RSP01014//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 2 /TF: GAPF ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: PIP2;5/PIP2D |LOCUS: AT3G54820 |PROD: aquaporin, putative |20312999..20314988 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +96 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.08 T - 0.24 C - 0.27 1 aatgaattaa atcagtcatt ctacagaaaa ttaatcaccg tagtcggttg 51 ccatcattcc aaaaccttaa aaaaaaccca tgtaaaatga tcattaacaa 101 caacaacaac aacaaccaaa ccaacaaaaa ttaaagtaaa aacagagtcc 151 aaagcctcgt cacatctgcc CATAAATAcc cttcaccgac tcaccatctt 201 ACCACATCAA TTCTCTCATA TCTCTCTCTC ACTTTCGAAT ATATCTTAAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00400 Mean Expected Number 0.002 +strand -156 : -151 CGGTTG AC RSP00422 Mean Expected Number 0.002 -strand -153 : -158 ACCGAC AC RSP00680 Mean Expected Number 0.007 +strand -61 : -52 aAACAGAGTC AC RSP00864 Mean Expected Number 0.001 -strand +29 : +21 AGAGAGAGA Totally 4 motifs of 4 different REs have been found Description of REs found 382. Group TF: Myb /AC: RSP00400//OS: Nicotiana tabacum /GENE: RNP2/RE: Myba /TF: Myb 403. Group RE: DRE2 /AC: RSP00422//OS: Zea mays /GENE: rab17/RE: DRE2 /TF: unknown ||Identical REs AC: RSP00951 RSP01036 RSP01548 RSP01564 649. Group RE: GARE/Box 2 /AC: RSP00680//OS: Hordeum vulgare /GENE: Amy32b/RE: GARE/Box 2 /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: glycosyl hydrolase family 20 protein |LOCUS: AT3G55260 |PROD: the same as GENE |20500226..20504053 |SUPPORT | 15 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +68 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.12 T - 0.30 C - 0.19 1 tatcatatgg taattaatgt atcaatcaat gcacattctg atactaatca 51 gaacacaaaa gattttgaat tcatcggaac taaacacaca caccttagta 101 agagttaaga aatatgtttc caccgaacta acagaaacat gataccaact 151 caagttggtt gttcgtgtAA TAAATAaaaa ttgaatcttt cgactaaaac 201 AAAGTTTATC TTCTTCTTCT TCTTATGTGA CAAGAACGAA CAATCCTCCA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00698 Mean Expected Number 0.005 +strand -135 : -125 TGAATTcATCG AC RSP00858 Mean Expected Number 0.006 +strand -192 : -185 GGTAATTA AC RSP01136 Mean Expected Number 0.010 -strand +32 : +26 TGTCACA Totally 3 motifs of 3 different REs have been found Description of REs found 664. Group RE: Box III /AC: RSP00698//OS: Brassica oleracea /GENE: SLG13/RE: Box III /TF: unknown 794. Group TF: DF1 /AC: RSP00858//OS: Pisum sativum /GENE: pra2/RE: GT2 /TF: DF1 1054. Group RE: TGTCACA motif /AC: RSP01136//OS: Cucumis melo /GENE: Cucumisin/RE: TGTCACA motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G55700 |PROD: the same as GENE |20682094..20684351 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +87 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.15 T - 0.30 C - 0.19 1 taaaactgtg agacaagaga aagaaaattt gttgcatgca ggtaaacaat 51 cttggacagg aagttctcac aagtcaaagt cagcgagcaa acgattttat 101 tctcttttca catgttgcta tgacagctgT CAATttgtaa ttggatcatg 151 agtgtcataa ttCATAAATA taagctatgc tcatgtaacc gtaaaccctt 201 AACGACAAAT TAATTAAACT TCTCCAAAAC TCTTTTCCTC TAAAAAATCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00304 Mean Expected Number 0.004 +strand -80 : -73 TGACAGCT AC RSP00304 Mean Expected Number 0.005 -strand -69 : -76 TGACAGCT AC RSP00860 Mean Expected Number 0.004 +strand -183 : -175 AGAAAGAAA AC RSP01641 Mean Expected Number 0.006 -strand -183 : -192 TCTTGTCTCa Totally 4 motifs of 3 different REs have been found Description of REs found 291. Group TF: KN1/KIP /AC: RSP00304//OS: Zea mays /GENE: Synthetic OLIGO/RE: KN1/KIP BS /TF: KN1/KIP 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G55840 |PROD: the same as GENE |complement(20727974..20729845) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +50 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.09 T - 0.36 C - 0.22 1 aaagaaaaat aaaaccgaca caaaaatgca aaaaagacag gaaacagccg 51 ttgttgtacg ttgactttca aaaactatga tctttgttta tctctaattt 101 tccgcataat gacgtctccc ttctttttcc tatccgtttc cttcacatct 151 ctctctttat ccttccTATA TATAtcgcaa acgtttttcc tctcattctt 201 AAATATATTC ATCAAATAAA CAAAAATCTC TGTATTTTTT TTTAAAAAAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00445 Mean Expected Number 0.006 +strand -171 : -162 AAAAAAGAcA AC RSP00864 Mean Expected Number 0.003 -strand -45 : -53 AGAGAGAGA AC RSP01654 Mean Expected Number 0.002 +strand -93 : -84 AATGACGTCT Totally 3 motifs of 3 different REs have been found Description of REs found 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1472. Group TF: STF1/HY5 /AC: RSP01654//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: STF1/HY5 BS (cons) /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: CCH |LOCUS: AT3G56240 |PROD: |complement(20874236..20875470) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +89 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.13 T - 0.39 C - 0.21 1 tgtactttct gttagtggat tttaaagttg gtaagctttt ttccacatca 51 ggtataacta accttcctaa acctttatac tttattattg gaaatatggt 101 aaatgcacta attcataatg ttctcgtttc ctttacgcta acttctccga 151 atctttgctt ttgcgttacT ATAAATAttc agaagacacc atttcttctc 201 ATTCAACAAA CAAGCATCTC ATTCTCTGAT TCGGTCCATC GATCTCAAAG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00160 Mean Expected Number 0.001 +strand -184 : -173 GGATTTTAaAGT AC RSP00642 Mean Expected Number 0.006 +strand -101 : -94 TAAATGCA AC RSP00837 Mean Expected Number 0.005 -strand +45 : +36 AGATCGAtGG AC RSP00874 Mean Expected Number 0.007 +strand -181 : -171 TTTTAAAGTtG AC RSP01058 Mean Expected Number 0.002 +strand -188 : -181 TAGTGGAT AC RSP01296 Mean Expected Number 0.005 +strand -32 : -24 CTATAAATA Totally 6 motifs of 6 different REs have been found Description of REs found 155. Group TF: DF1 /AC: RSP00160//OS: Pisum sativum /GENE: pra2/RE: DE1 /TF: DF1 617. Group RE: L1-box /AC: RSP00642//OS: Arabidopsis thaliana /GENE: PDF1/RE: L1-box /TF: unknown 782. Group RE: NON /AC: RSP00837//OS: Arabidopsis thaliana /GENE: H4A748/RE: NON /TF: unknown 810. Group TF: Dof3 /AC: RSP00874//OS: Zea mays /GENE: Synthetic oligonucleotids/RE: Dof3 BSopt /TF: Dof3 978. Group TF: GT-3a /AC: RSP01058//OS: Brassica napus /GENE: extA/RE: GT-3a Box III /TF: GT-3a 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G57020 |PROD: the same as GENE |complement(21109294..21111338) |SUPPORT | 3 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +56 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.15 T - 0.32 C - 0.20 1 gtttcaatct aaaaactaac atcgtcgcct tcgttgaatc aatgcatgga 51 ttcgtcgcag catttattct ttattagaca actggccctt caagcgaaat 101 gagggatacg tgtatatata tgcatccaca taaACAATaa gaaaaatata 151 acccttattt ttggatgtta TATAAAATtg ctttacctat atgtgagcta 201 GCAACATTTA CTCATACATA CCAACAGTCA ACAATATCTC TTGTTCCGGC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00056 Mean Expected Number 0.002 -strand -115 : -124 GCCAgTTGTC AC RSP00211 Mean Expected Number 0.009 -strand -60 : -70 CTtATTGTTTA AC RSP00331 Mean Expected Number 0.006 -strand -148 : -156 GAATCCATG AC RSP00349 Mean Expected Number 0.001 -strand -151 : -159 TCCATGCAT AC RSP00778 Mean Expected Number 0.003 +strand -166 : -157 TGAATCAATG AC RSP01274 Mean Expected Number 0.002 -strand -87 : -96 TaCACGTATC AC RSP01288 Mean Expected Number 0.004 +strand -95 : -88 ATACGTGT Totally 7 motifs of 7 different REs have been found Description of REs found 55. Group TF: ABI3 /AC: RSP00056//OS: Brassica napus /GENE: napA/RE: ABRE Bd /TF: ABI3 204. Group TF: HD /AC: RSP00211//OS: Petroselinum crispum /GENE: pr2/RE: HD-BS /TF: HD 317. Group TF: S1F /AC: RSP00331//OS: Spinacia oleracea; Pisum sativum; Arabidopsis thaliana; /GENE: prs 1 and RPL21 (spinach), rbcS-3a (pea, tomato, Arabidopsis),/RE: S1, consensus /TF: S1F 334. Group TF: VP1 (VIVAPAROUS1) /AC: RSP00349//OS: Zea mays, Zea mays /GENE: C1/RE: Sph-core /TF: VP1 (VIVAPAROUS1) 733. Group RE: Box III /AC: RSP00778//OS: Arabidopsis thaliana /GENE: AtS1/RE: Box III /TF: unknown 1173. Group RE: ACE 1 /AC: RSP01274//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 1 /TF: unknown 1185. Group RE: Z-DNA-motif /AC: RSP01288//OS: Arabidopsis thaliana /GENE: cab1/RE: Z-DNA-motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: CBL |LOCUS: AT3G57050 |PROD: cystathionine beta-lyase |complement(21122679..21125641) |SUPPORT | 13 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +141 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.28 G - 0.18 T - 0.32 C - 0.22 1 tgtatcaaat ttcctttttc ttgtcagttt cactgacgaa tatattagtg 51 gcctcatggg tacttaagag ttaagactaa gagtaggtgt acacctactt 101 tcctccacgt gttataacca gaccagattt atttcggttt tgtcttatcg 151 taTCTAAATA aaccgaaaga aaccaaaacc gagacttaaa gccgagagac 201 CTTCGGTTTC TCTTCAGTCG TCTCTACTCT CACTTGAGCA CGAGAACTGT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00340 Mean Expected Number 0.006 +strand -97 : -88 TCCACGTGTt AC RSP00421 Mean Expected Number 0.008 +strand -23 : -17 ACCGAGA AC RSP01255 Mean Expected Number 0.002 -strand -89 : -96 ACACGTGG AC RSP01687 Mean Expected Number 0.008 -strand -7 : -13 CGGCTTT Totally 4 motifs of 4 different REs have been found Description of REs found 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 402. Group RE: DRE1 /AC: RSP00421//OS: Zea mays /GENE: rab17/RE: DRE1 /TF: unknown 1158. Group TF: GBF1 /AC: RSP01255//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS2 /TF: GBF1 1505. Group RE: CARE E /AC: RSP01687//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE E /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G57090 |PROD: the same as GENE |21139509..21141167 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +97 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.18 T - 0.31 C - 0.16 1 tatctagttg ttatgaatct tgtaaattta ttggaaaaaa tcagtaatac 51 accatcacat gtcacagaag ttttttattc caaagggttg ttaataacaa 101 aacagaagat atggtgatca atgtgggtaa gtcttaACAA Tacaggggtc 151 ttgttgataa attcaaggGA TAAATAtcgt ctgtttccct gagcttgggc 201 AACAAGTCCA ACTTCTCTCC TTAAGAAACT CTCCTTAAGA ATTAAGAAAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00319 Mean Expected Number 0.002 +strand -98 : -90 CAGAAGATA AC RSP00872 Mean Expected Number 0.008 -strand -133 : -142 TcTGTGACAT AC RSP00881 Mean Expected Number 0.009 -strand -106 : -115 ATtAACAACC Totally 3 motifs of 3 different REs have been found Description of REs found 305. Group TF: R-GATA /AC: RSP00319//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: GATA motif /TF: R-GATA 808. Group RE: GLM2 /AC: RSP00872//OS: Triticum aestivum /GENE: LMWG-1D1/RE: GLM2 /TF: unknown 817. Group TF: Dof family /AC: RSP00881//OS: Hordeum vulgare /GENE: Al21/RE: M2 /TF: Dof family ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: BGL2 |LOCUS: AT3G57260 |PROD: glycosyl hydrolase family 17 protein |complement(21199496..21200838) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +37 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.18 T - 0.32 C - 0.13 1 cttgtgtaga aaactcatat tgttagactt ttcaaagcgt atatttagag 51 agttatttgt gaattataat ggtgattaag gtgaaacata acaaaacaga 101 tgatattgat agatcatttg atttcattcA TTGActgact tgcacagttg 151 caccccaggc ttggctcTAT AAATTaggcg gtaaatggaa tgattaaaac 201 ATATCATTTT TCACAGAATC ATAGAAAAAT CAAGAAAATG TCTGAATCAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01600 Mean Expected Number 0.010 +strand -171 : -164 TTTCAAAG Totally 1 motifs of 1 different REs have been found Description of REs found 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: BG1 |LOCUS: AT3G57270 |PROD: glycosyl hydrolase family 17 protein |complement(21202216..21204168) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +71 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.28 G - 0.10 T - 0.45 C - 0.17 1 tctctgtctc tgattatgta gcttaccata tattacacca ttgtattaat 51 tattcagaga ttaccaactc attattttat cttgttgcct aattccgtgt 101 attaatttta gtttcatATT GAcattttac atttggttat atattaatgt 151 tctttctcta gaatttacTA TATATAttgt ttatgctagc taggatcaat 201 GTCATAACAG TAAATGATTT CCACCTCGCT CTTAATTTTC TACAAATCAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00038 Mean Expected Number 0.002 +strand -69 : -58 TtTGGTTATATA AC RSP00235 Mean Expected Number 0.001 -strand -152 : -163 TTAATaCAATGG AC RSP00503 Mean Expected Number 0.001 +strand -15 : -8 CTAGCTAG AC RSP00503 Mean Expected Number 0.001 -strand -8 : -15 CTAGCTAG Totally 4 motifs of 3 different REs have been found Description of REs found 37. Group TF: GT-1 related TFs /AC: RSP00038//OS: Lycopersicon esculentum /GENE: LAT52; LAT56;/RE: 52/56 box /TF: GT-1 related TFs 228. Group TF: LFU; WUS /AC: RSP00235//OS: Arabidopsis thaliana /GENE: AGAMAOUS (AG)/RE: LBS/WBS1 /TF: LFU; WUS 479. Group TF: RITA-1 /AC: RSP00503//OS: Nicotiana tabacum /GENE: Ntltp1/RE: D1 box /TF: RITA-1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G57450 |PROD: the same as GENE |21272911..21273599 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +94 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.45 G - 0.17 T - 0.19 C - 0.19 1 aagattacaa agagatagag aatcaaaaaa aggaaagaat taaggggcaa 51 atatgaaata attaaaaaca agggagccaa aggaacaatg taagaaaagc 101 aataaaatta aaaacaaaac cctcaaaaag aagaaagcgg agactcgtta 151 gctttttcct gcctccTATA AATTgaacgc gacttgcaga acctttcctc 201 ATCGTCTCCG TCTCCTCTCT CTCTATCCAC GAGAAAGAGC AGAAAAAAAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00710 Mean Expected Number 0.003 -strand -137 : -149 TAATTATTTCaTA AC RSP00864 Mean Expected Number 0.000 -strand +24 : +16 AGAGAGAGA Totally 2 motifs of 2 different REs have been found Description of REs found 676. Group RE: AT1-box /AC: RSP00710//OS: Pisum sativum /GENE: TOP2/RE: AT1-box /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: DEAD box RNA helicase, putative (RH11) |LOCUS: AT3G58510 |PROD: the same as GENE |21650955..21654772 |SUPPORT | 7 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +630 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.10 T - 0.42 C - 0.11 1 ttacatataa gttgaatcgt ttttaagtta gatacaatta aattcagaat 51 aaacaatttt aaagttctaa agatttaagt gtaaatttgt ttccccaata 101 attATTGTat atatgttttt ctcaaactct tatgagtgta tataattaga 151 ttttaaatca attcttaaaa TATAAAACaa gctaatctca ttatcatacc 201 ATATTTTTGG CTTAAGGTCA TTTTGAAGAT TAATAACATG TCTATTTTAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00574 Mean Expected Number 0.008 +strand -156 : -149 CAGAATAA Totally 1 motifs of 1 different REs have been found Description of REs found 550. Group RE: AT-rich K /AC: RSP00574//OS: Lycopersicon esculentum /GENE: rbcS1/RE: AT-rich K /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ethylene-responsive transcriptional coactivator |LOCUS: AT3G58680 |PROD: the same as GENE |21718253..21719881 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +91 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.14 T - 0.33 C - 0.18 1 tttttagtta atatagagat caaatttggg ccaaaattat ctacgagaaa 51 gtctgtctca actatccaaa gttaaagata ttttcgctga gaagttaaaa 101 ataatatttc gatgggccct TCAATcttag ctaatttact aaagtaaccc 151 ttgtcgaaaa atcaaaaaTA TAAAATcgca aaacgaacac ggcttagttt 201 ATCTTCTTGT CTCTCTCTCA TTTCTTGTTA TTATCCACGA ACGAAGAAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00442 Mean Expected Number 0.009 -strand -127 : -136 TAACTTTGGA AC RSP00864 Mean Expected Number 0.001 -strand +18 : +10 AGAGAGAGA AC RSP01641 Mean Expected Number 0.004 +strand +5 : +14 TCTTGTCTCT Totally 3 motifs of 3 different REs have been found Description of REs found 422. Group TF: Dof1 /AC: RSP00442//OS: Zea mays /GENE: cyPPDK1/RE: box b /TF: Dof1 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: pfkB-type carbohydrate kinase family protein |LOCUS: AT3G59480 |PROD: the same as GENE |21993998..21995572 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +82 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.07 T - 0.35 C - 0.21 1 ccaaatcata acatatatgt aaacaaccaa tagaatatta cgattaaaaa 51 ataagttacc aaacacagtt tagatatctt atctgatcaa tctttaaatg 101 gataaatttg aatttgtatt aattaaaagt cttgtggatt tgactaaacc 151 actcacccta atacctctaT ATAAACCctt gattctctct aatacctctc 201 ATTATATCCA AAACATAATC TCTCTCTATC TCTCTCTATT TTGCTCAATC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00282 Mean Expected Number 0.008 -strand -97 : -103 TATCCAT AC RSP00864 Mean Expected Number 0.003 -strand +37 : +29 AGAGAGAGA AC RSP00864 Mean Expected Number 0.003 -strand +27 : +19 AGAGAGAGA AC RSP01053 Mean Expected Number 0.008 -strand -118 : -126 GATAAGATA AC RSP01094 Mean Expected Number 0.002 +strand -106 : -95 TAAaTGGATAAA Totally 5 motifs of 4 different REs have been found Description of REs found 273. Group RE: Amylase-element /AC: RSP00282//OS: Oryza sativa /GENE: Amy3D/RE: Amylase-element /TF: unknown ||Identical REs AC: RSP00675 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 973. Group TF: HvMCB1 /AC: RSP01053//OS: Hordeum vulgare /GENE: ITR1/RE: GATA-core /TF: HvMCB1 1012. Group TF: GT-1 /AC: RSP01094//OS: Pisum sativum /GENE: GS2/RE: GT-1 box /TF: GT-1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: kelch repeat-containing F-box family protein |LOCUS: AT3G59940 |PROD: the same as GENE |22153877..22155301 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +109 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.28 G - 0.15 T - 0.39 C - 0.18 1 acttgtcgag tgtctagatc acactattgg tttgaattcg taattttact 51 gtattcttgt ttgtttgttt tcggaaaata tctataacaa aataagtgat 101 aataatagaa gaagaaaaga cgataattat ctagggaccg ttttgttcag 151 tgtcttcttt atcttctttg tTATAAAAGc ctctttgcca cttctcttac 201 CAATAGCATC TCCTTCAGTG TCTCTTACAG TTTCCGATCT ATCCAAATCA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00056 Mean Expected Number 0.004 +strand -14 : -5 GCCACTTcTC Totally 1 motifs of 1 different REs have been found Description of REs found 55. Group TF: ABI3 /AC: RSP00056//OS: Brassica napus /GENE: napA/RE: ABRE Bd /TF: ABI3 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: tRNA-binding region domain-containing protein |LOCUS: AT3G59980 |PROD: the same as GENE |complement(22165221..22166618) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +71 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.17 T - 0.30 C - 0.16 1 tcgtcgttaa cacaagcttt gaatcctttt ataaaaagct tcagtgcctc 51 tgttaaaaaa aaactatgta tttgccatga acatgaattt gctcatcaat 101 cttactagaa gttgATTGAt aaagctcctt gctttggaga attggtaaag 151 ctactaattt gacaagatca TATAAAAAga tatataaata cagatatggt 201 AAAGAAGAGA GAACACTGGG ATCACACAGA GATCTTAGCC AATAGACTTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00653 Mean Expected Number 0.003 -strand +13 : +3 TTCTCTCTtCT AC RSP00680 Mean Expected Number 0.007 -strand -146 : -155 TAACAGAGgC AC RSP01636 Mean Expected Number 0.001 -strand -62 : -72 CTCCAAAGCAA AC RSP01638 Mean Expected Number 0.001 -strand -62 : -72 CTCCAAAGCAA Totally 4 motifs of 4 different REs have been found Description of REs found 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 649. Group RE: GARE/Box 2 /AC: RSP00680//OS: Hordeum vulgare /GENE: Amy32b/RE: GARE/Box 2 /TF: unknown 1456. Group RE: TERE /AC: RSP01636//OS: Arabidopsis thaliana /GENE: XCP2/RE: TERE /TF: unknown 1458. Group RE: TERE /AC: RSP01638//OS: Arabidopsis thaliana /GENE: AGP/RE: TERE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: MAP2B |LOCUS: AT3G59990 |PROD: methionyl aminopeptidase |complement(22166696..22169706) |SUPPORT | 12 exon(s) |Alternative mRNAs: 3 | -200:+51 from mRNA start|,5"-UTR: +178 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.42 G - 0.16 T - 0.26 C - 0.16 1 gtaaaaagtt aacttaacaa aaacttcaaa agcaaaaaag aaaattaaca 51 taagaataag atataggcac cgccaatcgt ttagagaata tttacaagaa 101 accaagcccg acccattaag aaattttggt aaggcccatt aattaacgaa 151 acactatacg gggggtttta aCATAAATAa tatagtttta attgtctcat 201 TTTGCAAATT CTCAAAAATC TATCAAGGGT TTGCCGTACA AAGGTATCGG 251 A Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G60420 |PROD: the same as GENE |22345406..22346760 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +15 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.16 T - 0.29 C - 0.19 1 tcgtagtaat aacaatgatg agtcgtgttt taaaagaatt ttgttacttt 51 cttgtgtgat aagcttcctc gcaatttcct actgaggaaa agaaatgcaa 101 ttttaacttc cttcaaaagt ttatagtaaa aaaaacaaaa ctcaacatct 151 cattgcttgc atatatgTAT AAATAcctcc cacttctagt aacaaagatc 201 ACACCGAGAA AGGCAATGGA GTCGGCTAAA TCAATCATCG GTGGCCACCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00122 Mean Expected Number 0.007 +strand -24 : -18 CTCCCAC AC RSP00359 Mean Expected Number 0.010 -strand +26 : +21 GCCGAC AC RSP00421 Mean Expected Number 0.010 +strand +3 : +9 ACCGAGA AC RSP00654 Mean Expected Number 0.005 +strand -24 : -15 CtCCCACTTC Totally 4 motifs of 4 different REs have been found Description of REs found 120. Group RE: Box C /AC: RSP00122//OS: Pisum sativum /GENE: AS1/RE: Box C /TF: unknown 344. Group TF: HvCBF1 /AC: RSP00359//OS: Hordeum vulgare /GENE: HVA1s/RE: GCCGAC motif /TF: HvCBF1 ||Identical REs AC: RSP00952 402. Group RE: DRE1 /AC: RSP00421//OS: Zea mays /GENE: rab17/RE: DRE1 /TF: unknown 628. Group RE: CT-B /AC: RSP00654//OS: Spinacia oleracea /GENE: PetH/RE: CT-B /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: BRH1 |LOCUS: AT3G61460 |PROD: |complement(22752486..22753259) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +71 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.08 T - 0.34 C - 0.27 1 cttcaatctt ttcccatttc tactcttttt cacctcattg gaacgttcac 51 ataacaaacg tcacagtcag ttaactctat caaaatcaat cttacacgac 101 acgatgtcgt ttagacgaat cctgtacctt ccttccttcc ttcatcttct 151 tccttccttt gatttcTATA AATCaaactc ctcatgacat taaaaaaatc 201 AACTTTTTCA AAAAAAGGAA AAAAAACAGA GCTCACTCAT TATTATCTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00080 Mean Expected Number 0.003 +strand +6 : +21 TTTCaAAAAAAGGAAA AC RSP00080 Mean Expected Number 0.003 -strand +21 : +6 TTTCCTTTTTTtGAAA AC RSP00115 Mean Expected Number 0.009 -strand -32 : -42 ATAGAAATCAA AC RSP00157 Mean Expected Number 0.010 +strand -39 : -28 ATTTcTATAAAT AC RSP00157 Mean Expected Number 0.010 -strand -28 : -39 ATTTATAgAAAT AC RSP01033 Mean Expected Number 0.002 -strand +18 : +9 CCTTTTTTTG AC RSP01087 Mean Expected Number 0.004 +strand -79 : -72 CTGTACCT Totally 7 motifs of 5 different REs have been found Description of REs found 79. Group TF: MADS-domain AGAMOUS BF /AC: RSP00080//OS: Arabidopsis thaliana /GENE: STE2; other genes/RE: AGAMOUS MADS BS /TF: MADS-domain AGAMOUS BF 113. Group TF: ATBP-1 /AC: RSP00115//OS: Pisum sativum /GENE: GS2/RE: BOX 1 /TF: ATBP-1 152. Group RE: D2 /AC: RSP00157//OS: Glycine max /GENE: GmAux28/RE: D2 /TF: unknown 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1005. Group TF: CRR1 /AC: RSP01087//OS: Helianthus annuus /GENE: CYC6; CPX1; CRD1; CTR; CTH1locus;/RE: CuRE 1 /TF: CRR1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: delta-8 sphingolipid desaturase (SLD1) |LOCUS: AT3G61580 |PROD: the same as GENE |22797022..22798947 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +206 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.18 T - 0.22 C - 0.21 1 cttaattgcc caataatggt ccctctttac caattctgat ataccaccca 51 aaattaacat caaacccaat atttaaagtc ccacacgtga gaacgactga 101 cgtcggcacg ctttagccac gtaatttcgg tctccaaaaa tTCAATatta 151 atccgcgaaa attcactaaa TATAAAACaa acccataata taaggaggat 201 AAGGAAGGAG TCGAAGATAA GCGGAGAGAG AGAGAGAGAC AGAGAGAGAT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00011 Mean Expected Number 0.005 -strand +22 : +13 GCTTATCTTC AC RSP00043 Mean Expected Number 0.002 -strand -78 : -85 TACGTGGC AC RSP00064 Mean Expected Number 0.004 -strand -76 : -85 AtTACGTGGC AC RSP00247 Mean Expected Number 0.006 +strand -85 : -76 GCCACGTAAt AC RSP00253 Mean Expected Number 0.002 +strand -51 : -44 AATCCGCG AC RSP00864 Mean Expected Number 0.002 +strand +25 : +33 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 +strand +27 : +35 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 +strand +29 : +37 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 +strand +31 : +39 AGAGAGAGA AC RSP00864 Mean Expected Number 0.002 +strand +41 : +49 AGAGAGAGA AC RSP00865 Mean Expected Number 0.001 +strand +23 : +31 GGAGAGAGA AC RSP01034 Mean Expected Number 0.006 -strand -79 : -85 ACGTGGC AC RSP01250 Mean Expected Number 0.002 +strand -64 : -55 AAAATTCAAT AC RSP01283 Mean Expected Number 0.000 +strand +24 : +40 GAGAGAGAGAGAGAGAc AC RSP01476 Mean Expected Number 0.006 +strand -129 : -122 TTTAAAGT Totally 15 motifs of 11 different REs have been found Description of REs found 11. Group RE: C2b-BS /AC: RSP00011//OS: Oryza sativa tungro bacillform virus (RTBV; plant pararetrovirus) /GENE: RTBV promoter/RE: C2b-BS /TF: unknown 42. Group TF: TAF-1 /AC: RSP00043//OS: Oryza sativa /GENE: rab16A-D/RE: Motif I core /TF: TAF-1 63. Group RE: Motif I /AC: RSP00064//OS: Oryza sativa /GENE: rab16B/RE: Motif I /TF: unknown 240. Group TF: REB /AC: RSP00247//OS: Oryza sativa /GENE: alpha-globulin/RE: REB1 /TF: REB ||Identical REs AC: RSP00738 246. Group RE: Oct (r) /AC: RSP00253//OS: Triticum aestivum /GENE: H3/RE: Oct (r) /TF: unknown ||Identical REs AC: RSP01503 RSP01504 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1154. Group TF: CBF-C /AC: RSP01250//OS: Arabidopsis thaliana /GENE: AtpC/RE: CBF-C BS /TF: CBF-C 1180. Group RE: GAGA element /AC: RSP01283//OS: OS: Glycine max /GENE: gsa1/RE: GAGA element /TF: unknown 1344. Group RE: E motif /AC: RSP01476//OS: Oryza sativa /GENE: GluA-3/RE: E motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: AGP20 |LOCUS: AT3G61640 |PROD: arabinogalactan-protein (AGP20) |complement(22821016..22821722) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +118 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.20 T - 0.28 C - 0.20 1 acaataaatt ccaattccat ttgttgaggg aatagaaaga aattaaacga 51 accaactagg aacggtcatt tagccagaaa atgacacatg tcagttaact 101 cctttgaACA ATtgacagaa aagttctaga gtggattacc ggctataccc 151 ggtaaacagt caattacTAT AAAAAcgcgt tatagccata tatatgatcc 201 AAAGGGGTTT TTGGTTGTCC GTGTCGTTCG TCGTCTCTCT CGCCGGACTT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00860 Mean Expected Number 0.004 +strand -167 : -159 AGAAAGAAA AC RSP01469 Mean Expected Number 0.010 -strand -108 : -117 TgACATGTGT AC RSP01598 Mean Expected Number 0.010 -strand -115 : -122 TGTCATTT AC RSP01639 Mean Expected Number 0.009 +strand +13 : +22 GGTTGTCCGT Totally 4 motifs of 4 different REs have been found Description of REs found 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) 1419. Group RE: Inr /AC: RSP01598//OS: Spinacia oleracea /GENE: RPL21/RE: Inr /TF: unknown 1459. Group RE: ARE /AC: RSP01639//OS: Nicotiana tabacum /GENE: PR-Q; ACS2/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ATHB-12 |LOCUS: AT3G61890 |PROD: |complement(22925129..22926300) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +86 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.13 T - 0.29 C - 0.19 1 ccacaaattt tggacgtata tttttagccc gtggttccac aatatttgca 51 ggtcttttta ttcaatgagt ttattttgtc ttggttgaat aatgaaattt 101 ccaaatataa aaaataatag aaatccgagg ccctacacaa gcacacatag 151 taactcccac atTATATATA agcggccaat atcagcaact cagagattcc 201 AGAAAGAAAG AAAAAAAAGA AACAAATAAT TCCAAAACCT TCTCTCTTAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00085 Mean Expected Number 0.006 +strand -103 : -88 TTTCCAAATATAaAAA AC RSP00085 Mean Expected Number 0.006 -strand -88 : -103 TTTtTATATTTGGAAA AC RSP00122 Mean Expected Number 0.007 +strand -47 : -41 CTCCCAC AC RSP00444 Mean Expected Number 0.000 +strand -1 : +13 cAGAAAGAAAGAAA AC RSP00860 Mean Expected Number 0.005 +strand +1 : +9 AGAAAGAAA AC RSP00860 Mean Expected Number 0.005 +strand +5 : +13 AGAAAGAAA Totally 6 motifs of 4 different REs have been found Description of REs found 83. Group TF: AGL3 /AC: RSP00085//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AGL3-BE /TF: AGL3 120. Group RE: Box C /AC: RSP00122//OS: Pisum sativum /GENE: AS1/RE: Box C /TF: unknown 424. Group TF: Dof1 /AC: RSP00444//OS: Zea mays /GENE: cyPPDK1/RE: box d /TF: Dof1 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ANAC066 |LOCUS: AT3G61910 |PROD: no apical meristem (NAM) family protein |complement(22939981..22941417) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +35 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.12 T - 0.35 C - 0.14 1 tgcgaactta taatgaaaac atcaaatatt cggaaaaata atactccact 51 gttaaaaaga aaacttaaca aaggaattaa aaatatgaga gcaaaagaac 101 acatgcattt tctcatgcat gtactattat ttattttttt gcagagttga 151 tgtaaaaaat atacacaTAT ATATAgacat actttggtta gttataaact 201 CGTTCTATTT TCTTCTCCTT TTTCTATCTT TAGCAATGAA CATATCAGTA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00108 Mean Expected Number 0.001 +strand -87 : -80 CATGCATG AC RSP00108 Mean Expected Number 0.001 -strand -80 : -87 CATGCATG AC RSP00259 Mean Expected Number 0.006 +strand -16 : -10 TGGTTAG AC RSP01470 Mean Expected Number 0.006 +strand -88 : -79 TCATGCATGT Totally 4 motifs of 3 different REs have been found Description of REs found 106. Group RE: RY4 /AC: RSP00108//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY4 /TF: unknown ||Identical REs AC: RSP01169 RSP01452 252. Group TF: ATMyb2 /AC: RSP00259//OS: Arabidopsis thaliana /GENE: rd22/RE: ATMyb2 BS /TF: ATMyb2 1340. Group TF: Opaque-2 (O2) /AC: RSP01470//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z2 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G62630 |PROD: the same as GENE |complement(23174723..23176171) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +116 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.12 T - 0.30 C - 0.18 1 ttatcaaatg aattacgtat attaattaag accactagat tttcaacttt 51 ataattcatg catacaaaac atgtcaggat tattaaaaaa aaaagatcac 101 gtatactttt ctctacagga aaatagcata agaatatttt ttactacaga 151 ataaataaag aaaaagggtc AATAAATAgg gagaataaaa aagcagcttc 201 ATACATACAA CACTGCATAT CTCTGCTTCT TTCTCTCCTC GCTCTTCGCG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00609 Mean Expected Number 0.000 -strand -163 : -175 CTaGTGGTCTTAA Totally 1 motifs of 1 different REs have been found Description of REs found 585. Group RE: UN I1 /AC: RSP00609//OS: Lycopersicon esculentum /GENE: rbcS1/RE: UN I1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: |LOCUS: AT3G62820 |PROD: the same as GENE |23240724..23241476 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +33 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.11 T - 0.28 C - 0.22 1 actaaaccaa cgaattgtta tcggcaaaac aacaaattaa taaaatcgaa 51 cgaagtgtta gaacgaaatg ttgtgatcat aactccgaca cctacaaatg 101 gaccgccata ctttttatac tttcacttta aaacctacca aaacccctaa 151 attaaattta tacgtgtcTA TATATAcgat ctctcgtcga gacaccaatt 201 AATTTTGTAT AAAGATTACA ATTCTCACAA AACATGAAAA CTCCCATGAG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00068 Mean Expected Number 0.003 -strand -33 : -42 GACACGTAtA AC RSP00070 Mean Expected Number 0.001 +strand -40 : -33 TACGTGTC AC RSP01035 Mean Expected Number 0.004 +strand -39 : -33 ACGTGTC AC RSP01288 Mean Expected Number 0.002 +strand -41 : -34 ATACGTGT AC RSP01601 Mean Expected Number 0.008 +strand -80 : -73 TTTCACTT AC RSP01725 Mean Expected Number 0.000 -strand -32 : -43 AGACACGTAtAA Totally 6 motifs of 6 different REs have been found Description of REs found 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 69. Group TF: TRAB1 /AC: RSP00070//OS: Oryza sativa /GENE: Osem/RE: ABRE motif A /TF: TRAB1 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1185. Group RE: Z-DNA-motif /AC: RSP01288//OS: Arabidopsis thaliana /GENE: cab1/RE: Z-DNA-motif /TF: unknown 1422. Group RE: Inr /AC: RSP01601//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown 1533. Group TF: STF1/HY5 /AC: RSP01725//OS: Arabidopsis thaliana /GENE: NAC1 (At1g56010)/RE: G/A-box /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G63090 |PROD: the same as GENE |23324403..23325964 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +189 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.14 T - 0.36 C - 0.15 1 caaattcctt tcttcttggt tatgtattag ttcagttcca aactaattaa 51 ctagctattt aattaaacgt atataccata atgtaaattt ttaattgtaa 101 tcatcgaaaa tatcgatacc tactgtcatt tggtcaTCAA Tcggaagttc 151 tgtttTGTAA ATAgagatac taataagaac aaaaaagacc acaatatggt 201 GTTGTCTTCT TGATTGGTGC TAAAAACATT TGCCTTGATA AACAAAAAGT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00862 Mean Expected Number 0.002 -strand -188 : -196 AGAAAGGAA AC RSP01458 Mean Expected Number 0.009 -strand -105 : -117 AaTTAAAAATTTA Totally 2 motifs of 2 different REs have been found Description of REs found 798. Group TF: BPC1 /AC: RSP00862//OS: Arabidopsis thaliana /GENE: STK/RE: GA-3 /TF: BPC1 1328. Group RE: AT-rich ELS /AC: RSP01458//OS: Glycine max /GENE: BiP9/RE: AT-rich ELS /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: kelch repeat-containing F-box family protein |LOCUS: AT3G63220 |PROD: the same as GENE |complement(23368367..23370213) |SUPPORT | 2 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +640 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.19 T - 0.33 C - 0.16 1 aatcgacata agtttgtatt cttctagact tggtgtcaat ttctctcaca 51 tgtgtatgtg ttgatgaaaa gaaaacgttt tgatattttg tgtggaaagc 101 agcaacccaa agaaaaacat aaaaaggccg gtacggggga gaatcataaa 151 tgatgatTAT AAAATcggtt tagtaatatc ataaacgtaa aaacgacgac 201 GTAGCTTCTT TATTAAAACC TTGTTCTCTC CTTGCTCTTG TTGTTCCTTA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01086 Mean Expected Number 0.009 -strand -10 : -19 TTTACGTTTa AC RSP01469 Mean Expected Number 0.008 +strand -155 : -146 TCACATGTGT Totally 2 motifs of 2 different REs have been found Description of REs found 1004. Group TF: bZIP TF /AC: RSP01086//OS: Helianthus annuus /GENE: sHSP/RE: bZIP BS /TF: bZIP TF 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: ATMRK1 |LOCUS: AT3G63260 |PROD: protein kinase, putative (MRK1) |complement(23383856..23385982) |SUPPORT | 6 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +260 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.17 T - 0.30 C - 0.23 1 agaagcaaag acagacgagc tctgtttttg caagagagag ttttttataa 51 taaaaactgg aaaagggcaa caaaacgact ctttggccgg tgaaactgtc 101 aaaaagacat taagacttgg tctctctccc actgcaccgc cgatccttct 151 ctacttgtca aacTATAAAA Gaaaaagagt attttttttt gtggagacca 201 CCACCACCAC CTTCGATCGA TTTCTACTAA CTTGTTCTTC TTCTTCTTTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00022 Mean Expected Number 0.006 +strand -154 : -146 ATAATAAAA AC RSP00068 Mean Expected Number 0.006 -strand -42 : -51 GACAaGTAGA AC RSP00865 Mean Expected Number 0.001 -strand -72 : -80 GGAGAGAGA Totally 3 motifs of 3 different REs have been found Description of REs found 21. Group TF: PCF1 /AC: RSP00022//OS: Pisum sativum /GENE: petE/RE: A/T-rich BOX1 /TF: PCF1 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 3: GENE: expressed protein |LOCUS: AT3G63390 |PROD: the same as GENE |complement(23422141..23422943) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +25 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.24 T - 0.27 C - 0.16 1 ctgcttactc tacttggcgg atcgagccgg agacggagat atgaaacgag 51 tagcggcagc aatagttctc gagaggatat atcaagtaga ataatctagt 101 ccagtcggtt agtagtagta tcgttatact aattatgttt tggatccccc 151 aaacttaatt aattaAATAA ATAtaggtgg atggcctcaa tcaaaagccc 201 GATGGGCCTT TGAAGAGAAA TTGAAATGAT GGAAGATGAC GATGATTTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00683 Mean Expected Number 0.002 -strand -183 : -192 GCCAAGTaGA Totally 1 motifs of 1 different REs have been found Description of REs found 652. Group TF: GBF3 /AC: RSP00683//OS: Arabidopsis thaliana /GENE: Adh/RE: -190 half G-box (core) /TF: GBF3 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G00390 |PROD: the same as GENE |complement(171497..172843) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +99 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.13 T - 0.34 C - 0.17 1 caaataatat tctttgagat ttagaatctt aatttaatga caatattaat 51 tgtttaactc atagaacaat ggaattttaa cgggaactgc tacattggaa 101 atatgaaacg atttgaataa ggaaagcaaa tttcgcaatt ATTGTttgag 151 aatatcgaaa ttgatTATAA ATAttccttt tcacttatca tcgtttcgtc 201 ACAAACCCTA AGAAGCTTCT CATCTTCCTC ACAAACCCTA AGAAGCTTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.002 -strand +41 : +33 TTAGGGTTT AC RSP00279 Mean Expected Number 0.002 -strand +11 : +3 TTAGGGTTT AC RSP00369 Mean Expected Number 0.002 +strand +3 : +11 AAACCCTAA AC RSP00369 Mean Expected Number 0.002 +strand +33 : +41 AAACCCTAA AC RSP00447 Mean Expected Number 0.006 +strand -81 : -72 AGgAAAGCAA AC RSP00950 Mean Expected Number 0.001 +strand +28 : +38 CTCACaAACCC AC RSP01031 Mean Expected Number 0.010 +strand -178 : -171 AGAATCTT AC RSP01060 Mean Expected Number 0.007 +strand -65 : -57 CAATTATTG AC RSP01060 Mean Expected Number 0.007 -strand -57 : -65 CAATAATTG AC RSP01077 Mean Expected Number 0.003 -strand -57 : -65 CAATAATTG AC RSP01303 Mean Expected Number 0.005 +strand +2 : +11 cAAACCCTAA AC RSP01303 Mean Expected Number 0.005 +strand +32 : +41 cAAACCCTAA Totally 12 motifs of 8 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 427. Group TF: Dof1 /AC: RSP00447//OS: Zea mays /GENE: pepcZm2A/RE: box b /TF: Dof1 879. Group RE: CTCACCAACCC motif /AC: RSP00950//OS: Petroselinum crispum /GENE: 4CL-1/RE: CTCACCAACCC motif /TF: unknown 956. Group TF: AEF /AC: RSP01031//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 2 /TF: AEF 980. Group TF: Hahb-4 /AC: RSP01060//OS: Helianthus annuus /GENE: OLIGOs/RE: Hahb-4 BS /TF: Hahb-4 995. Group TF: CpbZIP1; CpbZIP2 (short) /AC: RSP01077//OS: Craterostigma plantagineum (Scrophulariaceae) /GENE: CpC2/RE: HDZIP BS /TF: CpbZIP1; CpbZIP2 (short) 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G00780 |PROD: the same as GENE |334733..336310 |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +46 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.15 T - 0.33 C - 0.18 1 aaacttgtga tgtatataaa tgcttatcaa tctcgaatct ctctgttact 51 gtagcgtgta atccacgttt gaagtttttg ttcgattcga taaatgttgg 101 agccaaaaca gagacatcaa caaaaacatg ggatcCCAAT gaataaatag 151 ataaactctt gtctgtcTAT AAATAgactt acatcttcaa aaaagatttg 201 TATAAGTCTC CTCCACTTAA GAAGATATCA TTTGTAGCTT CTTACAATGT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01296 Mean Expected Number 0.007 +strand -34 : -26 CTATAAATA AC RSP01641 Mean Expected Number 0.005 +strand -44 : -35 TCTTGTCTgT AC RSP01734 Mean Expected Number 0.007 +strand -139 : -133 TCCACGT Totally 3 motifs of 3 different REs have been found Description of REs found 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown 1542. Group TF: CAMTA3 /AC: RSP01734//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM4 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: ATGSTF2 |LOCUS: AT4G02520 |PROD: glutathione S-transferase, putative |complement(1110452..1111624) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +93 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.12 T - 0.33 C - 0.20 1 tacataacca atgtaaaagc aaatatttaa acgttaaaca gtccaattca 51 gctttgaaaa atcctcccag aagaagaaga ctagtcaata ttggttgcga 101 tggccttgta gaggcattat tatctgttag ataatattaa acattaatga 151 gaaagtagaa atgcttctgT ATAAATAcct tcattacttg tgtcttattt 201 CATCACCTTC ACCTTCAACA TCAAACATCA CATTTCTTCC TCTTTTCTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00029 Mean Expected Number 0.006 +strand -189 : -182 TGTAAAAG AC RSP00543 Mean Expected Number 0.010 +strand -89 : -83 AGGCATT AC RSP01600 Mean Expected Number 0.009 -strand -142 : -149 TTTCAAAG Totally 3 motifs of 3 different REs have been found Description of REs found 28. Group RE: P-box 1 /AC: RSP00029//OS: Triticum aestivum /GENE: LMW-glutenin/RE: P-box 1 /TF: unknown 519. Group RE: GT-1-like K /AC: RSP00543//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: GT-1-like K /TF: unknown 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: ATHM2 |LOCUS: AT4G03520 |PROD: thioredoxin M-type 2, chloroplast (TRX-M2) |complement(1562357..1564164) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +111 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.29 G - 0.09 T - 0.49 C - 0.14 1 ttttctactt ttttcggtta ttttgggcaa atgatatcta cagctcaaca 51 aatcaaaaaa attcaaaaat atttcaattt attatttctc gatttttttc 101 acaactgtat tttaATTGTa tttttagtag aaatacttat ttttccaaaa 151 atatttgttt gtgttgatgt ataTATAAAA Aatctgcatc agtgttttgt 201 CTACATTTTC TCTTCCATTA GTTTCGTTAT CTTTTTATTT TCTCTATCTA 251 T Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: plastid-lipid associated protein PAP |LOCUS: AT4G04020 |PROD: the same as GENE |1932149..1933948 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +10 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.14 T - 0.30 C - 0.24 1 taaaacaatg atctttaacc atccacgtgt caaaatccca ccttagctta 51 cctcatttgt tctattccaa atacctattc tatcccttgg atcttgactt 101 atatgttcat aagaaagtgt accagataag ggtatatacg tcatttacag 151 tccagctcaa cggtTATAAA ATcctaattc gtgaggtttc tctgaagaac 201 AAACACAAAA ATGGCGACGG TACCATTGTT CACCCAGTTT CCCTGCAAAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00057 Mean Expected Number 0.007 +strand -179 : -170 TCCACGTgTC AC RSP00068 Mean Expected Number 0.006 -strand -170 : -179 GACACGTgGA AC RSP00188 Mean Expected Number 0.004 +strand -179 : -170 TCcACGTGTC AC RSP00203 Mean Expected Number 0.005 +strand -66 : -57 TATACGTCAt AC RSP00204 Mean Expected Number 0.002 -strand -170 : -179 GACACGTGGa AC RSP00340 Mean Expected Number 0.005 +strand -179 : -170 TCCACGTGTC AC RSP00441 Mean Expected Number 0.007 +strand -90 : -81 AAgAAAGTGT AC RSP00524 Mean Expected Number 0.008 -strand -171 : -177 ACACGTG AC RSP00682 Mean Expected Number 0.002 -strand -170 : -179 GaCACGTGGA AC RSP01035 Mean Expected Number 0.008 +strand -176 : -170 ACGTGTC AC RSP01103 Mean Expected Number 0.002 -strand -12 : -19 AAACCTCA AC RSP01255 Mean Expected Number 0.002 -strand -171 : -178 ACACGTGG AC RSP01274 Mean Expected Number 0.005 +strand -179 : -170 TCCACGTgTC AC RSP01722 Mean Expected Number 0.000 +strand -180 : -169 ATCCACGTGTCa Totally 14 motifs of 14 different REs have been found Description of REs found 56. Group TF: ABF /AC: RSP00057//OS: Zea mays /GENE: rab28/RE: ABRE B /TF: ABF 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 182. Group TF: ABI5 /AC: RSP00188//OS: Arabidopsis thaliana /GENE: AtEm1/RE: ABRE/1.2 /TF: ABI5 196. Group TF: ABI5 /AC: RSP00203//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.1 /TF: ABI5 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 421. Group TF: Dof1 /AC: RSP00441//OS: Zea mays /GENE: cyPPDK1/RE: box a /TF: Dof1 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 651. Group TF: GBF3 /AC: RSP00682//OS: Arabidopsis thaliana /GENE: Adh/RE: -214 G-box (core) /TF: GBF3 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1021. Group RE: AC1 /AC: RSP01103//OS: Spinacia oleracea /GENE: rps22/RE: AC1 /TF: unknown 1158. Group TF: GBF1 /AC: RSP01255//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS2 /TF: GBF1 1173. Group RE: ACE 1 /AC: RSP01274//OS: Petroselinum crispum /GENE: PcACO-IV/RE: ACE 1 /TF: unknown 1530. Group RE: G-box /Group TF: STF1/HY5 /AC: RSP01722//OS: Arabidopsis thaliana /GENE: IAA17/AXR3 (At1g04250)/RE: G-box /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G04630 |PROD: the same as GENE |complement(2331675..2332798) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +131 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.12 T - 0.44 C - 0.17 1 attctgtttc ggttctttcg gttgtagaat ttagaatcca ttcggttatt 51 ttccaatttt ctgttcggtt tagttatttt tgtttcggtt tcagttcggt 101 acattcggtt cggtttattt acccagactt gtatatgact tttctatttc 151 ttttatctta ttttgtgTAT ATATAtatat atatattctc acttaactca 201 AAAACAACAA CATCAACAAC AAAACTCTTT AAAAAGCAAG AAAACTTTCA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00881 Mean Expected Number 0.004 +strand +12 : +21 ATCAACAACa AC RSP01210 Mean Expected Number 0.006 -strand +36 : +27 CTTTTTAAAG AC RSP01233 Mean Expected Number 0.003 +strand +35 : +41 AGCAAGA Totally 3 motifs of 3 different REs have been found Description of REs found 817. Group TF: Dof family /AC: RSP00881//OS: Hordeum vulgare /GENE: Al21/RE: M2 /TF: Dof family 1120. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01210//OS: Lepidium africanum /GENE: LaCRC/RE: EM2 /TF: MADS box TFs 1138. Group RE: PLE-79 /AC: RSP01233//OS: Collettrichum lindemuthianum (bean pathogen) /GENE: CLPG2/RE: PLE-79 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: ferredoxin--NADP(+) reductase |LOCUS: AT4G05390 |PROD: the same as GENE |complement(2738712..2740562) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +82 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.28 G - 0.16 T - 0.33 C - 0.22 1 cgtggtgaaa agtaaagaag atccaacaca gacaaaaagc aatttgtcca 51 ctaagatctc tcgagagcca aaaaaaagtt gagaaatttg cagtcagtat 101 gggctgctct gttgttgtct cttctgggcc ttgaaaggat cttcttcttc 151 ccctcacctt cttacTATAA ACCcagaatc atcctctgtt tcttttgttc 201 CTCAAATCAT TTTTTTCCTC TCGATTGTGA GATCAATTAT TAATATTCAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00953 Mean Expected Number 0.004 +strand +34 : +42 CAATTATTA AC RSP01641 Mean Expected Number 0.010 +strand -88 : -79 TgTTGTCTCT Totally 2 motifs of 2 different REs have been found Description of REs found 880. Group TF: ATHB6 /AC: RSP00953//OS: Arabidopsis thaliana /GENE: ATHB6/RE: ATHB6 BS /TF: ATHB6 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G09830 |PROD: the same as GENE |6188764..6190850 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +99 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.09 T - 0.32 C - 0.20 1 caaaaaattg tttacaaaaa tttgctaaaa ctctcttcaa aaatatttaa 51 cacaattaac aaaaacaaat tccaaaactt tgtaataaga caataagtaa 101 TCAATctcca aaaaaaaaaa aaacaaaaaa aaaaaaacct tgttggtttg 151 tttgggtctt gccgtttcgT ATAAAAGtgc gaagtaccct ctctctaccc 201 AATTCCTCTT GTTTTGTTTC TCTTTCATAA TCTCCAATCT TCTTCGGATT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00040 Mean Expected Number 0.007 -strand -49 : -55 AACAAAC AC RSP00870 Mean Expected Number 0.006 +strand -31 : -22 TaTAAAAGTG AC RSP01017 Mean Expected Number 0.005 -strand +21 : +14 AGAAACAA Totally 3 motifs of 3 different REs have been found Description of REs found 39. Group RE: AACA box (D) /AC: RSP00040//OS: Oryza sativa /GENE: GluB-1/RE: AACA box (D) /TF: unknown 806. Group RE: EM2 /AC: RSP00870//OS: Triticum aestivum /GENE: LMWG-1D1/RE: EM2 /TF: unknown 942. Group TF: AEF /AC: RSP01017//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 2 /TF: AEF ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: 60S ribosomal protein L9 (RPL90D) |LOCUS: AT4G10450 |PROD: the same as GENE |complement(6462949..6464521) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +67 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.10 T - 0.34 C - 0.16 1 gtataatgaa tttgtatttt caatttgaaa atttaataaa ataagttatc 51 ctttactatt ttaatgaata caaaaattta taaaattaaa attaaaagaa 101 aaaatgaaat gatttttaaa agagttgttt ttaagattaa aaccaaaaac 151 aaaacctaga gacgaccTAT ATATAagctt tagggttttc ttctctctgt 201 ACCCTTAAAC TCCGTTACCC TAAACCTCAA GCCGTCGTCT CCAAAGTTCC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00117 Mean Expected Number 0.006 +strand -93 : -81 AATgATTTTTAAA AC RSP00260 Mean Expected Number 0.004 +strand -22 : -16 TTTAGGG AC RSP00279 Mean Expected Number 0.001 +strand -21 : -13 TTAGGGTTT AC RSP00369 Mean Expected Number 0.001 -strand -13 : -21 AAACCCTAA AC RSP00838 Mean Expected Number 0.003 +strand +32 : +37 CCGTCG AC RSP01103 Mean Expected Number 0.008 +strand +22 : +29 AAACCTCA AC RSP01303 Mean Expected Number 0.001 -strand -12 : -21 aAAACCCTAA Totally 7 motifs of 7 different REs have been found Description of REs found 115. Group RE: AT-1 (2) /AC: RSP00117//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (2) /TF: unknown 253. Group RE: RTBP1 BS /AC: RSP00260//OS: Oryza sativa /GENE: Synthetic OLIGO/RE: RTBP1 BS /TF: unknown 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 783. Group RE: CCGTCG motif /AC: RSP00838//OS: Arabidopsis thaliana /GENE: H4A748/RE: CCGTCG motif /TF: unknown 1021. Group RE: AC1 /AC: RSP01103//OS: Spinacia oleracea /GENE: rps22/RE: AC1 /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: nodulin MtN3 family protein |LOCUS: AT4G10850 |PROD: the same as GENE |6674994..6676976 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +70 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.10 T - 0.38 C - 0.22 1 ctaagacatt tgtccttata taagtctaat aaatgtgtgt tttaattcaa 51 tacctccaaa aataatttca aaaaactaga gttactgaat tggtgctttc 101 acacggtgca tgcATTGTat tcacacctat atgcatgtca tatattcatg 151 gtctctatga tctcgctcta TATAAACAcc acccaatcga ccaaccttct 201 TCTCTGATTA TTTTCTCAAA TTATTTAATT AATTTCTTCT TCTTCATCAC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00016 Mean Expected Number 0.002 -strand -89 : -95 CATGCAC Totally 1 motifs of 1 different REs have been found Description of REs found 15. Group RE: RY /AC: RSP00016//OS: Glycine max /GENE: beta-conglycinin/RE: RY /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: KELP |LOCUS: AT4G10920 |PROD: |complement(6697672..6699189) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +90 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.12 T - 0.32 C - 0.14 1 aattttaagg agaaaataat agataaaaat aaacattatc catattttat 51 agataaaaat gagcgatgga ttaccaccac gcttatacga ttgcgataat 101 tacatccata tttatTCAAT tttaaagaaa atataataga taaacataag 151 cattatccat tttTATAAAT Agaaatgagc gatggattac caccacgctt 201 ATACGATTGC GATAATTTCA TCTATACTTA TCGGGTTTAT AACACCGATA 251 A Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: cysteine proteinase, putative |LOCUS: AT4G11320 |PROD: the same as GENE |6887250..6889055 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +82 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.12 T - 0.31 C - 0.17 1 aaaaacgaat ttttagatac aacatatatt tgaaaaagtt cttatttaca 51 aatcattggt gaaaaattta gacactactc gacacaaatg catgagtagg 101 tttacccatt tgttcacacc aatggacacg ttataaataA CAATtttaat 151 atatctgagc gctgagtacT ATAAATActg tcatgtgtta gccaaaaaga 201 ACATAACACA AAATCCTCTT CTCTTCTTTA ATAACTTTTA GAAACACAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00962 Mean Expected Number 0.006 +strand -108 : -102 TGAGTAG AC RSP01035 Mean Expected Number 0.005 -strand -70 : -76 ACGTGTC AC RSP01301 Mean Expected Number 0.002 +strand -32 : -23 CTATAAATAC AC RSP01470 Mean Expected Number 0.009 -strand -106 : -115 TCATGCATtT Totally 4 motifs of 4 different REs have been found Description of REs found 887. Group RE: GLM1 /AC: RSP00962//OS: Hordeum vulgare /GENE: ITR1/RE: GLM1 /TF: unknown 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 1340. Group TF: Opaque-2 (O2) /AC: RSP01470//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z2 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G11860 |PROD: the same as GENE |complement(7134078..7138497) |SUPPORT | 13 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +142 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.13 T - 0.37 C - 0.20 1 cataattctt ctcatacatc aaataccgga ataaatttga aaaattggtc 51 gttactatat ttggttcaat agcaatttaa acaataccgg aatttcgatt 101 tggtacgtac cggtttggtt atgtgacaca ttTCAATatc aaccttccca 151 taaaagttct ttctcgtaaT ATAAATTaaa tcctctttgc tctctcgctc 201 GCTTCCTCTT TTCGATTTGG ATCAGAAAAA ATAAAATTTC TTCGGAATTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00489 Mean Expected Number 0.005 -strand -92 : -101 TACgTACCAA AC RSP00872 Mean Expected Number 0.009 -strand -71 : -80 TGTGTcACAT Totally 2 motifs of 2 different REs have been found Description of REs found 465. Group RE: UVLRE2 /AC: RSP00489//OS: Glycine max /GENE: chs1/RE: UVLRE2 /TF: unknown 808. Group RE: GLM2 /AC: RSP00872//OS: Triticum aestivum /GENE: LMWG-1D1/RE: GLM2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G12070 |PROD: the same as GENE |7231816..7234495 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +119 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.09 T - 0.42 C - 0.16 1 tcattgattt tattctattt taatttatat cgaatttttt tgatatttca 51 acactaagat tttttcacat tttttaattt aagaatcttg aaattactta 101 ttaaagaacc aaatcaaaat ttctaaagct ctagttcctt gacaagtggc 151 gttgtttaag atTTTAAATA atcctaatat ctctagtaaa ataaaataac 201 AGCCAAGTAC GACTTTTTTG TATTCACTCT CTCTCTCAAA GATTCCGTCT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00056 Mean Expected Number 0.000 -strand -51 : -60 GCCACTTGTC AC RSP00307 Mean Expected Number 0.006 +strand +2 : +7 GCCAAG AC RSP00522 Mean Expected Number 0.001 -strand -52 : -58 CCACTTG AC RSP00840 Mean Expected Number 0.004 -strand -51 : -56 GCCACT AC RSP00864 Mean Expected Number 0.002 -strand +36 : +28 AGAGAGAGA AC RSP01031 Mean Expected Number 0.010 +strand -119 : -112 AGAATCTT Totally 6 motifs of 6 different REs have been found Description of REs found 55. Group TF: ABI3 /AC: RSP00056//OS: Brassica napus /GENE: napA/RE: ABRE Bd /TF: ABI3 294. Group RE: GCCAAG motif /AC: RSP00307//OS: Hordeum vulgare /GENE: Chi26/RE: GCCAAG motif /TF: unknown 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 785. Group RE: CAT /AC: RSP00840//OS: Arabidopsis thaliana /GENE: H4A748/RE: CAT /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 956. Group TF: AEF /AC: RSP01031//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 2 /TF: AEF ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G12390 |PROD: the same as GENE |7336494..7337353 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +56 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.12 T - 0.32 C - 0.18 1 agtggtttct actagggaat tattgttgta tacttgtatc agaattccaa 51 agtgtattgt tttctaatca ctaaatggaa aaccatttgg agtttatttt 101 ttaatacaga ttgtcttttt gtaaACAATa tctataacaa aaaaaaatac 151 aataaatgta gctctccTAT AAATAacacc tcactcgtgt atacacacat 201 ATGCCTTTTA ATTGAAACGC ACCACAAATA GAACAAAGAA CCCCACACAC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00405 Mean Expected Number 0.002 +strand -115 : -108 TTTGGAGT AC RSP01639 Mean Expected Number 0.008 +strand -92 : -83 GATTGTCTTT Totally 2 motifs of 2 different REs have been found Description of REs found 387. Group RE: adjb /AC: RSP00405//OS: Nicotiana tabacum /GENE: RNP2/RE: adjb /TF: unknown 1459. Group RE: ARE /AC: RSP01639//OS: Nicotiana tabacum /GENE: PR-Q; ACS2/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G12530 |PROD: the same as GENE |complement(7428024..7428560) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +69 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.44 G - 0.06 T - 0.33 C - 0.17 1 atattttagg cactattttt attatctaga ttagggaccc tcatatagaa 51 ttctaactat aagattaaaa attaacaagg agataaatat tttaattaac 101 tttacgtact ttatccaaaa tacctaaatt taatattacc ctaatatact 151 aaaccttatc aaacacTATA AATAcaataa atctcccatc atatctatat 201 ATGCTACATA ACTCAAAGTA ACAAACATAC ACATATAACA TATAGAAAGA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01301 Mean Expected Number 0.004 +strand -35 : -26 CTATAAATAC Totally 1 motifs of 1 different REs have been found Description of REs found 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: AIR1 |LOCUS: AT4G12550 |PROD: |7439112..7439802 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +61 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.06 T - 0.31 C - 0.22 1 ttaattagga ccatatactc ttagaaattg ccagctaatt tgaacaatga 51 ccatttaagt gttttcaaat aatcaaatca tatccatata aaaataatta 101 gtcaactaat cccctattaa gaaaaatcaA CAATtaaaac attctcattt 151 cctcctaatg aatacccTAT AAATAcccac taaaaactta catttctccc 201 ACCAATCTCA AAGCAAATTA AATACACTAC TACTTCTTGA GCTTTTAAAC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00117 Mean Expected Number 0.005 -strand -102 : -114 AATTATTTTTAtA AC RSP00140 Mean Expected Number 0.008 -strand -102 : -114 AATTATTTTTATa AC RSP00288 Mean Expected Number 0.007 -strand -188 : -193 TGGTCC AC RSP00949 Mean Expected Number 0.005 +strand -102 : -95 TAGTCAAC AC RSP01004 Mean Expected Number 0.000 -strand -141 : -150 ACTTAAATGG AC RSP01301 Mean Expected Number 0.004 +strand -34 : -25 CTATAAATAC Totally 6 motifs of 6 different REs have been found Description of REs found 115. Group RE: AT-1 (2) /AC: RSP00117//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (2) /TF: unknown 136. Group RE: AT-1 (2) /Group TF: AT-1 /AC: RSP00140//OS: Pisum sativum /GENE: rbcS-3.6/RE: AT-1 (2) /TF: AT-1 279. Group RE: Motif VI /AC: RSP00288//OS: Pisum sativum /GENE: PSPAL2/RE: Motif VI /TF: unknown 878. Group RE: TAGTCAAC motif /AC: RSP00949//OS: Petroselinum crispum /GENE: 4CL-1/RE: TAGTCAAC motif /TF: unknown 929. Group TF: DEF/GLO /AC: RSP01004//OS: Antirrhinum majus /GENE: DEFH125/RE: CArG2 /TF: DEF/GLO 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G12590 |PROD: the same as GENE |complement(7451001..7453085) |SUPPORT | 8 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +112 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.21 T - 0.33 C - 0.15 1 ttcgtctacg agagttcttt gttctaagtt ctgagttcag ggaagaaaga 51 agcggtgagg agaacaaggt agctagggtt ttagtttggg tttaatagac 101 aaacgaatta gggttttata aagggaacac atcaaagcct ctctctgact 151 cagaaggttt cagatatttT TTAAATAaaa aaaataaaat aatttccact 201 AAATTATCGG ATTCTCAGCT CTTCTCTCAG AATCTCAGAT CGTGTTTTGT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00006 Mean Expected Number 0.001 -strand -6 : -19 AAATTATTTTATtT AC RSP00279 Mean Expected Number 0.003 +strand -93 : -85 TTAGGGTTT AC RSP00369 Mean Expected Number 0.003 -strand -85 : -93 AAACCCTAA AC RSP01303 Mean Expected Number 0.006 -strand -84 : -93 aAAACCCTAA Totally 4 motifs of 4 different REs have been found Description of REs found 6. Group RE: ATRE /AC: RSP00006//OS: Glycine max /GENE: GS15/RE: ATRE /TF: unknown 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G12600 |PROD: the same as GENE |7453199..7454478 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +94 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.28 G - 0.15 T - 0.35 C - 0.22 1 tcgtcttctt cgtcttcgat cttctctggt gaagcaaaca aaacacgatc 51 tgagattctg agagaagagc tgagaatccg ataatttagt ggaaattatt 101 ttattttttt tatttaaaaa atatctgaaa ccttctgagt cagagagagg 151 ctttgatgtg ttcccttTAT AAAACcctaa ttcgtttgtc tattaaaccc 201 AAACTAAAAC CCTAGCTACC TTGTTCTCCT CACCGCTTCT TTCTTCCCTG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00006 Mean Expected Number 0.001 +strand -108 : -95 AAATTATTTTATtT AC RSP00279 Mean Expected Number 0.001 -strand -21 : -29 TTAGGGTTT AC RSP00369 Mean Expected Number 0.001 +strand -29 : -21 AAACCCTAA AC RSP01303 Mean Expected Number 0.004 +strand -30 : -21 aAAACCCTAA Totally 4 motifs of 4 different REs have been found Description of REs found 6. Group RE: ATRE /AC: RSP00006//OS: Glycine max /GENE: GS15/RE: ATRE /TF: unknown 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G12890 |PROD: the same as GENE |7546375..7547569 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +34 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.15 T - 0.28 C - 0.22 1 atttagtctg ttaccactac cagcctagct agtcactaat agtcactttg 51 gaactgagta gatatttgca tcttgagtta ccatggactc aaaagtccaa 101 aaagagaccc cgagtgaaaa tgctaccaac ttaataacaa agaagcattt 151 acagcggtca aaaagtatcT ATAAATGttt acacaacagt agtcataagc 201 ACTCAACACA AACTCTTTAC GAATACTTTT AAGTATGGCT TCTTCTTCTG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00228 Mean Expected Number 0.001 -strand -77 : -88 AgCATTTTCACT AC RSP00331 Mean Expected Number 0.006 +strand -124 : -116 GTTACCATG AC RSP00503 Mean Expected Number 0.003 +strand -176 : -169 CTAGCTAG AC RSP00503 Mean Expected Number 0.003 -strand -169 : -176 CTAGCTAG AC RSP00962 Mean Expected Number 0.008 +strand -146 : -140 TGAGTAG Totally 5 motifs of 4 different REs have been found Description of REs found 221. Group TF: GT-1 /AC: RSP00228//OS: Pisum sativum /GENE: rbcS-3A/RE: BOX III /TF: GT-1 317. Group TF: S1F /AC: RSP00331//OS: Spinacia oleracea; Pisum sativum; Arabidopsis thaliana; /GENE: prs 1 and RPL21 (spinach), rbcS-3a (pea, tomato, Arabidopsis),/RE: S1, consensus /TF: S1F 479. Group TF: RITA-1 /AC: RSP00503//OS: Nicotiana tabacum /GENE: Ntltp1/RE: D1 box /TF: RITA-1 887. Group RE: GLM1 /AC: RSP00962//OS: Hordeum vulgare /GENE: ITR1/RE: GLM1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G12960 |PROD: the same as GENE |7583269..7584627 |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +29 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.16 T - 0.29 C - 0.16 1 ataaaaacga ttagtctgat tgctagcata ctcacaacta tttggaaatg 51 agtaagatat tggcatctag agttactact atggagacaa aagtcgaata 101 aaagagacct cacgtgaaaa tgttacgagc tagtaactaa agcatttaca 151 ctaacggtaa aaaaagtatc TATAAATGtt tacacaaggt agtagtcatt 201 AGCACTCAAC TTAAACTCTT TTAGTAACAA TGGTTTCTTC TTCTTTAACC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00163 Mean Expected Number 0.003 -strand -107 : -117 aCTTTTGTCTC Totally 1 motifs of 1 different REs have been found Description of REs found 158. Group TF: ARF1 /AC: RSP00163//OS: Glycine max /GENE: Synthetic OLIGO/RE: DR5 /TF: ARF1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G13180 |PROD: the same as GENE |complement(7657192..7658193) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +33 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.20 T - 0.24 C - 0.18 1 aggttgttgt cagagatctc tggtggatac aagaagacac aagtatgtca 51 aaagagtgta atgcgcacac gtcactgctt acgaaacaaa aacatgtctc 101 aaaataagac cgttgactcg acggccatgt ggctgtatgt caagtgatcc 151 aacaactata agtcTATAAA TGtggtccat atttttccct gcttttaatc 201 AAAAATTCAG AGGAAAAAAA ACACGATCGA GAAATGGAGA ATAATCCAAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00039 Mean Expected Number 0.008 -strand +9 : -2 TGAATTTtTGA AC RSP00073 Mean Expected Number 0.002 +strand -77 : -68 GCCAtGTGGC AC RSP00073 Mean Expected Number 0.002 -strand -68 : -77 GCCACaTGGC AC RSP00110 Mean Expected Number 0.002 +strand -135 : -128 CACACGTC AC RSP00153 Mean Expected Number 0.002 -strand -69 : -78 CCACaTGGCC AC RSP00249 Mean Expected Number 0.001 +strand -94 : -86 AGACCGTTG AC RSP01258 Mean Expected Number 0.004 -strand -127 : -134 TGACGTGT AC RSP01654 Mean Expected Number 0.006 -strand -125 : -134 AGTGACGTGT Totally 8 motifs of 7 different REs have been found Description of REs found 38. Group TF: GT-1 related TFs /AC: RSP00039//OS: Lycopersicon esculentum /GENE: LAT56; LAT59;/RE: 56/59 box /TF: GT-1 related TFs 72. Group TF: TAF-1 /AC: RSP00073//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: PA /TF: TAF-1 ||Identical REs AC: RSP00274 108. Group RE: ACGT motif /AC: RSP00110//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: ACGT motif /TF: unknown 149. Group RE: Box II /AC: RSP00153//OS: Petroselinum crispum /GENE: CHS/RE: Box II /TF: CPRF-1; CPRF-2; CPRF-3; ||Identical REs AC: RSP00154 242. Group RE: MSA /AC: RSP00249//OS: Catharanthus roseus /GENE: CYM/RE: MSA /TF: unknown 1160. Group TF: GBF1 /AC: RSP01258//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS5 /TF: GBF1 1472. Group TF: STF1/HY5 /AC: RSP01654//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: STF1/HY5 BS (cons) /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G13230 |PROD: the same as GENE |complement(7675659..7676676) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +51 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.10 T - 0.25 C - 0.27 1 aaggaaaaac agacgccaag gattgtgtca cacactaaca catctctaaa 51 tagcaaatta aaacttgaac catcggatgt cccgagtcaa cctccccact 101 atgccatcca aatcaaacca tgtgtcttct tcacatgcac ctcatctcct 151 atacattttc tcaattctct TATATATAct taaatccttc aaactcaact 201 AATTAACAAA CTAATCACAT TACTAATCAA CAGAAAGAAG AGGCCTAAGA 251 C Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: myb family transcription factor |LOCUS: AT4G13640 |PROD: the same as GENE |complement(7936588..7938626) |SUPPORT | 6 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +133 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.08 T - 0.36 C - 0.18 1 cgaaaataat aactaaaaga aattttatct tactactttt tcaaaacata 51 tatgttattt ggaatttcaa tgcaaagagt acaaataacc aaaacataaa 101 ttctgctctc tctttttttt tttttgaaaa tatctaaata aatTCAATaa 151 tgcacaaaTA TAAACAcaaa atactatccg agtgttgtct tgtccaatct 201 ATCAACTCGT TTCTTCGCTG TCTTAGAAAT CCACAATATC TTTCTTCACA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00301 Mean Expected Number 0.005 +strand -130 : -124 TGCAAAG AC RSP00445 Mean Expected Number 0.002 -strand -83 : -92 AAAAAAGAGA Totally 2 motifs of 2 different REs have been found Description of REs found 289. Group RE: PROL box /AC: RSP00301//OS: Oryza sativa /GENE: GluB-1/RE: PROL box /TF: unknown ||Identical REs AC: RSP00882 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: auxin-responsive protein, putative |LOCUS: AT4G13790 |PROD: the same as GENE |complement(7999710..8000218) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +98 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.08 T - 0.32 C - 0.26 1 acatgcatgt aggacactca ttttttctca acaccccaac atttattaaa 51 ctacatcttc ctaaaatcca aacgctttaa ctaatctgtt tgtcaaaacc 101 atgtccttgt aggtcgcact cACAATtcgt agacatatta ttttcaataa 151 aacctttcta actccaccaa TATATATAga cccacatttc cctttggctc 201 ATAAACCAAA CTCAAAGCTT CTCTTATCAT CAAACAAGAT CAAGATATCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00108 Mean Expected Number 0.001 +strand -199 : -192 CATGCATG AC RSP00108 Mean Expected Number 0.001 -strand -192 : -199 CATGCATG AC RSP01012 Mean Expected Number 0.001 -strand -87 : -93 ACCTACA AC RSP01237 Mean Expected Number 0.006 -strand -20 : -29 gTCTATATAT AC RSP01237 Mean Expected Number 0.006 -strand -22 : -31 CTaTATATAT AC RSP01470 Mean Expected Number 0.005 +strand -200 : -191 aCATGCATGT AC RSP01470 Mean Expected Number 0.006 -strand -191 : -200 aCATGCATGT Totally 7 motifs of 4 different REs have been found Description of REs found 106. Group RE: RY4 /AC: RSP00108//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY4 /TF: unknown ||Identical REs AC: RSP01169 RSP01452 930. Group TF: PtMYB1; PtMYB4 /AC: RSP01012//OS: Pinus sylvestris /GENE: PsGS1b/RE: GS1b AC box 1 (AC-I) /TF: PtMYB1; PtMYB4 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1340. Group TF: Opaque-2 (O2) /AC: RSP01470//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z2 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: rapid alkalinization factor (RALF) family protein |LOCUS: AT4G14020 |PROD: the same as GENE |complement(8095210..8095731) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +31 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.44 G - 0.12 T - 0.28 C - 0.16 1 ttatccaaaa taactaagaa gaaacatatt acgtccggcc ggtaaccttt 51 ttgaaaagga gaaaaaaaaa aagtatttgt tttcgatata atgaattatc 101 tttctagtta aaagtaaaaa agattcgctt aaacattaca tttacaagtt 151 acaaacacaa tcgttcacTA TAAATAaagg tgtagcccct actaataaat 201 ATATAACTCA AAGCATAAAG AAACATCAAT CATGGAGTAC TACACATTTA 251 C Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: XTR7 |LOCUS: AT4G14130 |PROD: xyloglucan:xyloglucosyl transferase |complement(8137047..8138276) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +85 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.10 T - 0.38 C - 0.21 1 aaaaaaccaa cttatatgag taatagaaac gatcctaata ttaggaattt 51 tagagatttt ctctcatctg tttcttaact tttcaatatt tttatttttt 101 aaaATTGTat gagtttctac taagaaacta ctgctggagt tggtcttagc 151 ttcccaatgc ttctccaccT ATATATAtgc atatctcctt cttaaaactc 201 ATCTCACACC AAAACACAAA GCTCTCATCT TCTTTTAGTT TCCAAACTCA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00125 Mean Expected Number 0.001 +strand -116 : -105 AATATTTTTATT AC RSP00135 Mean Expected Number 0.007 +strand -116 : -105 AATATTTTTATt Totally 2 motifs of 2 different REs have been found Description of REs found 123. Group RE: AT-1 (3) /AC: RSP00125//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (3) /TF: unknown ||Identical REs AC: RSP00133 RSP00788 131. Group RE: AT-1 (4) /AC: RSP00135//OS: Nicotiana plumbaginifolia /GENE: cab-E/RE: AT-1 (4) /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: IAA1 |LOCUS: AT4G14560 |PROD: |8361061..8361982 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +117 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.10 T - 0.28 C - 0.32 1 caaatcagga ccgttgaaaa taagaaagaa gccgcgtcca aaatctttgt 51 gtcccacctt tgtccccttg cctctaactt gcctcctcat gctccccgac 101 aacgtcataa ttcatatctc tctctctctc tcgttaaccc taatttcaaa 151 gcatctttcc ttaTATAAAT Ctctctctct ccctcaccat tacacaacac 201 ACACAAGCAT TTTCAAGGAT ATCAAATCAC AATCCCAAGA AGAGCAATAA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00864 Mean Expected Number 0.004 -strand -21 : -29 AGAGAGAGA AC RSP00864 Mean Expected Number 0.004 -strand -23 : -31 AGAGAGAGA AC RSP00864 Mean Expected Number 0.004 -strand -70 : -78 AGAGAGAGA AC RSP00864 Mean Expected Number 0.004 -strand -72 : -80 AGAGAGAGA AC RSP00864 Mean Expected Number 0.004 -strand -74 : -82 AGAGAGAGA AC RSP00864 Mean Expected Number 0.004 -strand -76 : -84 AGAGAGAGA AC RSP00865 Mean Expected Number 0.005 -strand -19 : -27 GGAGAGAGA AC RSP01283 Mean Expected Number 0.000 -strand -69 : -85 GAGAGAGAGAGAGAGAt AC RSP01304 Mean Expected Number 0.008 +strand -67 : -58 TtAACCCTAA AC RSP01600 Mean Expected Number 0.005 +strand -57 : -50 TTTCAAAG Totally 10 motifs of 5 different REs have been found Description of REs found 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 1180. Group RE: GAGA element /AC: RSP01283//OS: OS: Glycine max /GENE: gsa1/RE: GAGA element /TF: unknown 1197. Group RE: Telo box /AC: RSP01304//OS: Lycopersicon esculentum /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: iron-deficiency-responsive protein, putative |LOCUS: AT4G14710 |PROD: the same as GENE |complement(8424675..8426550) |SUPPORT | 7 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +195 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.26 G - 0.15 T - 0.36 C - 0.23 1 ccaaagtgtt tcttactctc gactcgagtc ttactttgac accaccaaac 51 ttctcttctt ttgtccattt ttaacccagt ttttaacttt taactttgtt 101 aacttttttA CAATaattac cactctaact aacgtattta cattttctca 151 aacctcaaaa atgtGATAAA TAgtctgaaa cggatatatg tggaggcggc 201 ATTTCCCTCG CCGCACGCCG GCGGATGGAG GGTAGTTTAG TCTTTTAACC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00438 Mean Expected Number 0.006 +strand -6 : -1 GGCGGC AC RSP00750 Mean Expected Number 0.003 -strand -85 : -96 TTATTGTAAAAa AC RSP00807 Mean Expected Number 0.006 -strand -1 : -6 GCCGCC AC RSP01103 Mean Expected Number 0.005 +strand -51 : -44 AAACCTCA AC RSP01497 Mean Expected Number 0.002 +strand +17 : +26 GCCGgCGGAT Totally 5 motifs of 5 different REs have been found Description of REs found 418. Group RE: PR-box /AC: RSP00438//OS: Arabidopsis thaliana /GENE: PR-1/RE: PR-box /TF: unknown 712. Group TF: GT-1 /AC: RSP00750//OS: Catharanthus roseus /GENE: STR/RE: BN rev /TF: GT-1 760. Group RE: GCC box /Group TF: Pti4 /AC: RSP00807//OS: Arabidopsis thaliana /GENE: PDF1.2/RE: GCC box /TF: Pti4 ||Identical REs AC: RSP00809 RSP00811 RSP00814 RSP00921 RSP01328 1021. Group RE: AC1 /AC: RSP01103//OS: Spinacia oleracea /GENE: rps22/RE: AC1 /TF: unknown 1359. Group RE: CS5 /AC: RSP01497//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS5 /TF: unknown ||Identical REs AC: RSP01498 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G15490 |PROD: the same as GENE |complement(8852696..8854543) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +242 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.46 G - 0.11 T - 0.32 C - 0.11 1 ctaaaatatt ttccattttt atttctgaaa atgggagcca atgttaataa 51 taattaaaaa aaaaatcaaa agtatctaaa acctagaaaa atatgatacc 101 attcaaATTG Taaaatatct aataattaaa agaatttttc ttttcagtaa 151 tttcatatgg gtcaaatcct agtaTATAAA CAaacataca taaaaagata 201 AAAAAAATAT TTCCCTTTAT AATTGATGGA AAGCACTGGA AAGGGATATG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00383 Mean Expected Number 0.010 +strand -41 : -35 GGTCAAA AC RSP00566 Mean Expected Number 0.009 +strand -33 : -24 CCTaGTATAT AC RSP01071 Mean Expected Number 0.010 +strand -20 : -11 CAAACaTACA Totally 3 motifs of 3 different REs have been found Description of REs found 368. Group TF: WRKY1 /AC: RSP00383//OS: Petroselinum crispum /GENE: WRKY1/RE: WA /TF: WRKY1 542. Group RE: TATA P /AC: RSP00566//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: TATA P /TF: unknown 989. Group TF: PvAlf /AC: RSP01071//OS: Arachis hypogea; Phaseolus vulgaris /GENE: Em/RE: Em1c /TF: PvAlf ||Identical REs AC: RSP01153 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: integral membrane family protein |LOCUS: AT4G15630 |PROD: the same as GENE |8917428..8918850 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +97 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.10 T - 0.35 C - 0.19 1 tttatataca caacgtattc acacttcgtt cccatacatt atccatatat 51 gtttttattt cgtaagctga gattcactct tgcgccacat aaacttaaaa 101 agccacgtaa acatcattac tatccacaac ttgatgtgtg ttaagtaaga 151 ctatttcaat ttttttttta aTATATATAt acggctctct actcacatct 201 AGAGCATGAG AAACTTTAAA GAAAAAACAA AAAGAACAAA ATTTGTTATC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00043 Mean Expected Number 0.001 -strand -92 : -99 TACGTGGC AC RSP00051 Mean Expected Number 0.002 +strand -99 : -90 GCCACGTAaA AC RSP00247 Mean Expected Number 0.001 +strand -99 : -90 GCCACGTAAa AC RSP00333 Mean Expected Number 0.003 +strand -169 : -161 CCATACATT AC RSP01030 Mean Expected Number 0.010 +strand +9 : +16 AGAAACTT AC RSP01034 Mean Expected Number 0.002 -strand -93 : -99 ACGTGGC Totally 6 motifs of 6 different REs have been found Description of REs found 42. Group TF: TAF-1 /AC: RSP00043//OS: Oryza sativa /GENE: rab16A-D/RE: Motif I core /TF: TAF-1 50. Group RE: A3 /AC: RSP00051//OS: Hordeum vulgare /GENE: HVA22/RE: A3 /TF: unknown 240. Group TF: REB /AC: RSP00247//OS: Oryza sativa /GENE: alpha-globulin/RE: REB1 /TF: REB ||Identical REs AC: RSP00738 319. Group TF: S2F /AC: RSP00333//OS: Spinacia oleracea /GENE: RPL21/RE: S2 /TF: S2F 955. Group TF: AEF /AC: RSP01030//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 1 /TF: AEF 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: glutaredoxin family protein |LOCUS: AT4G15680 |PROD: the same as GENE |8931650..8932293 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +161 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.14 T - 0.34 C - 0.20 1 atagttttat tctttagctg caagtggtaa agagtcaaga acgtgtgagc 51 tcctcaaatt gtactcccac tatcttagtt ttcattattt tttaataggt 101 tctttatttt cgtgttataa agttgattcg ctgaaaagtg ctatctcaaa 151 ccgacatcaa gaaagcTATA TATAaaggac ccttagagac ccttcactac 201 ATCAAAAACA AACTCTAAGT CATCTCTTAT ATATCGTCAG CCAAAGACTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00122 Mean Expected Number 0.008 +strand -137 : -131 CTCCCAC AC RSP00192 Mean Expected Number 0.002 +strand +6 : +17 aAACAAACTCTA AC RSP00522 Mean Expected Number 0.005 -strand -174 : -180 CCACTTG AC RSP00613 Mean Expected Number 0.008 +strand -45 : -38 ATCAAGAA AC RSP01237 Mean Expected Number 0.010 -strand -24 : -33 CTtTATATAT Totally 5 motifs of 5 different REs have been found Description of REs found 120. Group RE: Box C /AC: RSP00122//OS: Pisum sativum /GENE: AS1/RE: Box C /TF: unknown 185. Group RE: AACA motif /AC: RSP00192//OS: Oryza sativa /GENE: Gt3/RE: AACA motif /TF: unknown 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 589. Group RE: UN Z1 /AC: RSP00613//OS: Lycopersicon esculentum /GENE: rbcS2/RE: UN Z1 /TF: unknown 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G15750 |PROD: the same as GENE |complement(8967555..8968602) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +56 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.14 T - 0.24 C - 0.21 1 tacccaagag gagcaaaata agattagcag cttaaattaa ttgtgttgga 51 ttaaatgaaa cttgcactat gaatggcaaa aaagaggtta caatctagca 101 accacctcat aaaccctcat taatgagata ctgactcgtg aaCCAATcaa 151 atctcaagtt tcgtagTTTA AATAagtagt aaacacctcc tgatcaaagc 201 ATCACCACCA CCAAATATCA AACGCAAAAA CCTATTATCA AAAGAACTAG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00847 Mean Expected Number 0.006 +strand -99 : -90 CCACCTCATa AC RSP01755 Mean Expected Number 0.007 +strand -102 : -95 CAACCACC Totally 2 motifs of 2 different REs have been found Description of REs found 789. Group RE: NON /AC: RSP00847//OS: Zea mays /GENE: H3C4/RE: NON /TF: unknown 1560. Group TF: C1 /AC: RSP01755//OS: Glycine max /GENE: a2/RE: C1BS1 /TF: C1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: PRL1 |LOCUS: AT4G15900 |PROD: |9023743..9027681 |SUPPORT | 17 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +47 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.10 T - 0.36 C - 0.17 1 atcttaatac atatcaatct aattactcat taaccatatt aagaaaatat 51 gtgtctttat tttttccttt taacataaag cttaaaaaga agatttgtag 101 ccagaaaaat taATTGTgtt catttccctt ttaaaagaat ttttcggcgc 151 aacaaaatcg tgaaattgaT ATAAATAaac tcgagattat taatataacc 201 CTTTTTCACT TCACTTCTCT TTCTCTCTAA ACCCTAAAAG AAGAACGATG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.003 -strand +37 : +29 TTAGGGTTT AC RSP00369 Mean Expected Number 0.003 +strand +29 : +37 AAACCCTAA AC RSP00861 Mean Expected Number 0.003 -strand +24 : +16 AGAAAGAGA AC RSP01303 Mean Expected Number 0.007 +strand +28 : +37 TAAACCCTAA AC RSP01304 Mean Expected Number 0.004 +strand +28 : +37 TaAACCCTAA Totally 5 motifs of 5 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1197. Group RE: Telo box /AC: RSP01304//OS: Lycopersicon esculentum /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G16146 |PROD: the same as GENE |complement(9142445..9144588) |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +218 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.12 T - 0.34 C - 0.22 1 caatagccaa aagtcctatt aaactacatg agataatatt taacttcata 51 acttaccacc aagaaaatga aataaattaa gaaaatatct aaaaagctta 101 cacacgtgta tgttgccctt agcctaatgt gcctaactac tacgcacgtg 151 tggccgtatg atgtaTATAA ATAcatatac aagttttgct aaacgcatac 201 CTTTTTTTTT ATCTCACCGT CTTTTATTTC GTCTTCCTCA TCTTTCTCGT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00049 Mean Expected Number 0.001 +strand -58 : -49 CGCACGTGTg AC RSP00158 Mean Expected Number 0.009 -strand -114 : -124 TATTTtCTTAA AC RSP00524 Mean Expected Number 0.006 +strand -99 : -93 ACACGTG AC RSP00524 Mean Expected Number 0.006 -strand -50 : -56 ACACGTG AC RSP00524 Mean Expected Number 0.006 -strand -92 : -98 ACACGTG AC RSP00596 Mean Expected Number 0.009 -strand -47 : -52 GCCACA AC RSP01152 Mean Expected Number 0.000 -strand -49 : -58 CACACGTGCg AC RSP01256 Mean Expected Number 0.002 +strand -99 : -92 ACACGTGT AC RSP01256 Mean Expected Number 0.002 -strand -92 : -99 ACACGTGT Totally 9 motifs of 6 different REs have been found Description of REs found 48. Group RE: G-box /AC: RSP00049//OS: Hordeum vulgare /GENE: HVA22/RE: G-box /TF: unknown 153. Group RE: D3 /AC: RSP00158//OS: Glycine max /GENE: GmAux28/RE: D3 /TF: unknown 500. Group TF: DPBF-1; DPBF-2 /AC: RSP00524//OS: Daucus carota /GENE: Dc3/RE: E4-core /TF: DPBF-1; DPBF-2 572. Group RE: Box II EE2 /AC: RSP00596//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: Box II EE2 /TF: unknown 1067. Group TF: EmBP-1 (+VP1) /AC: RSP01152//OS: Zea mays /GENE: Em/RE: Em1b /TF: EmBP-1 (+VP1) 1159. Group TF: GBF1 /AC: RSP01256//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS3 /TF: GBF1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: glycosyl hydrolase family 17 protein |LOCUS: AT4G16260 |PROD: the same as GENE |complement(9200025..9201544) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +87 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.12 T - 0.34 C - 0.16 1 aaagatattc tcttttgcat ataagatttg ataaattgaa cgcatatttg 51 cactcaagct aacgttatgt acttgattac ttgacccgac taatgactta 101 ttgactttga ttaataaaca aagatattag ccactccatt ctacattata 151 tacaatctat acgcatcTAT ATATAtctac taaaaaaatt gtaagtacat 201 ACATATCAAT GTTAATTTGT ATATAAGGAG CTAAGAACAA ACCCAATTAG 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00597 Mean Expected Number 0.001 +strand +11 : +22 GTTAATTTGTaT AC RSP00961 Mean Expected Number 0.004 -strand -182 : -189 TGCAAAAG Totally 2 motifs of 2 different REs have been found Description of REs found 573. Group RE: GT-1/16 JJ1 /AC: RSP00597//OS: Lycopersicon esculentum /GENE: rbcS3A/RE: GT-1/16 JJ1 /TF: unknown 886. Group TF: BPBF /AC: RSP00961//OS: Hordeum vulgare /GENE: ITR1/RE: PB1 /TF: BPBF ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: ATTPS03 |LOCUS: AT4G16740 |PROD: terpene synthase/cyclase family protein |9407790..9410899 |SUPPORT | 7 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +88 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.14 T - 0.29 C - 0.16 1 ccattacttc tccaagtttt tttgttgtgt gggaataata cttctccaag 51 atatttaaga aaacgcaaat gcatggtcat tgaattatat agcgagaaaa 101 cgtcaaaaac taaactgatt aaaacagata ttcttttagt aaaacagaaa 151 aaataaaaat atcttcaTAT ATATAacctg tggtccgaga cccaaacctt 201 AAATCAGTAT AAAATATCAT AGCGGAGTCT AAAGAAGAGT TCATCCAATT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01094 Mean Expected Number 0.003 -strand +51 : +40 TAATTGGATgAA AC RSP01127 Mean Expected Number 0.004 +strand +5 : +23 CAGT-- ** bp --AGCG AC RSP01167 Mean Expected Number 0.007 -strand -144 : -152 TAAATATCT Totally 3 motifs of 3 different REs have been found Description of REs found 1012. Group TF: GT-1 /AC: RSP01094//OS: Pisum sativum /GENE: GS2/RE: GT-1 box /TF: GT-1 1046. Group TF: ZPT2-2 /AC: RSP01127//OS: Petunia hybrida /GENE: Synthetic OLIGO/RE: ZPT2-2 BS 1 /TF: ZPT2-2 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: arabinogalactan-protein family |LOCUS: AT4G16980 |PROD: the same as GENE |9556997..9557831 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +109 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.08 T - 0.36 C - 0.24 1 ttccatatat attgactatt ctatctgtac ctacaatgag atttcaactt 51 tggagttttc atcttttttt tctttccaat ttgtggagga aaataaatca 101 gcatctcata cctatccatc gactgatacg tgtcacacAT TGTatccaac 151 gatccaaaat TATAAAACaa ataatctcta atatatatcc aaatagcaca 201 AAGAACCTTC ACTTTTCTCT CCCACTCTTT CTTTTACTAC TCTCACACAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00070 Mean Expected Number 0.001 +strand -74 : -67 TACGTGTC AC RSP00405 Mean Expected Number 0.001 +strand -152 : -145 TTTGGAGT AC RSP01035 Mean Expected Number 0.004 +strand -73 : -67 ACGTGTC AC RSP01068 Mean Expected Number 0.007 -strand -64 : -72 TGTGACACG AC RSP01087 Mean Expected Number 0.004 +strand -176 : -169 CTGTACCT AC RSP01288 Mean Expected Number 0.002 +strand -75 : -68 ATACGTGT AC SP017556 Mean Expected Number 0.002 +strand -85 : -78 CCATCGAC Totally 7 motifs of 7 different REs have been found Description of REs found 69. Group TF: TRAB1 /AC: RSP00070//OS: Oryza sativa /GENE: Osem/RE: ABRE motif A /TF: TRAB1 387. Group RE: adjb /AC: RSP00405//OS: Nicotiana tabacum /GENE: RNP2/RE: adjb /TF: unknown 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 987. Group TF: HvH21 /AC: RSP01068//OS: Hordeum vulgare /GENE: Synthetic OLIGOs/RE: HvH21 BS /TF: HvH21 1005. Group TF: CRR1 /AC: RSP01087//OS: Helianthus annuus /GENE: CYC6; CPX1; CRD1; CTR; CTH1locus;/RE: CuRE 1 /TF: CRR1 1185. Group RE: Z-DNA-motif /AC: RSP01288//OS: Arabidopsis thaliana /GENE: cab1/RE: Z-DNA-motif /TF: unknown 1561. Group TF: C1 /AC: SP017556//OS: Glycine max /GENE: a2/RE: C1BS2 /TF: C1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: ATP-dependent Clp protease proteolytic subunit |LOCUS: AT4G17040 |PROD: the same as GENE |complement(9585724..9589381) |SUPPORT | 8 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +65 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.28 G - 0.19 T - 0.35 C - 0.18 1 tgcagtggcc agtagattat ttatttggta gcctcatatt aaattatacg 51 ttttcgaaaa atgagaaatt cccggtttta cttcggtttg atttggttac 101 tattatagtc gaaaccggaa tattttcaga gaaaaaaaac tacaactatt 151 gggcctattt gttgagccCA TAAATAatgt tatgaagccc gatttgagac 201 AGATCGTTAT CGTTTCGGGG TCACAGGGAC TTTCACTCTT TCTCTCTCTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00864 Mean Expected Number 0.001 -strand +51 : +43 AGAGAGAGA AC RSP00864 Mean Expected Number 0.001 -strand +49 : +41 AGAGAGAGA AC RSP00868 Mean Expected Number 0.008 +strand -164 : -153 TATTAaATTATA Totally 3 motifs of 2 different REs have been found Description of REs found 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 804. Group RE: TA-rich motif /AC: RSP00868//OS: Nicotiana tabacum /GENE: NiPMT1a/RE: TA-rich motif /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: CT-BMY |LOCUS: AT4G17090 |PROD: beta-amylase (CT-BMY) / 1 |complement(9604978..9607350) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +84 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.10 T - 0.32 C - 0.23 1 ttaactaaaa catcttcctt tgtaactgat gtgacattta caatttttca 51 ttttgaggtg taagaaccgt gtgacaagtg aaaaggttaa aataagcaac 101 ctttgtgata ttttctctcc actttttgaa ATTGGgtctc caaaccacag 151 ccaatcaata ttcttTATAA ATAcaaacac acaaacagca tctttctctc 201 AAACACAAAC ATATCTTCTA TCAAACACCA ACAGCTCTAT TCTCTACCTC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00036 Mean Expected Number 0.009 +strand +22 : +29 CAAACACC AC RSP00254 Mean Expected Number 0.004 -strand -115 : -121 CCTTTTC AC RSP00741 Mean Expected Number 0.002 +strand -120 : -109 AAAAGGTTAAAA AC RSP01136 Mean Expected Number 0.007 -strand -125 : -131 TGTCACA AC RSP01136 Mean Expected Number 0.007 -strand -165 : -171 TGTCACA AC RSP01520 Mean Expected Number 0.010 -strand -142 : -147 ACCTCA AC RSP01601 Mean Expected Number 0.004 -strand -118 : -125 TTTCACTT Totally 7 motifs of 6 different REs have been found Description of REs found 35. Group TF: ABI3 /AC: RSP00036//OS: Brassica napus /GENE: napA/RE: ABRE Bp /TF: ABI3 247. Group RE: Py box /AC: RSP00254//OS: Hordeum vulgare /GENE: Amy pHV19/RE: Py box /TF: unknown ||Identical REs AC: RSP00676 703. Group RE: box 1 /Group TF: GT-1 /AC: RSP00741//OS: Nicotiana plumbaginifolia /GENE: Cab-E/RE: box 1 /TF: GT-1 1054. Group RE: TGTCACA motif /AC: RSP01136//OS: Cucumis melo /GENE: Cucumisin/RE: TGTCACA motif /TF: unknown 1371. Group TF: HBP-1a /AC: RSP01520//OS: Triticum aestivum /GENE: H2B (TH 123)/RE: Hex123-a /TF: HBP-1a 1422. Group RE: Inr /AC: RSP01601//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: L-lactate dehydrogenase, putative |LOCUS: AT4G17260 |PROD: the same as GENE |9674005..9675456 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +65 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.45 G - 0.12 T - 0.25 C - 0.18 1 accaaaacat gtttaaaatt agattcggac caaacaagtt gtcaattttt 51 agtacaaatc aaaggttcaa atgtcaataa ataatcatta cattttaaaa 101 tttcgaaata aaaggacaaa catgtaaaaa ccaaaaaagt gaagcactga 151 tatttgtcat ttctgccTAT AAAATgtaca cttcccactc acacggtcac 201 AGAAACCAAA TTCGAAGAAG AAACAGAGAA TCATCAAATC AAATCCCTAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01598 Mean Expected Number 0.002 +strand -46 : -39 TGTCATTT Totally 1 motifs of 1 different REs have been found Description of REs found 1419. Group RE: Inr /AC: RSP01598//OS: Spinacia oleracea /GENE: RPL21/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G17940 |PROD: the same as GENE |9965754..9966978 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +45 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.22 T - 0.24 C - 0.19 1 agtcagctcg tagttgattc ttcccccttg acggtcatct catcggacgg 51 ttgagatcag ccaactttaa gtgtatcaca cggaaaaggg aaatgtagcg 101 cgagaaagtc aaaagatcca acggtcgata tgaaacaaaa gtcagataat 151 cgtacggtag aaacgaagcT ATATATAgca acaattggat tattcttatc 201 ATCATCACTC TCTGAGATCG AAGAGAAAGC AAAATCAAAG TTGTGATGAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01708 Mean Expected Number 0.009 +strand -32 : -23 CTATATATAG AC RSP01708 Mean Expected Number 0.009 -strand -23 : -32 CTATATATAG Totally 2 motifs of 1 different REs have been found Description of REs found 1516. Group TF: RIN /AC: RSP01708//OS: Solanum lycopersicum /GENE: Synthetic OLIGO/RE: RIN BSC [MEF2] /TF: RIN ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G18425 |PROD: the same as GENE |complement(10181345..10182151) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +78 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.12 T - 0.32 C - 0.19 1 gtatcaaaat agagacgtaa aatataataa tatttataat cctctcttaa 51 ataaagaaga gtgtgcaaag aacatgcttc acttaaacaa agactttggt 101 ttggtctcaa aggttacttg caaggcataa gaaatgtgta aagcctcttt 151 tctctcgcct cgctctatTA TATATAcctc tactttagat ttcatcaatc 201 ATCATCATTC CTTCTTACAT CAAATCAATT CCTAAAATCA GAGAAAAACA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00653 Mean Expected Number 0.002 +strand -51 : -41 TTCTCTCgCCT AC RSP01086 Mean Expected Number 0.009 -strand -180 : -189 TTTACGTcTC AC RSP01725 Mean Expected Number 0.001 +strand -190 : -179 AGAgACGTAAAA Totally 3 motifs of 3 different REs have been found Description of REs found 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 1004. Group TF: bZIP TF /AC: RSP01086//OS: Helianthus annuus /GENE: sHSP/RE: bZIP BS /TF: bZIP TF 1533. Group TF: STF1/HY5 /AC: RSP01725//OS: Arabidopsis thaliana /GENE: NAC1 (At1g56010)/RE: G/A-box /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: NLM1 |LOCUS: AT4G19030 |PROD: |complement(10421543..10423498) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +78 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.10 T - 0.36 C - 0.20 1 atccctgaaa attgaatttg agacctggta tagaatctcc acaaacatag 51 gaatttatta ttattaaaaa agctttatta acaatatatc atcttcttct 101 tttttTCAAT taataaactg gtaatattaa aatcgtcaaa gaagtctctc 151 tctcccccat gtttgccAAT AAATAggaga taatcgctac caaacttctc 201 ATTCTCACAA GTCATAAACA GTCGTTTATA GTTCAATCCT TTTCCTCTTC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00039 Mean Expected Number 0.004 +strand -188 : -178 TGAATTTGaGA AC RSP00864 Mean Expected Number 0.002 -strand -48 : -56 AGAGAGAGA AC RSP00865 Mean Expected Number 0.001 -strand -46 : -54 GGAGAGAGA Totally 3 motifs of 3 different REs have been found Description of REs found 38. Group TF: GT-1 related TFs /AC: RSP00039//OS: Lycopersicon esculentum /GENE: LAT56; LAT59;/RE: 56/59 box /TF: GT-1 related TFs 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G19430 |PROD: the same as GENE |complement(10598456..10599155) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +56 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.10 T - 0.31 C - 0.18 1 aaagcaaaaa ttaatcgctt aagtttccac cctttaagat gtacccatca 51 aaaaaaaaaa atcaagatat ttaatttcgt tttagcaaat cttatgcaaa 101 cctctaatta gcaccttatt atacatacca tcatactaca catatttgtg 151 tatgtataga tgtgtgaaTA TAAATAtgtt aagtaaggag tgaaagagca 201 ATCCACAAAC CAATCACTTC ATAGTTCATA CCATATATCA ATTCTCTCAT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00377 Mean Expected Number 0.007 +strand +8 : +17 AACCAATCaC AC RSP01167 Mean Expected Number 0.006 -strand -128 : -136 TAAATATCT AC RSP01686 Mean Expected Number 0.009 -strand -35 : -40 CACACA Totally 3 motifs of 3 different REs have been found Description of REs found 362. Group RE: LS5 /AC: RSP00377//OS: Lemna gibba /GENE: Lhcb2 (cabAB19)/RE: LS5 /TF: unknown 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins 1504. Group RE: CARE D /AC: RSP01686//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE D /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: IRT1 |LOCUS: AT4G19690 |PROD: similar to metal transporter |10707436..10709025 |SUPPORT | 1 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +61 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.09 T - 0.27 C - 0.20 1 atcaacttaa taaaatctag ctaggtactt tcataattct atcattattc 51 cttttgaacg attaattact ttattttctc gtttcacact ggaagcaaac 101 gagtaatcaa ataaaatttc gtcatcatcg ACAATaaatg gcatgaaaac 151 aaccagcaca cattactaTA TAAACCgatt catctagtaa gtccaaagtc 201 ACACAAACAT TAAACAATCT AAACACACAA CAATCCAAAA GAAAAAAGAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00035 Mean Expected Number 0.005 -strand -145 : -151 CAAAAGG AC RSP00055 Mean Expected Number 0.006 -strand -161 : -172 AGAATTATgAAA AC RSP00503 Mean Expected Number 0.001 +strand -184 : -177 CTAGCTAG AC RSP00503 Mean Expected Number 0.001 -strand -177 : -184 CTAGCTAG AC RSP00681 Mean Expected Number 0.004 -strand -133 : -141 TAATTAATC Totally 5 motifs of 4 different REs have been found Description of REs found 34. Group RE: D1 /Group TF: Dof family /AC: RSP00035//OS: Hordeum vulgare /GENE: Al21/RE: D1 /TF: Dof family 54. Group RE: Box 3 /AC: RSP00055//OS: horseradish (Armoracia lapathifolia) /GENE: prxC2/RE: Box 3 /TF: unknown ||Identical REs AC: RSP00645 479. Group TF: RITA-1 /AC: RSP00503//OS: Nicotiana tabacum /GENE: Ntltp1/RE: D1 box /TF: RITA-1 650. Group RE: Box 4 /AC: RSP00681//OS: Pisum sativum /GENE: PSPAL2/RE: Box 4 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: integral membrane family protein |LOCUS: AT4G20390 |PROD: the same as GENE |11007046..11008075 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +33 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.13 T - 0.29 C - 0.24 1 tcttagcttt ggtagataag acttgtctta gagcaagtct tgaaatctgg 51 aaatctattt tgcagtaatc ttgtcacaac aaccataacc taatcagtca 101 gtaccctcca agaacattaa agttagatga tccgacaaaa cctctcaaca 151 agaccaaact ctttccaTAT AAATActctt taacactgac acaaagtttc 201 ATCACTTTCT CTTGATCACT CACTGCATCA ACAATGGCCA GAGAGAAGAT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00489 Mean Expected Number 0.002 -strand -183 : -192 TAtCTACCAA Totally 1 motifs of 1 different REs have been found Description of REs found 465. Group RE: UVLRE2 /AC: RSP00489//OS: Glycine max /GENE: chs1/RE: UVLRE2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: TUB9 |LOCUS: AT4G20890 |PROD: tubulin beta-9 chain (TUB9) |11182103..11184083 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +126 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.15 T - 0.27 C - 0.16 1 ttaattaaca aaaatatcta aggaaagata tttgtttttg attcgctgta 51 taacagcaca taaaggaaac caaatcgaaa aactatcagg gtaatatcaa 101 aaaCCAATag aagtctaagg acgaaaatgc aaattatttg agaaactaga 151 gaaaaaagga ggtaaacTAT ATATAgccga ttactactct catttgtttt 201 TATACCCCTC AATCATAAAC AATAAACAGA GGGAGTCGCC AAATTTTCTC 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00163 Mean Expected Number 0.004 -strand -42 : -52 CCTTTTtTCTC AC RSP01093 Mean Expected Number 0.005 +strand -184 : -174 TCTAAGgAAAG Totally 2 motifs of 2 different REs have been found Description of REs found 158. Group TF: ARF1 /AC: RSP00163//OS: Glycine max /GENE: Synthetic OLIGO/RE: DR5 /TF: ARF1 1011. Group RE: box 2 /AC: RSP01093//OS: Pisum sativum /GENE: GS2/RE: box 2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: myb family transcription factor (MYB102) |LOCUS: AT4G21440 |PROD: the same as GENE |complement(11418257..11419771) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +108 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.12 T - 0.33 C - 0.23 1 tatagctgcc acaaacgtaa aaataaaata aaaagcatcc ataataatgg 51 ataaaagcat cgtataaacg caaaatctat tagatttttg tttttatggg 101 acacgtatac caATTGAtaa acagaggacg gcaccgaacc attttgactt 151 ccctcttctt ctctcccTAT AAATActttg tacttcccct tacggaccct 201 ACGACCTTTT GTTTCTCTCT TCTCTATTAA TACTATAGTT TTCCTCAAAC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00068 Mean Expected Number 0.003 +strand -101 : -92 GACACGTAtA AC RSP00070 Mean Expected Number 0.002 -strand -94 : -101 TACGTGTC AC RSP00163 Mean Expected Number 0.004 +strand +5 : +15 CCTTTTGTtTC AC RSP00284 Mean Expected Number 0.003 -strand -70 : -75 CCGTCC AC RSP00653 Mean Expected Number 0.006 +strand +13 : +23 TTCTCTCTtCT AC RSP00888 Mean Expected Number 0.004 -strand -112 : -120 AAAAATCTA AC RSP01017 Mean Expected Number 0.009 -strand +16 : +9 AGAAACAA AC RSP01035 Mean Expected Number 0.006 -strand -95 : -101 ACGTGTC AC RSP01086 Mean Expected Number 0.005 -strand -180 : -189 TTTACGTTTg AC RSP01288 Mean Expected Number 0.006 -strand -93 : -100 ATACGTGT AC RSP01296 Mean Expected Number 0.007 +strand -34 : -26 CTATAAATA AC RSP01301 Mean Expected Number 0.002 +strand -34 : -25 CTATAAATAC Totally 12 motifs of 12 different REs have been found Description of REs found 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 69. Group TF: TRAB1 /AC: RSP00070//OS: Oryza sativa /GENE: Osem/RE: ABRE motif A /TF: TRAB1 158. Group TF: ARF1 /AC: RSP00163//OS: Glycine max /GENE: Synthetic OLIGO/RE: DR5 /TF: ARF1 275. Group RE: Box A /AC: RSP00284//OS: Petroselinum crispum /GENE: PAL-1/RE: Box A /TF: unknown ||Identical REs AC: RSP00849 RSP00856 627. Group RE: CT-LB /AC: RSP00653//OS: Spinacia oleracea /GENE: petH/RE: CT-LB /TF: unknown 820. Group TF: CCA1 /AC: RSP00888//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: CCA1 motif (2) /TF: CCA1 942. Group TF: AEF /AC: RSP01017//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 2 /TF: AEF 960. Group TF: ABI3; ABI5; AREB1 /AC: RSP01035//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 3 /TF: ABI3; ABI5; AREB1 1004. Group TF: bZIP TF /AC: RSP01086//OS: Helianthus annuus /GENE: sHSP/RE: bZIP BS /TF: bZIP TF 1185. Group RE: Z-DNA-motif /AC: RSP01288//OS: Arabidopsis thaliana /GENE: cab1/RE: Z-DNA-motif /TF: unknown 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G21780 |PROD: the same as GENE |11567142..11567711 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +83 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.43 G - 0.13 T - 0.29 C - 0.15 1 atattacgtc taaaatgttg atggaccgat cctagtagtc ttttttatta 51 gaaaaatata aaagttaaca gtgagattat atttgaacat aaataatctt 101 aaatacagta aaaggaagaa aatagataaa gaaatgggat gaccaaccaa 151 caaaagccat cacctatcaT ATAAAAAgat aatacatttt ctactacttt 201 AGCTTCAAGG ATCTTAATAA CACTTCGTTA CCACTTGATC AAGAGAAACA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00522 Mean Expected Number 0.004 +strand +31 : +37 CCACTTG AC RSP00792 Mean Expected Number 0.009 +strand -58 : -49 CCAAcCAACA AC RSP01454 Mean Expected Number 0.009 +strand -59 : -53 ACCAACC Totally 3 motifs of 3 different REs have been found Description of REs found 498. Group TF: DPBF-1; DPBF-2 /AC: RSP00522//OS: Daucus carota /GENE: Dc3/RE: E2-core /TF: DPBF-1; DPBF-2 745. Group RE: DAE /AC: RSP00792//OS: Hordeum vulgare /GENE: Amy32b/RE: DAE /TF: unknown 1325. Group RE: AC-II /Group TF: PtMYB4 /AC: RSP01454//OS: Pinus taeda /GENE: Synthetic OLIGO/RE: AC-II /TF: PtMYB4 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G21840 |PROD: the same as GENE |complement(11587098..11588283) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +93 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.11 T - 0.39 C - 0.17 1 aaaaatgtat tcatatcgtg atacaaggaa atgtatatta taaacacatt 51 caaaagtcca caagcactac ctcattgcgt ttgctgttac ctaaattaat 101 tattatttgt ttagtatagt tttcttggAC AATtcttctg cttctttgaa 151 aaatattctt gtctatgtct attTATAAAT Gttgaatcac aattaaactt 201 AAACCGAGTC TTTCGTACAA AACTTCAAAC ATAAGCTAAT TTCTTCCTCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01600 Mean Expected Number 0.010 -strand -50 : -57 TTTCAAAG AC RSP01640 Mean Expected Number 0.007 +strand -38 : -29 CTATGTCTaT AC RSP01641 Mean Expected Number 0.007 +strand -44 : -35 TCTTGTCTAT Totally 3 motifs of 3 different REs have been found Description of REs found 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown 1460. Group RE: ARE /AC: RSP01640//OS: Nicotiana tabacum /GENE: Beta-glucanase/RE: ARE /TF: unknown 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G21870 |PROD: the same as GENE |complement(11603582..11604343) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +46 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.12 T - 0.33 C - 0.17 1 ctcataaatc aatcttctcc ccaccctatt atcgtctttt caagtgattt 51 gtacttaatg tttcatttat tatcgacttt caagtttttt atattttcag 101 ggttaaagat caacttttca agtttagaca gcaacttgct caaatggttc 151 atgtggggtc atttttaacT ATAAATAgaa acccaaaaat caatcaatcc 201 ACAAGAACAA CTGAAAAAAG GAAAAGAAAG AAATCTATAA AAAAAAATGG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00085 Mean Expected Number 0.008 +strand -35 : -20 TaACTATAAATAGAAA AC RSP00085 Mean Expected Number 0.008 -strand -20 : -35 TTTCTATTTATAGTtA AC RSP00530 Mean Expected Number 0.004 +strand -42 : -31 TCaTTTTTAACT AC RSP00669 Mean Expected Number 0.001 -strand -102 : -115 TGAaAATATAAAAA AC RSP00860 Mean Expected Number 0.004 +strand +25 : +33 AGAAAGAAA Totally 5 motifs of 4 different REs have been found Description of REs found 83. Group TF: AGL3 /AC: RSP00085//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AGL3-BE /TF: AGL3 506. Group RE: AT-rich F /AC: RSP00530//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: AT-rich F /TF: unknown 640. Group RE: B-box /AC: RSP00669//OS: Lycopersicon esculentum /GENE: PG/RE: B-box /TF: unknown 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G22212 |PROD: the same as GENE |11753998..11754700 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +33 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.16 T - 0.30 C - 0.15 1 taaattacta aaaaaggtaa acttggataa tcattttatt gtaaagatat 51 tgacaatttg acataaagta ttttgatcta tgtacccatt ccaatatata 101 aaATTGCata gtggtttttt cttacaaaaa aaaaagagta acatctagat 151 gccctttccc ttggagtgcT ATAAATTcag actccttccc taaataaatc 201 ACAAAGCGAG AAAGAAAGAC GAACTGATCA GCAATGGGAA GCTTAAGGGT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00080 Mean Expected Number 0.005 +strand -196 : -181 TTACtAAAAAAGGTAA AC RSP00080 Mean Expected Number 0.005 -strand -181 : -196 TTACCTTTTTTaGTAA AC RSP00085 Mean Expected Number 0.007 +strand -196 : -181 TTACTAAAAAaGGTAA AC RSP00085 Mean Expected Number 0.007 -strand -181 : -196 TTACCtTTTTTAGTAA AC RSP00860 Mean Expected Number 0.009 +strand +9 : +17 AGAAAGAAA AC RSP01033 Mean Expected Number 0.008 -strand -184 : -193 CCTTTTTTAG AC RSP01205 Mean Expected Number 0.008 -strand -184 : -193 CCTTTTTTAG Totally 7 motifs of 5 different REs have been found Description of REs found 79. Group TF: MADS-domain AGAMOUS BF /AC: RSP00080//OS: Arabidopsis thaliana /GENE: STE2; other genes/RE: AGAMOUS MADS BS /TF: MADS-domain AGAMOUS BF 83. Group TF: AGL3 /AC: RSP00085//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AGL3-BE /TF: AGL3 796. Group TF: BPC1 /AC: RSP00860//OS: Arabidopsis thaliana /GENE: STK/RE: GA-1 /TF: BPC1 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1115. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01205//OS: Arabidopsis thaliana /GENE: AtCRC/RE: EM2 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: SWIB complex BAF60b domain-containing protein |LOCUS: AT4G22360 |PROD: the same as GENE |11807672..11810129 |SUPPORT | 6 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +151 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.42 G - 0.21 T - 0.20 C - 0.17 1 gcgaagaagt aaaaaagcaa atagattagc caaaatacga caacaccctc 51 tacctacaag ccatagatac catgactcat aagggcaaca ccgacatttg 101 tcatcatttg ataaatctaa ccaaccctga agggcatatt cgtctttcca 151 aatagtTATA AAGAgacaga gacgaagaag gagagagaga aagagacaag 201 ATTAGAGAAG AGGATAAGAG AGAGAAAGAT ATAGAGAATT TGTTGTCTTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00331 Mean Expected Number 0.006 +strand -135 : -127 GATACCATG AC RSP00664 Mean Expected Number 0.001 -strand -121 : -129 ATGAGTCAT AC RSP00864 Mean Expected Number 0.006 +strand -19 : -11 AGAGAGAGA AC RSP00864 Mean Expected Number 0.006 +strand +17 : +25 AGAGAGAGA AC RSP00865 Mean Expected Number 0.003 +strand -21 : -13 GGAGAGAGA AC RSP00950 Mean Expected Number 0.001 +strand -84 : -74 CTaACCAACCC AC RSP01083 Mean Expected Number 0.000 +strand -85 : -74 TCTaACCAACCC AC RSP01278 Mean Expected Number 0.002 +strand -129 : -121 ATGACTCAT AC RSP01278 Mean Expected Number 0.002 -strand -121 : -129 ATGAGTCAT AC RSP01641 Mean Expected Number 0.002 -strand +1 : -9 TCTTGTCTCT Totally 10 motifs of 8 different REs have been found Description of REs found 317. Group TF: S1F /AC: RSP00331//OS: Spinacia oleracea; Pisum sativum; Arabidopsis thaliana; /GENE: prs 1 and RPL21 (spinach), rbcS-3a (pea, tomato, Arabidopsis),/RE: S1, consensus /TF: S1F 636. Group RE: C-box /Group TF: Opaque-2 (O2); TGA1 /AC: RSP00664//OS: Pisum sativum /GENE: psl/RE: C-box /TF: Opaque-2 (O2); TGA1 ||Identical REs AC: RSP00687 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 879. Group RE: CTCACCAACCC motif /AC: RSP00950//OS: Petroselinum crispum /GENE: 4CL-1/RE: CTCACCAACCC motif /TF: unknown 1001. Group TF: DcMYB1 /AC: RSP01083//OS: Daucus carota /GENE: DcPAL1/RE: box-L5 /TF: DcMYB1 1177. Group TF: AP1/GCN4 /AC: RSP01278//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: B consensus /TF: AP1/GCN4 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: MYB85 |LOCUS: AT4G22680 |PROD: myb family transcription factor (MYB85) |complement(11922351..11924227) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +136 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.18 T - 0.35 C - 0.14 1 gtgttaccaa tcgaaccatg tatatatata taaccgttac tagttaaaat 51 gctttgccat aatgccacta gaatttttaa taaaagttac taaaacaatt 101 tcgaaaatat taagatgtaa agttattttt tcctgaaacc aATTGTgggg 151 gaaaggtgtg agaaggtTAT ATATAggtgg gtgagctttg gtaagctttt 201 GACATAACTT GCAAGCTGTT GAGATTTTCC ATCCTCGATA ACTTTATTCT 251 T Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: zinc finger (DHHC type) family protein |LOCUS: AT4G22750 |PROD: the same as GENE |complement(11949197..11951402) |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +56 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.42 G - 0.11 T - 0.33 C - 0.14 1 aaaaaattat aattcttaaa attatcacaa agaaaagtta taattcttaa 51 aatttaacag agtataataa aaagcctcag aaataaatat attaattttt 101 gaacaaagaa aaaaggataa ttatccatga aaacaaaaaa ATTGTcagct 151 cgatttcatc gaaattTATA AACTttattc ctcaattcaa tttggggttt 201 GCTTCATTTT TTTCTCCGAC CAAACAAGTT CCGGGTGTTT TGAAAGAACC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00521 Mean Expected Number 0.001 -strand +38 : +32 ACACCCG AC RSP00680 Mean Expected Number 0.008 +strand -146 : -137 TAACAGAGTa Totally 2 motifs of 2 different REs have been found Description of REs found 497. Group TF: DPBF-1; DPBF-2 /AC: RSP00521//OS: Daucus carota /GENE: Dc3/RE: E1-core /TF: DPBF-1; DPBF-2 649. Group RE: GARE/Box 2 /AC: RSP00680//OS: Hordeum vulgare /GENE: Amy32b/RE: GARE/Box 2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: zinc finger (AN1-like) family protein |LOCUS: AT4G22820 |PROD: the same as GENE |complement(11987720..11989012) |SUPPORT | 2 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +600 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.17 T - 0.31 C - 0.18 1 aaaacagtgc cattattatt ccgtttagct gctcgatgat aaattataac 51 cgtcagatta ggtcagccaa aagaatcgca cggttaagat tacgaaagtg 101 tACAATaagg aggtgtagaa gaacacaact taaaaaaagt gaaaaccgta 151 gcgtgactca taccaTATAA ATAtatacac atgtatgttc ctccatagtt 201 ACGTGTTTCT GTTTTTCTCT AATTTTTCTC TTGTTGTTCT CGATTAACGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.005 +strand -67 : -56 AAAAAGTgAAAA AC RSP00501 Mean Expected Number 0.004 -strand -166 : -172 CGAGCAG AC RSP01261 Mean Expected Number 0.004 +strand -2 : +6 TTACGTGT Totally 3 motifs of 3 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 477. Group TF: EmBP-1 /AC: RSP00501//OS: Triticum aestivum /GENE: Em/RE: Em2 /TF: EmBP-1 1163. Group TF: GBF1 /AC: RSP01261//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS8 /TF: GBF1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: PIP1;5/PIP1D |LOCUS: AT4G23400 |PROD: |12220753..12222380 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +49 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.11 T - 0.35 C - 0.12 1 taatttagtc taaattcact aatttatttt ctataattag taattaacta 51 tatttattta tttacacatt ttctgataat ttagaaattt gcatgaataa 101 caaatataag attttggaaa ttagtagcaa atttaattaa taattatttt 151 tgcctaaatg aaccaaacTA TAAAACctcc acatacacca gtcatcaaat 201 TTACAGAGAC AACAAACTAA AGTTGGTGGT GATAGAGTGA GAGAGAAACA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00085 Mean Expected Number 0.001 +strand -173 : -158 TTTCTATAATTAGTAA AC RSP00085 Mean Expected Number 0.001 -strand -158 : -173 TTACTAATTATAGAAA AC RSP00107 Mean Expected Number 0.007 -strand -106 : -112 CATGCAA AC RSP00985 Mean Expected Number 0.007 -strand -32 : -41 AGTTtGGTTC AC RSP01104 Mean Expected Number 0.001 +strand -28 : -21 AAACCTCC AC RSP01641 Mean Expected Number 0.004 -strand +14 : +5 TgTTGTCTCT Totally 6 motifs of 5 different REs have been found Description of REs found 83. Group TF: AGL3 /AC: RSP00085//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: AGL3-BE /TF: AGL3 105. Group RE: RY2 /AC: RSP00107//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY2 /TF: unknown 906. Group TF: PBP (Myb305) /AC: RSP00985//OS: Antirrhinum majus /GENE: gPAL2/RE: P-box /TF: PBP (Myb305) 1022. Group RE: AC2 /AC: RSP01104//OS: Spinacia oleracea /GENE: rps22/RE: AC2 /TF: unknown 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G23690 |PROD: the same as GENE |complement(12338881..12339757) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +32 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.10 T - 0.31 C - 0.23 1 agttaccacc aaccccgctt ccgcatggtc gttaaacctt atgatctttc 51 taatttatat cttaaatata aatcggcaaa acatcaacaa cccattagat 101 atgtccctca aactttgaaa acgattatcc aaataaatta tttattaaaa 151 caagtgaata atacttctaT ATAAATGggt ttaagcctcc ttcattaaac 201 ACATCTCACA ACTCACTAAT CTCTAGCTAA CCATGGCATT TCTAGTAGAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00078 Mean Expected Number 0.001 +strand -195 : -184 CCACCAACCCCg AC RSP00145 Mean Expected Number 0.007 -strand -20 : -25 AACCCA AC RSP00357 Mean Expected Number 0.010 +strand +9 : +16 CAACTCAC AC RSP00881 Mean Expected Number 0.001 +strand -118 : -109 ATCAACAACC AC RSP01600 Mean Expected Number 0.008 -strand -81 : -88 TTTCAAAG Totally 5 motifs of 5 different REs have been found Description of REs found 77. Group RE: AC-II /AC: RSP00078//OS: Phaseolus vulgaris /GENE: PAL2/RE: AC-II /TF: unknown 141. Group TF: SEF3 /AC: RSP00145//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: SEF3 BS 2 /TF: SEF3 ||Identical REs AC: RSP00338 342. Group RE: CARE1 /AC: RSP00357//OS: Oryza sativa /GENE: Rep-1/RE: CARE1 /TF: unknown 817. Group TF: Dof family /AC: RSP00881//OS: Hordeum vulgare /GENE: Al21/RE: M2 /TF: Dof family 1421. Group RE: Inr /AC: RSP01600//OS: Spinacia oleracea /GENE: RPS22/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: nucleoside diphosphate kinase 4 (NDK4) |LOCUS: AT4G23900 |PROD: the same as GENE |12424465..12426536 |SUPPORT | 7 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +50 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.17 T - 0.33 C - 0.19 1 ggttacaata tttttggttt acttctttta gctgctaaag acattggaat 51 atattcgttt cttgaatagg caataattct agttggaaaa caaaagtgat 101 tagaaagGCA ATaaatcctg agcctttaag tccttgtctg atccgacccg 151 atcaaaacat gttggTATAA AATcttccaa taggttcaca tttttgaggt 201 CCCTGTTTGC ACATCACTCT TCTCAGTCCT CACGCATCGT ATCAGAGAAA 251 A Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G24380 |PROD: the same as GENE |12612545..12614027 |SUPPORT | 4 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +19 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.24 T - 0.22 C - 0.16 1 aaaaattgcc aaccaatcag tttggcccaa taagaaaagg aagaaaacct 51 gaatttcact taatctatcg gccctttttt ggtatttccc atgtgcgata 101 aatttatacg atcaaatgtg aaccacgatg gttcctggaa gaaggaagag 151 atttgcagca acagagcgtT ATAAAAAggc gaagcaagag ggaagacaac 201 AGATAACAAA TTGTGAAGAA TGGGAAGCGA AGGAAGATCG ATTGCGAGGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01033 Mean Expected Number 0.001 +strand -128 : -119 CCTTTTTTGG AC RSP01214 Mean Expected Number 0.001 +strand -128 : -119 CCTTTTTTGG AC RSP01509 Mean Expected Number 0.001 +strand -189 : -181 ACCAATCAG AC RSP01601 Mean Expected Number 0.001 +strand -147 : -140 TTTCACTT Totally 4 motifs of 4 different REs have been found Description of REs found 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1122. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01214//OS: Brassica oleracea /GENE: BoCRC/RE: EM1 /TF: MADS box TFs 1364. Group RE: CCAAT box /AC: RSP01509//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CCAAT box /TF: unknown ||Identical REs AC: RSP01510 1422. Group RE: Inr /AC: RSP01601//OS: Spinacia oleracea /GENE: PsaDb/RE: Inr /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G24440 |PROD: the same as GENE |12633190..12634768 |SUPPORT | 4 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +280 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.16 T - 0.34 C - 0.20 1 tttagtcaca ttattgtata cgcaattttg tattgcgggt tactttacta 51 ataaaaaaaa agacattata tgggccttgt gttgggcctt ctttctaatc 101 tcagatttga ctttattaca aacgaaaggg taagaatgta atttttcgcc 151 gactcgatct atcgctgccT ATATATAcag ttacctgcaa aatctagggt 201 ATAAAAGCCC CTAATTTTTT CTCCGCCCAA GAGACAAAAA TCCTTCGCAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00445 Mean Expected Number 0.008 +strand -145 : -136 AAAAAAGAcA AC RSP01237 Mean Expected Number 0.009 -strand -21 : -30 CTgTATATAT AC RSP01641 Mean Expected Number 0.003 -strand +39 : +30 TtTTGTCTCT Totally 3 motifs of 3 different REs have been found Description of REs found 425. Group TF: Dof1 /AC: RSP00445//OS: Zea mays /GENE: cyPPDK1/RE: box e /TF: Dof1 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: pectate lyase family protein |LOCUS: AT4G24780 |PROD: the same as GENE |complement(12770341..12772343) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +106 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.10 T - 0.37 C - 0.22 1 caacaattag atttgagtaa cggatgtaac catattattt gttcctacct 51 cctaggcatt attatagtat aaggtttttt tttaactaaa gatgatttaa 101 aaaaaaaaaa gtgggaccta aaccttaaaa attCCAATaa caaatagtat 151 agaggtcctt tttctcttta TATAAACCcc caaaatttcc tcttctctgt 201 ATTCTCCACT CAATACTTAT TTCCTCTGTC TTCCTTCGCT TCCCTCTTCT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00543 Mean Expected Number 0.007 +strand -147 : -141 AGGCATT Totally 1 motifs of 1 different REs have been found Description of REs found 519. Group RE: GT-1-like K /AC: RSP00543//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: GT-1-like K /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: SAE1A |LOCUS: AT4G24940 |PROD: SUMO activating enzyme 1a (SAE1a) |12823506..12826210 |SUPPORT | 10 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +155 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.18 T - 0.33 C - 0.16 1 agactaggtt tatgaattat gaccgtagaa catatgaaaa ctgtgtaaaa 51 ctattgtata atttatgtat taaattttgt attaatcaac tgatatgcgg 101 tcggaccgga tccaaccggc gatcgaaaca taccatttat attttttctt 151 tttctatttt actagaaata aAATAAATAg aaacctccgt tgcttttttg 201 GCAAACACTG TGAGAGAGTT GACCAAAATC GACCCAGTGG GAGGACTAGG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00122 Mean Expected Number 0.006 -strand +43 : +37 CTCCCAC AC RSP00467 Mean Expected Number 0.003 -strand +25 : +16 TGGTCAAcTC AC RSP00468 Mean Expected Number 0.001 -strand +26 : +16 TTGGTCAAcTC AC RSP00940 Mean Expected Number 0.005 -strand -171 : -180 TTCTACGGTc AC RSP01104 Mean Expected Number 0.002 +strand -20 : -13 AAACCTCC AC RSP01482 Mean Expected Number 0.001 +strand +16 : +26 GAgTTGACCAA AC RSP01604 Mean Expected Number 0.005 +strand -161 : -154 ACTGTGTA Totally 7 motifs of 7 different REs have been found Description of REs found 120. Group RE: Box C /AC: RSP00122//OS: Pisum sativum /GENE: AS1/RE: Box C /TF: unknown 445. Group RE: ERE1 /AC: RSP00467//OS: Dianthus caryophyylus /GENE: hcbt2/RE: ERE1 /TF: unknown 446. Group RE: ERE2 /AC: RSP00468//OS: Dianthus caryophyylus /GENE: hcbt2/RE: ERE2 /TF: unknown 869. Group TF: GBF /AC: RSP00940//OS: Lycopersicon esculentum /GENE: RbcS-3.6/RE: box II* /TF: GBF 1022. Group RE: AC2 /AC: RSP01104//OS: Spinacia oleracea /GENE: rps22/RE: AC2 /TF: unknown 1350. Group RE: ERE2 /AC: RSP01482//OS: carnation (Dianthus caryophillus) /GENE: hcbt2/RE: ERE2 /TF: unknown ||Identical REs AC: RSP01483 1425. Group TF: SPF1 /AC: RSP01604//OS: Ipomoea batatas /GENE: Sporamin; beta-amylase/RE: SP8a /TF: SPF1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: AMY3 |LOCUS: AT4G25000 |PROD: alpha-amylase, putative / 1 |complement(12851979..12853855) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +20 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.16 T - 0.29 C - 0.20 1 tacttgactc attttagagc taggatcaga cagagtagat tttttgccat 51 aactccttgt aaatgtattc acatttcatt cccaagaaaa atagactgat 101 gaagaaatat atcagatatg acaaggccgt gtcgtttagg ttacgtaact 151 ctacaaggtt tagggtctca aTATAAACAc acaaagcaga tagaagaagc 201 AAACCATTCA CAATCAGACA ATGACATCTC TCCATACGTT ACTCTTCTCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00260 Mean Expected Number 0.009 +strand -42 : -36 TTTAGGG AC RSP00460 Mean Expected Number 0.005 -strand +30 : +21 GAgATGTCAT AC RSP00629 Mean Expected Number 0.010 -strand -157 : -164 AAAAATCT AC RSP00888 Mean Expected Number 0.003 -strand -157 : -165 AAAAATCTA Totally 4 motifs of 4 different REs have been found Description of REs found 253. Group RE: RTBP1 BS /AC: RSP00260//OS: Oryza sativa /GENE: Synthetic OLIGO/RE: RTBP1 BS /TF: unknown 438. Group TF: O2 /AC: RSP00460//OS: coix /GENE: alpha-coixin/RE: O2d /TF: O2 605. Group TF: CCA1 /AC: RSP00629//OS: Arabidopsis thaliana /GENE: Lhcb1*3/RE: CCA1 BS2 /TF: CCA1 820. Group TF: CCA1 /AC: RSP00888//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: CCA1 motif (2) /TF: CCA1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: integral membrane family protein |LOCUS: AT4G25040 |PROD: the same as GENE |12868184..12869465 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +146 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.14 T - 0.35 C - 0.21 1 tgaggaaaat aacaataaac agaaaaaatg aggtgtatgt acaaagattt 51 gttaccaaat ttaaagtatt caaacagaaa gtacccatct gtttaggcaa 101 aggattcgat catcaaacgt cctACAATat cttgttttgc gatctcaccc 151 acaaatttat ttccTATAAA TTctcttcct ctgtctgatc tcttctattc 201 AAGCCCACTT CTTTTCTCTT TCTCTTGTCT TCGTGGAGTT TTCGGATCTT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00280 Mean Expected Number 0.004 -strand +37 : +28 TCCACGaAGA AC RSP00861 Mean Expected Number 0.004 -strand +23 : +15 AGAAAGAGA AC RSP01692 Mean Expected Number 0.006 +strand -96 : -89 TTCGATCA Totally 3 motifs of 3 different REs have been found Description of REs found 271. Group TF: Opaque-1 /AC: RSP00280//OS: Zea mays /GENE: alpha-22kDa zein/RE: O2-box /TF: Opaque-1 797. Group TF: BPC1 /AC: RSP00861//OS: Arabidopsis thaliana /GENE: STK/RE: GA-2 /TF: BPC1 1509. Group RE: CARE J /AC: RSP01692//OS: Arabidopsis thaliana /GENE: AOX1a/RE: CARE J /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G25250 |PROD: the same as GENE |12934572..12935383 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +70 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.16 T - 0.29 C - 0.16 1 tttagcaaat tatgacaatc ttctaataat tgtttacatg tcaaagcata 51 atgattagag agaaacgaga ctaacataga gatgtggtta gtgattggga 101 gagaaatgga ccaaacagaa tgagatgtca caaggtttCC AATaataaat 151 taataatcca atgtgtcTAT ATATAcatat acacataaac catagttcac 201 AATTTGCTAA AAGCTAGCAT TTTCTATTCT CTCTCAACTC CGAAAGTACA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00211 Mean Expected Number 0.007 +strand -175 : -165 aTAATTGTTTA AC RSP00231 Mean Expected Number 0.009 -strand -103 : -109 CCAATCA AC RSP00259 Mean Expected Number 0.009 +strand -116 : -110 TGGTTAG AC RSP00550 Mean Expected Number 0.004 -strand -9 : -19 TGGtTTATGTG AC RSP00953 Mean Expected Number 0.007 -strand -169 : -177 CAATTATTA Totally 5 motifs of 5 different REs have been found Description of REs found 204. Group TF: HD /AC: RSP00211//OS: Petroselinum crispum /GENE: pr2/RE: HD-BS /TF: HD 224. Group RE: CCAAT box 1 /AC: RSP00231//OS: Arabidopsis thaliana /GENE: AGAMAOUS (AG)/RE: CCAAT box 1 /TF: unknown 252. Group TF: ATMyb2 /AC: RSP00259//OS: Arabidopsis thaliana /GENE: rd22/RE: ATMyb2 BS /TF: ATMyb2 526. Group RE: CAAT/13 M /AC: RSP00550//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: CAAT/13 M /TF: unknown 880. Group TF: ATHB6 /AC: RSP00953//OS: Arabidopsis thaliana /GENE: ATHB6/RE: ATHB6 BS /TF: ATHB6 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G25760 |PROD: the same as GENE |13116085..13116847 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +73 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.06 T - 0.30 C - 0.24 1 ctccattatg gaagatgatt ccctaaaaaa taatttcgtt aatactcact 51 ctacaaagta caaataatga atactgactt ttttcataca ttccaaaaaa 101 atactgaaaa ctgaaccata cacaaatcca ttgcattaag aaACAATcca 151 tcccatacgt tcctcTATAA AACgcctctc acaacacaat ctcatctccc 201 ACCAATAAAT TAATTACTTT TTTAACAAAG AAAACTTTCA TTTCATTCAC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00235 Mean Expected Number 0.000 -strand -62 : -73 TTAATgCAATGG AC RSP01015 Mean Expected Number 0.007 -strand +44 : +35 gAAATGAAAG Totally 2 motifs of 2 different REs have been found Description of REs found 228. Group TF: LFU; WUS /AC: RSP00235//OS: Arabidopsis thaliana /GENE: AGAMAOUS (AG)/RE: LBS/WBS1 /TF: LFU; WUS 940. Group TF: GAPF /AC: RSP01015//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 3 /TF: GAPF ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: integral membrane family protein |LOCUS: AT4G25830 |PROD: the same as GENE |13133645..13135033 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +91 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.10 T - 0.33 C - 0.20 1 gctaatcata cattcaatgc caatggagaa gtccaactgt atttcatttc 51 aatcttactc atacaactat acaagtgatc tgcaaattgc cgcgtacata 101 tatgaataag aaaaatacat taaaatttta tatccacctg ccaaatcctt 151 tcaacgccaa accattcccc taTATAATTA tatatacaat tacaaatttt 201 ATGTTACAGT CTTCATTTAT TCGCGTAAAG ATTTCAAAAA GTAGTGAATA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00051 Mean Expected Number 0.003 +strand -112 : -103 GCCgCGTACA AC RSP01013 Mean Expected Number 0.003 +strand -181 : -172 CcAATGGAGA AC RSP01014 Mean Expected Number 0.010 -strand +19 : +10 tAAATGAAGA AC RSP01733 Mean Expected Number 0.006 +strand -111 : -106 CCGCGT Totally 4 motifs of 4 different REs have been found Description of REs found 50. Group RE: A3 /AC: RSP00051//OS: Hordeum vulgare /GENE: HVA22/RE: A3 /TF: unknown 938. Group TF: GAPF /AC: RSP01013//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 1 /TF: GAPF 939. Group TF: GAPF /AC: RSP01014//OS: Arabidopsis thaliana /GENE: GapA/RE: Gap box 2 /TF: GAPF 1541. Group TF: CAMTA3 /AC: RSP01733//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM2 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: aldose 1-epimerase family protein |LOCUS: AT4G25900 |PROD: the same as GENE |13161388..13163607 |SUPPORT | 8 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +108 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.16 T - 0.39 C - 0.14 1 atataataaa atattttcat gtttaaaaat ctaaatatag ttgaatggac 51 tctttaacaa gaaagtaaat attggcgtct ataaggtcaa gagatgtggc 101 gtaatgacta cttttgagca aatcagtgga caaattaaga ctttCCAATc 151 tttcattggt caagtctaaa TATAAATGat tggatttcta agtttcattt 201 CCTGTTTTTA GGCTCACTCG TGGACTTTTT TTAATTTCTT TCCTTTGCCA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00467 Mean Expected Number 0.003 +strand -44 : -35 TGGTCAAgTC AC RSP00468 Mean Expected Number 0.001 +strand -45 : -35 TTGGTCAAgTC AC RSP00888 Mean Expected Number 0.005 +strand -176 : -168 AAAAATCTA AC RSP01482 Mean Expected Number 0.001 -strand -35 : -45 GAcTTGACCAA AC RSP01678 Mean Expected Number 0.007 +strand -197 : -186 tAATAAAATATT Totally 5 motifs of 5 different REs have been found Description of REs found 445. Group RE: ERE1 /AC: RSP00467//OS: Dianthus caryophyylus /GENE: hcbt2/RE: ERE1 /TF: unknown 446. Group RE: ERE2 /AC: RSP00468//OS: Dianthus caryophyylus /GENE: hcbt2/RE: ERE2 /TF: unknown 820. Group TF: CCA1 /AC: RSP00888//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: CCA1 motif (2) /TF: CCA1 1350. Group RE: ERE2 /AC: RSP01482//OS: carnation (Dianthus caryophillus) /GENE: hcbt2/RE: ERE2 /TF: unknown ||Identical REs AC: RSP01483 1496. Group TF: AT-Hook TFs /AC: RSP01678//OS: Catharanthus roseus /GENE: ORSA3/RE: JRE (Quant. Seq.) /TF: AT-Hook TFs ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G26130 |PROD: the same as GENE |complement(13240015..13241292) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +20 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.45 G - 0.10 T - 0.25 C - 0.20 1 gttaagacca aaacatatgt actgtttaat ttctgacttt gttagaaaac 51 aatcaatata gaaagacaaa ttgataaata aaaccatatg aaaaaaaaac 101 aaagacccat acaacaaatc taacgcaagg gtcattaatg attaaccaag 151 acaaaaaata tctctaaTAT AAATAttatc cactacttca ttcttcactc 201 TACGACACAC AAAAACAACA ATGGAGCTAC TCACAAGCTT GACCAACTGG 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00233 Mean Expected Number 0.004 +strand -2 : +8 TCTACGaCAC AC RSP00680 Mean Expected Number 0.003 -strand -157 : -166 TAACAaAGTC AC RSP00727 Mean Expected Number 0.003 +strand +37 : +43 GCTTGAC AC RSP01149 Mean Expected Number 0.001 -strand -31 : -43 ATATTAGaGATAT Totally 4 motifs of 4 different REs have been found Description of REs found 226. Group RE: LS5 /Group TF: TGA2 & NPR1/NIM1 /AC: RSP00233//OS: Arabidopsis thaliana /GENE: PR-1/RE: LS5 /TF: TGA2 & NPR1/NIM1 649. Group RE: GARE/Box 2 /AC: RSP00680//OS: Hordeum vulgare /GENE: Amy32b/RE: GARE/Box 2 /TF: unknown 690. Group RE: U-box /AC: RSP00727//OS: Nicotiana tabacum /GENE: Ubi.U4/RE: U-box /TF: unknown 1065. Group RE: C-DP BS1 /AC: RSP01149//OS: Cucumis sativus/GENE: POR/RE: C-DP BS1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: universal stress protein (USP) family protein |LOCUS: AT4G27320 |PROD: the same as GENE |complement(13678474..13680834) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +111 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.10 T - 0.31 C - 0.24 1 atgggcctta atatcaaaac acacggccca ttataaaagt aaactgataa 51 gataaaacag ttccctatga ttcctcaata agcagctgct cagcacgttc 101 tcgtaatttt caacttcttg ACAATttaat acatccatta tccaaacaat 151 tagcaattaa ttacactTAT AAATTaattt gtaaactaat taaaactgac 201 AAACACGGCT CTCTCTTCTT CATCATCATC ATCATCTTCC TCTCGATCGG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01053 Mean Expected Number 0.001 +strand -155 : -147 GATAAGATA Totally 1 motifs of 1 different REs have been found Description of REs found 973. Group TF: HvMCB1 /AC: RSP01053//OS: Hordeum vulgare /GENE: ITR1/RE: GATA-core /TF: HvMCB1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: copper-binding protein-related |LOCUS: AT4G27590 |PROD: the same as GENE |13771191..13771891 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +39 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.15 T - 0.29 C - 0.20 1 taacaaagag aatagtggtg acacacttta cactaaatcc aagtcactag 51 atcctaaaaa gcttataaca tgacgacttc aacaacatgc acctcatctc 101 ttctgcatga aacccaatca ctgtcgTCAA Tatatatatg cacacaccta 151 agttcgtgta tctctacTAT ATATAaaggt aagtgtgcat agtttgagtt 201 AGAAATTGGA ATTCGACCAA AATACATAGT TAAAGTATAA TGGGTGATCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00847 Mean Expected Number 0.005 +strand -112 : -103 gCACCTCATC AC RSP00869 Mean Expected Number 0.002 -strand -169 : -177 TGTAAAGTG Totally 2 motifs of 2 different REs have been found Description of REs found 789. Group RE: NON /AC: RSP00847//OS: Zea mays /GENE: H3C4/RE: NON /TF: unknown 805. Group RE: EM1 /AC: RSP00869//OS: Triticum aestivum /GENE: LMWG-1D1/RE: EM1 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G27657 |PROD: the same as GENE |13813050..13813522 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +80 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.16 T - 0.29 C - 0.23 1 agcactgact tcgtaagtaa cagctcactt ttgtcttctt gccaacactc 51 tgactattat ccacaacgcg tgacacgtgg ctgttagttc ataaagccac 101 aaattaaaga aaccaaatac gtgtacgagt aacttctgga ccactggagc 151 ttaaagttat ggtctaTATA AACCctcgag tggtctggct tcagattttc 201 AACCACCATT CAATTTTCTA TAAAGAGATA ACAAACTTCA GAAACTTCTA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00002 Mean Expected Number 0.000 +strand -128 : -120 ACACGTGGC AC RSP00056 Mean Expected Number 0.003 -strand -120 : -129 GCCACgTGTC AC RSP00073 Mean Expected Number 0.002 +strand -129 : -120 GaCACGTGGC AC RSP00073 Mean Expected Number 0.002 -strand -120 : -129 GCCACGTGtC AC RSP00175 Mean Expected Number 0.001 +strand -127 : -120 CACGTGGC AC RSP00204 Mean Expected Number 0.002 +strand -129 : -120 GACACGTGGC AC RSP00219 Mean Expected Number 0.000 +strand -130 : -119 TGACACGTGGCt AC RSP00340 Mean Expected Number 0.003 -strand -120 : -129 gCCACGTGTC AC RSP00936 Mean Expected Number 0.000 -strand -119 : -130 aGCCACGTGTCA AC RSP01030 Mean Expected Number 0.008 +strand +40 : +47 AGAAACTT AC RSP01034 Mean Expected Number 0.005 +strand -126 : -120 ACGTGGC AC RSP01255 Mean Expected Number 0.002 +strand -128 : -121 ACACGTGG AC RSP01288 Mean Expected Number 0.004 +strand -84 : -77 ATACGTGT AC RSP01702 Mean Expected Number 0.006 -strand -76 : -85 tACACGTATT AC RSP01755 Mean Expected Number 0.005 +strand -1 : +7 CAACCACC Totally 15 motifs of 14 different REs have been found Description of REs found 2. Group RE: ABRE-3 /AC: RSP00002//OS: Brassica napus /GENE: Oleosin/RE: ABRE-3 /TF: unknown 55. Group TF: ABI3 /AC: RSP00056//OS: Brassica napus /GENE: napA/RE: ABRE Bd /TF: ABI3 72. Group TF: TAF-1 /AC: RSP00073//OS: Nicotiana tabacum /GENE: Synthetic OLIGO/RE: PA /TF: TAF-1 ||Identical REs AC: RSP00274 169. Group RE: ABRE /Group TF: ABF /AC: RSP00175//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: ABRE /TF: ABF ||Identical REs AC: RSP00723 RSP01570 197. Group TF: ABI5 /AC: RSP00204//OS: Arabidopsis thaliana /GENE: AtEm6/RE: ABRE/6.2 /TF: ABI5 ||Identical REs AC: RSP01151 212. Group TF: HY5 /AC: RSP00219//OS: Arabidopsis thaliana /GENE: RBCS-1A/RE: G box-1 /TF: HY5 325. Group TF: SGBF-1; SGBF-2 /AC: RSP00340//OS: Glycine max /GENE: GmAux28/RE: B1-core /TF: SGBF-1; SGBF-2 ||Identical REs AC: RSP00965 865. Group TF: GBF /AC: RSP00936//OS: Lycopersicon esculentum /GENE: RbcS-3A/RE: G box /TF: GBF 955. Group TF: AEF /AC: RSP01030//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 1 /TF: AEF 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 1158. Group TF: GBF1 /AC: RSP01255//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS2 /TF: GBF1 1185. Group RE: Z-DNA-motif /AC: RSP01288//OS: Arabidopsis thaliana /GENE: cab1/RE: Z-DNA-motif /TF: unknown 1511. Group RE: ACGT1 /AC: RSP01702//OS: Arabidopsis thaliana /GENE: XERO2/RE: ACGT1 /TF: unknown 1560. Group TF: C1 /AC: RSP01755//OS: Glycine max /GENE: a2/RE: C1BS1 /TF: C1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G28025 |PROD: the same as GENE |complement(13935641..13937388) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +15 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.27 G - 0.22 T - 0.33 C - 0.18 1 cacttggttt agttagtccc ttgtcgtgta taatcaaatc acccataaaa 51 ggaactttag ttggataaga tttgggatgt tttctgtatt ttgtttttcc 101 ttggtcgtgg aaatacaaac gacgacgttt tgagtggcct ttgtttttca 151 tcctctagac caagtgtaTA TAAAACagag acgaaaaacg ttgcgaaaat 201 ACGAAAGGCT TAGAAATGGT GGTGACGTCT TTCTCTTCAG CGCCGCCTAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01033 Mean Expected Number 0.003 -strand -149 : -158 CCTTTTATGG AC RSP01654 Mean Expected Number 0.008 +strand +21 : +30 GGTGACGTCT Totally 2 motifs of 2 different REs have been found Description of REs found 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1472. Group TF: STF1/HY5 /AC: RSP01654//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: STF1/HY5 BS (cons) /TF: STF1/HY5 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G28290 |PROD: the same as GENE |complement(14011875..14012589) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +119 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.13 T - 0.35 C - 0.20 1 ttctagaaga taaatcattc tattcaaaaa cgtttaccaa tgatcttagc 51 tgtaattaac gcaattaaat catgcttaag gtatttagaa aagggtaaaa 101 cggtaacata ctttatcgat acataaATTG Gtcaactagc gtaatttaac 151 ttttgtcccc attgcgtaTA TAAACCgtcg actatcgaag ccaacacctc 201 AATTTTTCCC ACATTTTTCT CTCATCTGCC TACGGTTGCA GATTTTATTT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00254 Mean Expected Number 0.006 -strand -107 : -113 CCTTTTC AC RSP00741 Mean Expected Number 0.002 +strand -112 : -101 AAAAGGgTAAAA AC RSP01740 Mean Expected Number 0.000 -strand -63 : -75 TAGTTGACCAATt Totally 3 motifs of 3 different REs have been found Description of REs found 247. Group RE: Py box /AC: RSP00254//OS: Hordeum vulgare /GENE: Amy pHV19/RE: Py box /TF: unknown ||Identical REs AC: RSP00676 703. Group RE: box 1 /Group TF: GT-1 /AC: RSP00741//OS: Nicotiana plumbaginifolia /GENE: Cab-E/RE: box 1 /TF: GT-1 1547. Group TF: WRKY11 /AC: RSP01740//OS: Arabidopsis thaliana /GENE: SIRK/FRK1 (At2g19190)/RE: AtSIRKp (WRKY11) BS2 /TF: WRKY11 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: ANAC074 |LOCUS: AT4G28530 |PROD: no apical meristem (NAM) family protein |complement(14090495..14094782) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +173 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.05 T - 0.35 C - 0.27 1 ttcttgaaac ttcccaccat aactaactac atatattaca caaccatgga 51 cccaattaat cttacaatat tgtaagaaac tctaacttgc catcttacat 101 ccttagctac atgcatgatt tatattATTG Tatttccata tatcatataa 151 gctaatttcc cactaacTAT AAATAtatac ataattaaac ctatatatgt 201 ATCTACACAC ACCGATCTCC CTCTCCCTCT CCCTCTCCCT CTTTATCTTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00108 Mean Expected Number 0.001 +strand -91 : -84 CATGCATG AC RSP00108 Mean Expected Number 0.001 -strand -84 : -91 CATGCATG AC RSP00192 Mean Expected Number 0.007 +strand -128 : -117 TAAgAAACTCTA AC RSP00327 Mean Expected Number 0.007 -strand -84 : -89 CATGCA AC RSP01463 Mean Expected Number 0.004 -strand -19 : -31 ATgTATATATTTA AC RSP01470 Mean Expected Number 0.004 -strand -83 : -92 TCATGCATGT Totally 6 motifs of 5 different REs have been found Description of REs found 106. Group RE: RY4 /AC: RSP00108//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: RY4 /TF: unknown ||Identical REs AC: RSP01169 RSP01452 185. Group RE: AACA motif /AC: RSP00192//OS: Oryza sativa /GENE: Gt3/RE: AACA motif /TF: unknown 313. Group RE: RY /Group TF: ABI3 /AC: RSP00327//OS: Brassica napus /GENE: napA/RE: RY /TF: ABI3 ||Identical REs AC: RSP01650 1333. Group RE: AT-rich ELS /AC: RSP01463//OS: Glycine max /GENE: BiP6/RE: AT-rich ELS /TF: unknown 1340. Group TF: Opaque-2 (O2) /AC: RSP01470//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z2 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G28703 |PROD: the same as GENE |14166275..14166928 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +96 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.26 G - 0.11 T - 0.43 C - 0.20 1 taataatact tattaaatgg tgaaattttg gtttgtattc tccaaaattc 51 tgaaaatttc atagccatta ttggagtcat ctgcttttcc ttttttgttc 101 ttcatttttt tttcctagTC AATagagata ttttctcttt cttactgcat 151 cgatccatat cttgactgAA TAAATAcgtc aaaagaaagc attaacgatt 201 ACACACTCTC ATACTTATCT CCTCTTAGGT TTCTCATTTC TCTCGTCTCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00459 Mean Expected Number 0.005 -strand -79 : -88 TTGACTAGGA Totally 1 motifs of 1 different REs have been found Description of REs found 437. Group TF: O2 /AC: RSP00459//OS: coix /GENE: alpha-coixin/RE: O2u /TF: O2 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: transferase family protein |LOCUS: AT4G29250 |PROD: the same as GENE |14420695..14422287 |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +24 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.38 G - 0.18 T - 0.27 C - 0.16 1 ctaccaattt atgtttaggg gttttcatga acccgaccat aacagaaaca 51 tgttttacgg gaccatgata attctacatt cccttagggg agggttgttt 101 agttcatggg aaaagtatgt gttgaaatat gtaaatacac accaacaaac 151 gcacatatca TATATATAtg gtatacaagc tcacatcaaa agtggattct 201 AACCAAAGAA TAATACAACG AAAAATGTTT GCTAAAGAGA AGACAATAAT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01093 Mean Expected Number 0.004 +strand -3 : +8 TCTAAcCAAAG Totally 1 motifs of 1 different REs have been found Description of REs found 1011. Group RE: box 2 /AC: RSP01093//OS: Pisum sativum /GENE: GS2/RE: box 2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: acid phosphatase class B family protein |LOCUS: AT4G29270 |PROD: the same as GENE |complement(14423671..14424888) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +34 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.13 T - 0.35 C - 0.17 1 atgacaattt gaacaataat tcattaaaat atggttatag tataattttt 51 ggaaatgttt tgatttacct ctattattac caaatcaaat tcagccagtg 101 aagacgttgt agttctcaac aaaaatcacg tgggagtgta aatacgacaa 151 taatgttcca tctttctata tTTTAAATTc gcgacctatc ttcttctttc 201 ATCCAATAGT TGAAAAACAG AAAAAGCCTC TCCAATGACT TTTTCTCGTA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00122 Mean Expected Number 0.001 -strand -65 : -71 CTCCCAC AC RSP00640 Mean Expected Number 0.001 +strand -75 : -68 TCACGTGG Totally 2 motifs of 2 different REs have been found Description of REs found 120. Group RE: Box C /AC: RSP00122//OS: Pisum sativum /GENE: AS1/RE: Box C /TF: unknown 616. Group RE: G-box /Group TF: GBF /AC: RSP00640//OS: Zea mays /GENE: GRF1/RE: G-box /TF: GBF ||Identical REs AC: RSP00641 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: PRF2 |LOCUS: AT4G29350 |PROD: profilin 2 (PRO2) (PFN2) (PRF2) |14450035..14451383 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +106 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.15 T - 0.38 C - 0.11 1 tttcacacaa aacattttga atttcatttg tatctacttt tttttttttt 51 ttggtatttc ttttagctgt ctttatcaaa ttcagtaaat aaataaaata 101 tgtattttaa tggaattttt tgcagtagaa attaaaaaag agtttttttt 151 tattggaagg ctaaatcgtg tTATTAATAa tttaagctca aaggttgtcc 201 AAGTCTACAA ACCAAAAGCA CGCTACAGAA GAAGAGGAAG AAGAAGAAGA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00530 Mean Expected Number 0.007 -strand -60 : -71 TCTTTTTTAAtT Totally 1 motifs of 1 different REs have been found Description of REs found 506. Group RE: AT-rich F /AC: RSP00530//OS: Lycopersicon esculentum /GENE: rbcS3B/RE: AT-rich F /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: amine oxidase family protein |LOCUS: AT4G29720 |PROD: the same as GENE |complement(14553321..14555173) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +110 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.08 T - 0.27 C - 0.28 1 taacctaact ttgaagtatt ataataatta attatgacac tgtcaatcac 51 taattcatga ttaactaaaa attaatagat caaaaaccta aacttaaccg 101 atgATTGTaa ctaaaatctc tccacacgct taaggctcac acacacacac 151 acacagactc tccctTATAA ATGttgagcc aaagcaatct ctctccattc 201 ATTCACCTTC CTCCGTCCCC TTCCCCTAAT CCCCAAAACA CACAGATAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00250 Mean Expected Number 0.001 -strand -188 : -200 cAAAGTTAGGTTA AC RSP00442 Mean Expected Number 0.009 +strand -195 : -186 TAACTTTGaA AC RSP00778 Mean Expected Number 0.006 -strand +5 : -5 TGAATGAATG AC RSP00865 Mean Expected Number 0.002 -strand -5 : -13 GGAGAGAGA Totally 4 motifs of 4 different REs have been found Description of REs found 243. Group TF: Myb26 /AC: RSP00250//OS: Pisum sativum /GENE: Synthetic OLIGO/RE: Myb2 /TF: Myb26 422. Group TF: Dof1 /AC: RSP00442//OS: Zea mays /GENE: cyPPDK1/RE: box b /TF: Dof1 733. Group RE: Box III /AC: RSP00778//OS: Arabidopsis thaliana /GENE: AtS1/RE: Box III /TF: unknown 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G29780 |PROD: the same as GENE |14579710..14581706 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +155 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.09 T - 0.28 C - 0.25 1 cgctttatct aatcaaaaat aataataaaa taatctgcaa aaaagaaagt 51 caagtcaccg tcaaacccat cccgcttagc ttaccgcgtt cacaccttca 101 cgcgcttcct tcgtcctttg cgtctctctc tattttttta caaacacaga 151 caaataaacc tttttcaTAT ATATAtatcg tctgaaacca aaaccaaaac 201 CATAAAACTC AAAAATCTTT GGTCTTCAAA CTTCAAACAC TTGAGAAAAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00404 Mean Expected Number 0.003 +strand -84 : -78 TTTGCGT AC RSP00864 Mean Expected Number 0.002 -strand -70 : -78 AGAGAGAGA AC RSP01733 Mean Expected Number 0.009 +strand -117 : -112 CCGCGT Totally 3 motifs of 3 different REs have been found Description of REs found 386. Group RE: adja /AC: RSP00404//OS: Nicotiana tabacum /GENE: RNP2/RE: adja /TF: unknown 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 1541. Group TF: CAMTA3 /AC: RSP01733//OS: Arabidopsis thaliana /GENE: CBF2/RE: CM2 /TF: CAMTA3 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: GDSL-motif lipase/hydrolase family protein |LOCUS: AT4G30140 |PROD: the same as GENE |complement(14738393..14740682) |SUPPORT | 5 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +128 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.07 T - 0.31 C - 0.23 1 ttagtaaaca taagtaaatt acatgacaat tcttcagctt aacaaaaaat 51 aataatatta ccaacacgtc cacctcaaat aaataatatt aaaagaaaaa 101 cctcttaatt catgcaaaAC AATttatata gttctccaag tctcccttga 151 ttcactcact gcctcatccT ATATATAgtc gcataatttt ctacttgtct 201 AAGCAAAATC CCCTCTAACC ATCAGACTTA CAAATCTAGT CCATATAATA 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00057 Mean Expected Number 0.005 +strand -66 : -57 TCCAaGTCTC AC RSP00068 Mean Expected Number 0.002 -strand -2 : -11 GACAaGTAGA AC RSP00535 Mean Expected Number 0.001 +strand -40 : -24 GCCT-- +7 bp --TATATA AC RSP01093 Mean Expected Number 0.003 +strand -3 : +8 TCTAAGCAAAa Totally 4 motifs of 4 different REs have been found Description of REs found 56. Group TF: ABF /AC: RSP00057//OS: Zea mays /GENE: rab28/RE: ABRE B /TF: ABF 67. Group RE: UV LRE /AC: RSP00068//OS: Arabidopsis thaliana /GENE: CHS/RE: UV LRE /TF: unknown 511. Group RE: LRE-TATA AA1 /AC: RSP00535//OS: Lycopersicon esculentum /GENE: rbcS3C/RE: LRE-TATA AA1 /TF: unknown 1011. Group RE: box 2 /AC: RSP01093//OS: Pisum sativum /GENE: GS2/RE: box 2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: ATXTH18 |LOCUS: AT4G30280 |PROD: xyloglucan:xyloglucosyl transferase |complement(14825814..14827053) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +49 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.09 T - 0.33 C - 0.21 1 ttattttctc tgttttgtaa caataaacga gtaatgaaat tatattttat 51 tggtttcaat ttgtaacaac cagcaagagg tctaatgagc caactagaat 101 acagcccacg ataaataatc aaacccatga aacttccttc tctctttcct 151 ttgccatttc caaacactaT ATAAACTcat gtcgcttaac tcaatttttc 201 ATCAACAATA CATTTGAGAT ATCAATACAC CTCCAAAATA TATACAAAAA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01326 Mean Expected Number 0.010 -strand +19 : +13 TCTCAAA AC RSP01233 Mean Expected Number 0.008 +strand -129 : -123 AGCAAGA AC RSP01678 Mean Expected Number 0.005 -strand -149 : -160 CAATAAAATATa Totally 3 motifs of 3 different REs have been found Description of REs found 1089. Group TF: ABF-2 /AC: RSP01326//OS: Pisum sativum /GENE: AB80/RE: AB1 heptamer /TF: ABF-2 ||Identical REs AC: RSP01326 1138. Group RE: PLE-79 /AC: RSP01233//OS: Collettrichum lindemuthianum (bean pathogen) /GENE: CLPG2/RE: PLE-79 /TF: unknown 1496. Group TF: AT-Hook TFs /AC: RSP01678//OS: Catharanthus roseus /GENE: ORSA3/RE: JRE (Quant. Seq.) /TF: AT-Hook TFs ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: senescence-associated family protein |LOCUS: AT4G30430 |PROD: the same as GENE |complement(14878789..14880337) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +59 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.11 T - 0.31 C - 0.24 1 aatagcatta ctcacaagtc acaagttcaa aacgtctgac tgaaacagaa 51 acaagccttt gttgaagtct tgaagaagag acattagtac tcgtcgtata 101 gccataaaag gtaatatacg aaatttcttc gctaatctct tcaccttcct 151 ctacgcgttt cactttcact tTATAAATCc aaatctccct tcgaaaacat 201 AATCACACAA ATCCCTTTTT TGGTTTCTCC AAATCTTCAA ATCTTCTTCA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00080 Mean Expected Number 0.003 +strand -102 : -87 TaGCCATAAAAGGTAA AC RSP00080 Mean Expected Number 0.003 -strand -87 : -102 TTACCTTTTATGGCtA AC RSP01017 Mean Expected Number 0.009 +strand -154 : -147 AGAAACAA AC RSP01033 Mean Expected Number 0.004 +strand +14 : +23 CCTTTTTTGG AC RSP01033 Mean Expected Number 0.004 -strand -90 : -99 CCTTTTATGG AC RSP01214 Mean Expected Number 0.001 +strand +14 : +23 CCTTTTTTGG Totally 6 motifs of 4 different REs have been found Description of REs found 79. Group TF: MADS-domain AGAMOUS BF /AC: RSP00080//OS: Arabidopsis thaliana /GENE: STE2; other genes/RE: AGAMOUS MADS BS /TF: MADS-domain AGAMOUS BF 942. Group TF: AEF /AC: RSP01017//OS: Arabidopsis thaliana /GENE: GapA/RE: AE box 2 /TF: AEF 958. Group TF: FLC /AC: RSP01033//OS: Arabidopsis thaliana /GENE: FT/RE: CArG box /TF: FLC ||Identical REs AC: RSP01204 1122. Group RE: EM1 /Group TF: MADS box TFs /AC: RSP01214//OS: Brassica oleracea /GENE: BoCRC/RE: EM1 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: GAE1 |LOCUS: AT4G30440 |PROD: NAD-dependent epimerase/dehydratase family protein |complement(14881861..14883486) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +215 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.12 T - 0.37 C - 0.18 1 aaaactcctt aaattgcggt aaattggtga aaaaagattg cggtagattt 51 agcatttatc cagtttttca atacataatt agtagattct tttttttact 101 ttctctaaac aaataattag gATTGTtttt ttttgtcaac aaatattaat 151 tttgtTATAA AAGcaaaaaa aaaatgacaa tctggcaatc aaattaacgc 201 GTCTCCTTGT CCCCTAACCC CACCTGTATA TATACTTCTC CGTCTCTTCC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00887 Mean Expected Number 0.004 -strand -110 : -118 AAGAATCTA AC RSP01499 Mean Expected Number 0.004 +strand +36 : +45 TTCtCCGTCT AC RSP01598 Mean Expected Number 0.007 -strand -22 : -29 TGTCATTT AC RSP01639 Mean Expected Number 0.009 -strand -19 : -28 GATTGTCATT Totally 4 motifs of 4 different REs have been found Description of REs found 819. Group TF: CCA1 /AC: RSP00887//OS: Arabidopsis thaliana /GENE: AtAOX1a/RE: CCA1 motif (1) /TF: CCA1 1360. Group RE: CS6 /AC: RSP01499//OS: Triticum aestivum /GENE: H1 (TH315)/RE: CS6 /TF: unknown ||Identical REs AC: RSP01500 1419. Group RE: Inr /AC: RSP01598//OS: Spinacia oleracea /GENE: RPL21/RE: Inr /TF: unknown 1459. Group RE: ARE /AC: RSP01639//OS: Nicotiana tabacum /GENE: PR-Q; ACS2/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: glycine-rich protein |LOCUS: AT4G30450 |PROD: the same as GENE |complement(14886033..14886681) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +69 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.10 T - 0.32 C - 0.19 1 acctatctaa ttaagaaaaa aacatgcata tatacttaat tattcactct 51 tcaatgcata tccattataa tttctctaaa ctataataaa acgaaatatg 101 ataaatgtac gtaggttaaa ttaattatgg tgatatacac gtagcggctc 151 acacaatccc aaagcttcTA TAAATAcacg aacatgttat tcatttttgt 201 ACCTAATCAA GTTACACTAT AAACTCAAAC ACATCTATCG GCAAGTCTTA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00189 Mean Expected Number 0.001 +strand -65 : -56 TaCACGTAGC AC RSP00483 Mean Expected Number 0.008 -strand -53 : -57 GCCGC AC RSP01260 Mean Expected Number 0.002 -strand -57 : -64 CTACGTGT AC RSP01301 Mean Expected Number 0.003 +strand -33 : -24 CTATAAATAC Totally 4 motifs of 4 different REs have been found Description of REs found 183. Group TF: ABI5 /AC: RSP00189//OS: Arabidopsis thaliana /GENE: AtEm1/RE: ABRE/1.3 /TF: ABI5 460. Group RE: GC-2 /AC: RSP00483//OS: Zea mays /GENE: Adh1/RE: GC-2 /TF: unknown 1162. Group TF: GBF1 /AC: RSP01260//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS7 /TF: GBF1 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: plastocyanin-like domain-containing protein |LOCUS: AT4G30590 |PROD: the same as GENE |complement(14935629..14936568) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +93 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.44 G - 0.11 T - 0.24 C - 0.21 1 tttttttaat tttaaactga aacatattgt ttttgtaata aaaagtaaac 51 aaaaacggac attaatttag caaatcagag agagattact cttgaatact 101 cggttaggaa atcccaaacc tagctccgaa cccccaagaa acaagattta 151 gctccaaacc acaatgacta TATAAACAcc acatcaccat ctcatatttt 201 ATTCACAGAG AAAACAAAAA CAAACGAGAG ACAAAACTCA ATCCAAAACA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00864 Mean Expected Number 0.001 +strand -124 : -116 AGAGAGAGA AC RSP00915 Mean Expected Number 0.007 -strand -13 : -22 GGTGATGTGG AC RSP01480 Mean Expected Number 0.010 +strand -6 : +2 TATTTTAT Totally 3 motifs of 3 different REs have been found Description of REs found 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 846. Group TF: Opaque-2 /AC: RSP00915//OS: Zea mays /GENE: b-32/RE: B3 /TF: Opaque-2 1348. Group TF: AT-1SNBP /AC: RSP01480//OS: Glycine max /GENE: GS15/RE: AT-cm /TF: AT-1SNBP ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G30670 |PROD: the same as GENE |complement(14957371..14957968) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +57 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.17 T - 0.31 C - 0.15 1 tggatcgtgt caaaatgtct cttgtgtaag taagaagttt tccaaaagaa 51 aaaacagtta tgagctgtct tgatgattat atcactgcct agttgttaat 101 taaggaagag ctcatctgtt tggttgcgtg cacgaagaag agagtatggt 151 acaactactt tcacacaaat cTATAAATAc acagacacac tcataagttc 201 AAAAAACACA AGATAAATAT ATTTTCTATT CAATTTTGTT TAAAGAATAA 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00428 Mean Expected Number 0.003 +strand -152 : -141 AAAAAACaGTTA AC RSP01296 Mean Expected Number 0.008 +strand -30 : -22 CTATAAATA AC RSP01301 Mean Expected Number 0.001 +strand -30 : -21 CTATAAATAC AC RSP01642 Mean Expected Number 0.004 +strand -188 : -179 AAATGTCTCT Totally 4 motifs of 4 different REs have been found Description of REs found 409. Group TF: Myb26 /AC: RSP00428//OS: Pisum sativum /GENE: Synthetic OLIGO/RE: Myb1 /TF: Myb26 ||Identical REs AC: RSP00919 1192. Group RE: TATA box /Group TF: TBF /AC: RSP01296//OS: Avena fatua /GENE: Amy2/D/RE: TATA box /TF: TBF 1195. Group RE: TATA box /Group TF: TBF /AC: RSP01301//OS: Triticum aestivum /GENE: Amy2/54/RE: TATA box /TF: TBF ||Identical REs AC: RSP01302 1462. Group RE: ARE /AC: RSP01642//OS: Nicotiana tabacum /GENE: WIPK/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: CYP83B1 |LOCUS: AT4G31500 |PROD: cytochrome P450 83B1 (CYP83B1) |complement(15273477..15275316) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +39 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.10 T - 0.28 C - 0.22 1 tcttcatcga tctcgctttc agtattattg tgtaacccaa gttacatttt 51 ttaattccaa aaaccagtag tccacctact aacatcacgt tttaaaaaca 101 agggaaaatt ctgtcacctg tcaaaaaatc caaaacaaac caaCCAATaa 151 aactttttgt cttgctaTAT AAACCacatc atcattcaaa gtagaaaagt 201 ATCCGAACAC AAAGACTTAA GTAAGTCAAA CAGAAAAAAA TGGATCTCTT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00304 Mean Expected Number 0.005 -strand -78 : -85 TGACAGGT AC RSP00847 Mean Expected Number 0.009 +strand -27 : -18 CCACaTCATC AC RSP00914 Mean Expected Number 0.009 -strand -18 : -27 GATGATGTGG AC RSP00915 Mean Expected Number 0.008 -strand -18 : -27 GATGATGTGG AC RSP01233 Mean Expected Number 0.007 -strand -35 : -41 AGCAAGA Totally 5 motifs of 5 different REs have been found Description of REs found 291. Group TF: KN1/KIP /AC: RSP00304//OS: Zea mays /GENE: Synthetic OLIGO/RE: KN1/KIP BS /TF: KN1/KIP 789. Group RE: NON /AC: RSP00847//OS: Zea mays /GENE: H3C4/RE: NON /TF: unknown 845. Group RE: B2 /Group TF: Opaque-2 /AC: RSP00914//OS: Zea mays /GENE: b-32/RE: B2 /TF: Opaque-2 846. Group TF: Opaque-2 /AC: RSP00915//OS: Zea mays /GENE: b-32/RE: B3 /TF: Opaque-2 1138. Group RE: PLE-79 /AC: RSP01233//OS: Collettrichum lindemuthianum (bean pathogen) /GENE: CLPG2/RE: PLE-79 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G32340 |PROD: the same as GENE |complement(15612597..15614259) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +34 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.17 T - 0.32 C - 0.17 1 tatctaaagt tagagattaa cttactattc ttgtattacg ataacgtttt 51 gaatgaacat gtaatgatgc aagggtgtaa ccaaaaatga taaaactttg 101 gggTCAATtt gataatattg actaatagtg tggggcttga caagaaccgg 151 aaactccatg atatttttgc agTCTAAATA tcttttcatc tctcttctct 201 TCCTCCACTG AAATATTCCC CACAAGAACT AACAATGATA ATGAGAAGCG 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00727 Mean Expected Number 0.007 +strand -66 : -60 GCTTGAC AC RSP01000 Mean Expected Number 0.003 +strand +15 : +24 ATtCCCCACA AC RSP01000 Mean Expected Number 0.002 -strand -63 : -72 AaGCCCCACA AC RSP01167 Mean Expected Number 0.006 +strand -26 : -18 TAAATATCT Totally 4 motifs of 3 different REs have been found Description of REs found 690. Group RE: U-box /AC: RSP00727//OS: Nicotiana tabacum /GENE: Ubi.U4/RE: U-box /TF: unknown 921. Group TF: CBF /AC: RSP01000//OS: Agrobacterium tumefaciens /GENE: T-cyt/RE: 3'-III element /TF: CBF 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G32470 |PROD: the same as GENE |complement(15669225..15671200) |SUPPORT | 4 exon(s) |Alternative mRNAs: 2 | -200:+51 from mRNA start|,5"-UTR: +99 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.21 T - 0.30 C - 0.19 1 gcttcttgtg aattattaag acaagttagt ttataatcta aatacaagtt 51 atcactgggc cttaaatgac gctacagctg agcgacttaa ggcccaaata 101 ttactacgtg agtacgtgac ctatatatgt caaaaatacg tgaagcttag 151 atgggccact taaggcccaA ATAAATAcgt gaagcagagc ttatgtgatt 201 ATTTCCTCTC TCAGGTCAGG AGTTGTTGTA GACACAGCAG CTTGGTCTCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00064 Mean Expected Number 0.004 +strand -90 : -81 AGTACGTGaC AC RSP00247 Mean Expected Number 0.004 +strand -46 : -37 GCCACtTAAG AC RSP00572 Mean Expected Number 0.007 +strand -76 : -69 ATATGTCA AC RSP00863 Mean Expected Number 0.001 -strand +11 : +3 AGAGAGGAA Totally 4 motifs of 4 different REs have been found Description of REs found 63. Group RE: Motif I /AC: RSP00064//OS: Oryza sativa /GENE: rab16B/RE: Motif I /TF: unknown 240. Group TF: REB /AC: RSP00247//OS: Oryza sativa /GENE: alpha-globulin/RE: REB1 /TF: REB ||Identical REs AC: RSP00738 548. Group RE: 3'/AT-rich J1 /AC: RSP00572//OS: Lycopersicon esculentum /GENE: rbcS1/RE: 3'/AT-rich J1 /TF: unknown 799. Group TF: BPC1 /AC: RSP00863//OS: Arabidopsis thaliana /GENE: STK/RE: GA-4 /TF: BPC1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein, predicted protein |LOCUS: AT4G32930 |PROD: the same as GENE |15898840..15900824 |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +41 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.22 T - 0.28 C - 0.13 1 acaggacata aaacaactag atgtaaataa cttgggctca attgctttca 51 aattgggctt tttcatatgt gtgcttttgg actaaaagac tcataggtca 101 aaaaaattaa acgggctgag accaaatatt tggtttataa cgaaatatga 151 gttttttggg gggccattct GATAAATAat aagaagaaga agaatcgcgt 201 CTGCAAAGCT TTAGTGCTTC ATAGAGCAAA GGAGAAAAAA AATGGTGAAC 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01469 Mean Expected Number 0.006 +strand -138 : -129 TCAtATGTGT Totally 1 motifs of 1 different REs have been found Description of REs found 1339. Group TF: Opaque-2 (O2) /AC: RSP01469//OS: Zea mays /GENE: alpha-22kDa zein/RE: Z1 /TF: Opaque-2 (O2) ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G33560 |PROD: the same as GENE |16135403..16135917 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +65 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.37 G - 0.11 T - 0.31 C - 0.22 1 ataatccatt ttttatctct attttaacct cgtagttaga taattaattt 51 atgaccaaaa agaaagtaaa taactaaaat gagaaaatga aaaccacgag 101 ctcccaaatt tcctgcggct tctttagcct cttgtttcgt ttatgtacca 151 ctttctcgac tccacacttT ATAAACCaaa tcctccacga aactccaaac 201 ACATTGTCCA AAGATCAATA CACACTGTTT TAAGAAGAAT TTGAAAAGAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01210 Mean Expected Number 0.009 +strand +25 : +34 CTGTTTTAAG Totally 1 motifs of 1 different REs have been found Description of REs found 1120. Group RE: EM2 /Group TF: MADS box TFs /AC: RSP01210//OS: Lepidium africanum /GENE: LaCRC/RE: EM2 /TF: MADS box TFs ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G33660 |PROD: the same as GENE |complement(16167292..16167954) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +129 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.13 T - 0.37 C - 0.20 1 accgaagcag attcctatac ttttgtcaac actttttaag tgttttgcgt 51 ttccaatgta ctttgaagat tattctcaaa actccataaa attcttactg 101 aaacagagaa tttttttttt taattttaat ctaagaatta tcttgaagct 151 gtgttctttg gcaaaTATAA ATAcacgtcg actaggacaa cacttgcgct 201 CTAAAGATTG CAAATCCGTG TTCTATCTCT CTCAACAATT ATTTCCCCTG 251 C Any Motif not found ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: pathogenesis-related protein, putative |LOCUS: AT4G33720 |PROD: the same as GENE |16182755..16183536 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +61 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.39 G - 0.12 T - 0.33 C - 0.16 1 tatgatcaga atttcactaa acacgtcaat tactatggcg tgtagctatg 51 aaataattac acttaatcaa ttggccattt ggcctactat attagaccgc 101 agatgtatac gttttctaac tataaatttg taaattaaat ttttgtttgt 151 ggaaaaaaaa ctaaacatTA TAAAAAtgta ttcgaagata caaaactact 201 ATATATATAA CGTGTTCAAT CCTCACTTCA AAAACCCACA AAAACTTTAG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00525 Mean Expected Number 0.009 -strand -95 : -101 ACATCTG AC RSP00710 Mean Expected Number 0.005 -strand -142 : -154 TAATTATTTCaTA AC RSP01258 Mean Expected Number 0.002 -strand -173 : -180 TGACGTGT AC RSP01458 Mean Expected Number 0.009 -strand -66 : -78 ATTTAcAAATTTA Totally 4 motifs of 4 different REs have been found Description of REs found 501. Group TF: DPBF-1; DPBF-2 /AC: RSP00525//OS: Daucus carota /GENE: Dc3/RE: E5-core /TF: DPBF-1; DPBF-2 676. Group RE: AT1-box /AC: RSP00710//OS: Pisum sativum /GENE: TOP2/RE: AT1-box /TF: unknown 1160. Group TF: GBF1 /AC: RSP01258//OS: Arabidopsis thaliana /GENE: Synthetic OLIGO/RE: GBF1 BS5 /TF: GBF1 1328. Group RE: AT-rich ELS /AC: RSP01458//OS: Glycine max /GENE: BiP9/RE: AT-rich ELS /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G33800 |PROD: the same as GENE |complement(16210017..16211414) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +102 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.41 G - 0.18 T - 0.29 C - 0.12 1 cctaaagttt gaaaattaat aggcagaaga agtaggagcg atgagtcgat 51 gataataagt taaaataagt ttatactccg tacctattga agataaaacc 101 aaaaattgaa ataaataact taaACAATga aatagagaaa gaggggtata 151 gatgcatgtg ttagTATAAA TAttagatag agagaaagaa cataggtttt 201 AAGTCGATTT TTCACCCACA GTCTTTCTTT AAATCTTTCT CAACATAGCT 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00144 Mean Expected Number 0.008 +strand +13 : +18 CACCCA AC RSP00999 Mean Expected Number 0.009 -strand -18 : -28 TCtCTATCTAA AC RSP01576 Mean Expected Number 0.008 +strand -126 : -121 ACTCCG Totally 3 motifs of 3 different REs have been found Description of REs found 140. Group TF: SEF3 /AC: RSP00144//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: SEF3 BS 1 /TF: SEF3 920. Group TF: 3AF3 /AC: RSP00999//OS: Nicotiana tabacum /GENE: rbcS-3A/RE: 3'-III element /TF: 3AF3 1405. Group RE: ICEr2 /AC: RSP01576//OS: Arabidopsis thaliana /GENE: CBF2/RE: ICEr2 /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: |LOCUS: AT4G34135 |PROD: the same as GENE |complement(16345285..16347137) |SUPPORT | 2 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +117 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.14 T - 0.29 C - 0.21 1 tagtttacaa gttacaaggt tttggttcca aaagaccttg aaaactgaca 51 ctactctggc acgttaagag agaaagtacc aaagaaacca aaactagaga 101 cgtatgcaac gacgtcagta tccgttaccc attaatcatc taaacccaaa 151 ttttggtgct ttatacgtTA TATATActcc acactcttgc aaccattatt 201 ATATATACAA CGAGGAAAAA TAGTACTATT TTCTACGAAC TTCAGAATCT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP01031 Mean Expected Number 0.008 +strand +44 : +51 AGAATCTT Totally 1 motifs of 1 different REs have been found Description of REs found 956. Group TF: AEF /AC: RSP01031//OS: Arabidopsis thaliana /GENE: GapB/RE: AE box 2 /TF: AEF ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: D-3-phosphoglycerate dehydrogenase |LOCUS: AT4G34200 |PROD: the same as GENE |complement(16373850..16376626) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +61 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.30 G - 0.12 T - 0.29 C - 0.29 1 ttttttgttg gtttggcaat ttttccggta aactatgcaa attctattcg 51 ccgaaacatt ttgcagatca ctaaaccaaa ctgaatcaca cgcgcgagcc 101 aaatgcgcgt gagatttcat caccttcgtc aaaatactat cacatcacac 151 caaacccctg agccgacTAT AAAACctttt agatctctcc ctcgtgttat 201 AACTCCGCCA CCAACAATAT TTTTCTCTAC TCAATTCACT CACACTCCAA 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00523 Mean Expected Number 0.007 +strand -113 : -107 ACACGCG Totally 1 motifs of 1 different REs have been found Description of REs found 499. Group TF: DPBF-1; DPBF-2 /AC: RSP00523//OS: Daucus carota /GENE: Dc3/RE: E3-core /TF: DPBF-1; DPBF-2 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: 40S ribosomal protein S25, putative |LOCUS: AT4G34555 |PROD: the same as GENE |complement(16504235..16505477) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +133 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.17 T - 0.31 C - 0.16 1 aagggatttg attggttggg gacttgggac tgtgactatc tgcttgagtt 51 ctatctcttc ttgtgtaact aacccaagta acaagcccag ttcaacatta 101 ttATTGTtcg atccaaacta ggcctaatct gaacagaaca aaagtatata 151 atttgagacg ttattaaact attTATTAAT Aattaaaata aattcccgtc 201 ATCAAAAAAA GTAATAAAGT AAAGTATTTC GCCGTGAGAG AAAGAACAAT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00021 Mean Expected Number 0.009 +strand +6 : +17 AAAAAGTAAtAA AC RSP00115 Mean Expected Number 0.007 -strand -147 : -157 ATAGAAcTCAA AC RSP00792 Mean Expected Number 0.006 +strand -127 : -118 CCAAGtAACA AC RSP00916 Mean Expected Number 0.002 -strand +3 : -7 GATGACGGGA AC RSP01435 Mean Expected Number 0.001 -strand -179 : -188 TCCCCAACCA Totally 5 motifs of 5 different REs have been found Description of REs found 20. Group TF: GT-1 /AC: RSP00021//OS: Catharantus roseus /GENE: TDC/RE: GT-1#Box7 /TF: GT-1 113. Group TF: ATBP-1 /AC: RSP00115//OS: Pisum sativum /GENE: GS2/RE: BOX 1 /TF: ATBP-1 745. Group RE: DAE /AC: RSP00792//OS: Hordeum vulgare /GENE: Amy32b/RE: DAE /TF: unknown 847. Group TF: Opaque-2 /AC: RSP00916//OS: Zea mays /GENE: b-32/RE: B4 /TF: Opaque-2 1308. Group TF: RNFG2 /AC: RSP01435//OS: Oryza sativa /GENE: RSs1/RE: BoxII /TF: RNFG2 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G34630 |PROD: the same as GENE |complement(16536870..16537751) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +54 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.35 G - 0.16 T - 0.28 C - 0.22 1 acgacatcaa atttacatgt ccacttattt atttactggc aaactttctg 51 gcgacgctga ggtggcaaaa taatccttac gtggcaacat ataactggtt 101 gtaaatacgt atcttcaaca gtgtaactaC CAATtagcac aagataacac 151 tcggtggttt gcctcTATTA ATAgggtaac ttcctctggt tatcaaaaac 201 AAACAGTCTT GAAAAATCAA AGAAGCAACC TCTAAACAAC ACACAATTTC 251 G RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00043 Mean Expected Number 0.001 +strand -123 : -116 TACGTGGC AC RSP00132 Mean Expected Number 0.000 -strand -135 : -142 GCCACCTC AC RSP00210 Mean Expected Number 0.000 -strand -135 : -146 GCCACCTCAGCg AC RSP00247 Mean Expected Number 0.003 -strand -116 : -125 GCCACGTAAG AC RSP00248 Mean Expected Number 0.002 -strand -116 : -125 GCCACGTaAG AC RSP00248 Mean Expected Number 0.002 -strand -135 : -144 GCCACcTCAG AC RSP00847 Mean Expected Number 0.001 -strand -136 : -145 CCACCTCAgC AC RSP01034 Mean Expected Number 0.004 +strand -122 : -116 ACGTGGC Totally 8 motifs of 7 different REs have been found Description of REs found 42. Group TF: TAF-1 /AC: RSP00043//OS: Oryza sativa /GENE: rab16A-D/RE: Motif I core /TF: TAF-1 130. Group TF: ROM1; ROM2 /AC: RSP00132//OS: Phaseolus vulgaris /GENE: beta-phaseolin, or phas/RE: vicilin box /TF: ROM1; ROM2 203. Group TF: MAT2 (ROM2) /AC: RSP00210//OS: French Phaseolus vulgaris /GENE: DLEC2/RE: DLEC2,B /TF: MAT2 (ROM2) 240. Group TF: REB /AC: RSP00247//OS: Oryza sativa /GENE: alpha-globulin/RE: REB1 /TF: REB ||Identical REs AC: RSP00738 241. Group TF: REB /AC: RSP00248//OS: Oryza sativa /GENE: alpha-globulin/RE: REB2 /TF: REB 789. Group RE: NON /AC: RSP00847//OS: Zea mays /GENE: H3C4/RE: NON /TF: unknown 959. Group TF: ABI3; ABI5; AREB1 /AC: RSP01034//OS: Arabidopsis thaliana /GENE: RD29B/RE: ABRE 1/2 /TF: ABI3; ABI5; AREB1 ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: auxin-responsive family protein |LOCUS: AT4G34760 |PROD: the same as GENE |complement(16582188..16582884) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +85 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.31 G - 0.07 T - 0.30 C - 0.33 1 caatgtcaca aagaggacca acaatgaaat taaatcctca gctggccttt 51 aacattttgg ctcccaccat ctccttccac acatatgcac atgtcttcat 101 gtctctctct ctctatacgt tacctacaca aatatgtaca gacaaatagc 151 ccattacaaa atctttattT ATAAATAtat actcctcaac tccctcaata 201 TCCACCCATC TCCTTCTCCA TAACTCTCTC TCTCTCTCCC TAAACACAAC 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00713 Mean Expected Number 0.003 -strand -157 : -163 CAGCTGA AC RSP00864 Mean Expected Number 0.007 -strand +37 : +29 AGAGAGAGA AC RSP00864 Mean Expected Number 0.007 -strand +35 : +27 AGAGAGAGA AC RSP00864 Mean Expected Number 0.007 -strand +33 : +25 AGAGAGAGA AC RSP00864 Mean Expected Number 0.007 -strand -87 : -95 AGAGAGAGA AC RSP00864 Mean Expected Number 0.007 -strand -89 : -97 AGAGAGAGA AC RSP00864 Mean Expected Number 0.007 -strand -91 : -99 AGAGAGAGA AC RSP00865 Mean Expected Number 0.007 -strand +39 : +31 GGAGAGAGA AC RSP01114 Mean Expected Number 0.003 -strand -141 : -147 CCAAAAT AC RSP01475 Mean Expected Number 0.000 -strand -141 : -149 CCAAAATGT AC RSP01641 Mean Expected Number 0.006 +strand -104 : -95 TCaTGTCTCT Totally 11 motifs of 6 different REs have been found Description of REs found 679. Group TF: MYC /AC: RSP00713//OS: Hordeum vulgare /GENE: HvLTP2/RE: MYC RS /TF: MYC 800. Group TF: BPC1 /AC: RSP00864//OS: Arabidopsis thaliana /GENE: STK/RE: GA-5 /TF: BPC1 801. Group TF: BPC1 /AC: RSP00865//OS: Arabidopsis thaliana /GENE: STK/RE: GA-6 /TF: BPC1 1033. Group RE: CCAAT box-like motif 1 /AC: RSP01114//OS: Agrobacterium tumefaciens /GENE: ags/RE: CCAAT box-like motif 1 /TF: unknown 1343. Group RE: GCAA-like motif /AC: RSP01475//OS: Oryza sativa /GENE: GluA-3/RE: GCAA-like motif /TF: unknown 1461. Group RE: ARE /AC: RSP01641//OS: Nicotiana tabacum /GENE: P-450/RE: ARE /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: chalcone and stilbene synthase family protein |LOCUS: AT4G34850 |PROD: the same as GENE |16608318..16610253 |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +36 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.40 G - 0.15 T - 0.24 C - 0.21 1 aagactatgt atcaagaaaa aaatctcaaa gaactggagt tggattttag 51 aaagagccaa tgcaataaac atgaagcttc taaatctcac acctactctt 101 caccaaatat caactagaca gaaataccgc ACAATatgca ggtcacaaaa 151 ctgcaaaagc tgcagtgTAT ATATAtgcct tcactttgaa ccttatttac 201 AGACCCAAGA TTTGAGTCTT CAACAAACAG ATACAAATGG GAAGCATCGA 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00961 Mean Expected Number 0.007 +strand -49 : -42 TGCAAAAG Totally 1 motifs of 1 different REs have been found Description of REs found 886. Group TF: BPBF /AC: RSP00961//OS: Hordeum vulgare /GENE: ITR1/RE: PB1 /TF: BPBF ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: IDH1 |LOCUS: AT4G35260 |PROD: |complement(16774200..16776330) |SUPPORT | 4 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +92 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.32 G - 0.19 T - 0.35 C - 0.14 1 atgtcaaact aaattaatta ctgagtaaat gttgatgaag ttaaatgatt 51 ggggggattt gtataaatat cttaattgac gattctgaaa caaagtggtc 101 taatcggtga ttatctATTG Ttttatggaa atatcttaat gagatgaaga 151 ttttggggcg aattgTGTAA ATAactaaat tttaacaata aacgcttttc 201 GTCCGCCTCC AGCTCCCAAA AGCCAAAGGG CGAATCTTCT TCTTCTCTTT 251 C RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00441 Mean Expected Number 0.010 +strand -112 : -103 AACAAAGTGg AC RSP01167 Mean Expected Number 0.005 +strand -137 : -129 TAAATATCT Totally 2 motifs of 2 different REs have been found Description of REs found 421. Group TF: Dof1 /AC: RSP00441//OS: Zea mays /GENE: cyPPDK1/RE: box a /TF: Dof1 1079. Group RE: TATA box /Group TF: HMG proteins /AC: RSP01167//OS: Zea mays /GENE: pMS1/RE: TATA box /TF: HMG proteins ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: PSAT |LOCUS: AT4G35630 |PROD: phosphoserine aminotransferase, chloroplast (PSAT) |16904064..16905727 |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +146 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.34 G - 0.12 T - 0.36 C - 0.18 1 tgatttgatc tgtaacaagt ctttctttta ttgatatctc agcaataaaa 51 ttctcttata ccaatcatat tttttgtcaa tagttacaga ttcatagaat 101 atgtatgata taaggatgag agttttgatt tgaactcttt ttcttctaca 151 acTTTAAATA aaacacattg gaaatgagtc ttaactatac taacaccgca 201 GACAAAACTA GTACCACCTA ACACAAACGC TGTCGTTTTC AAGCTACATT 251 T RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00120 Mean Expected Number 0.000 -strand +38 : +25 AAACGACAgCGTTT Totally 1 motifs of 1 different REs have been found Description of REs found 118. Group RE: Box B /AC: RSP00120//OS: Pisum sativum /GENE: AS1/RE: Box B /TF: unknown ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: expressed protein |LOCUS: AT4G35905 |PROD: the same as GENE |complement(17007031..17008157) |SUPPORT | 3 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +87 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.36 G - 0.21 T - 0.27 C - 0.16 1 cggacgaatg gtcaacaaat tagaattgag ggcatcaaac aagaactata 51 aaatatagag gcttatattt gaaaattttc tcccctagct agaataatat 101 atacacattg aagggaccgt ttgtgaaaca taaaaATTGA ggggcatggt 151 tggaaactTT TAAATTtata ggggcgtttt gcgtttttac tcaaaaagtc 201 CAAAACTATC GCTCAACGCC GGTCGATTCT ACCGGAGATC GGAAAAAAGG 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00404 Mean Expected Number 0.009 +strand -23 : -17 TTTGCGT AC RSP00503 Mean Expected Number 0.003 +strand -116 : -109 CTAGCTAG AC RSP00503 Mean Expected Number 0.003 -strand -109 : -116 CTAGCTAG AC RSP00734 Mean Expected Number 0.002 -strand -20 : -27 CAAAACGC AC RSP01000 Mean Expected Number 0.004 -strand -54 : -63 ATGCCCCtCA Totally 5 motifs of 4 different REs have been found Description of REs found 386. Group RE: adja /AC: RSP00404//OS: Nicotiana tabacum /GENE: RNP2/RE: adja /TF: unknown 479. Group TF: RITA-1 /AC: RSP00503//OS: Nicotiana tabacum /GENE: Ntltp1/RE: D1 box /TF: RITA-1 697. Group TF: DET1; CDA-1 /AC: RSP00734//OS: Arabidopsis thaliana /GENE: cab2/RE: CDA-1 BS /TF: DET1; CDA-1 921. Group TF: CBF /AC: RSP01000//OS: Agrobacterium tumefaciens /GENE: T-cyt/RE: 3'-III element /TF: CBF ------------------------------------------------------------ > A.thaliana, Chr 4: GENE: cold-shock DNA-binding family protein |LOCUS: AT4G36020 |PROD: the same as GENE |complement(17043136..17044399) |SUPPORT | 1 exon(s) |Alternative mRNAs: 1 | -200:+51 from mRNA start|,5"-UTR: +54 bp |Taxon: Dicot |Promoter: TATA Nucleotide Frequencies: A - 0.33 G - 0.08 T - 0.36 C - 0.23 1 aaagtgaaat agcaagtttc ctaaatttct ccagtcccaa agaatattcc 51 accaaaattt ttaattaggc ggcatagtca aattagggtt taattacatt 101 ccccactaaa attagggttt tctcattaat ttcctcttaa ttacagattt 151 aatcccactc tacctcTATA TATAtataca cacacacgcc taaggatttc 201 CCAACTTAAA AAACCCTAAT TTCTCAATCT CTTCTTCAAC TTTTTTTTTT 251 A RE motifs found (positions are given in relation to TSS at 201; Mismatches - in lower case): AC RSP00279 Mean Expected Number 0.000 +strand -118 : -110 TTAGGGTTT AC RSP00279 Mean Expected Number 0.000 +strand -89 : -81 TTAGGGTTT AC RSP00279 Mean Expected Number 0.004 -strand +19 : +11 TTAGGGTTT AC RSP00369 Mean Expected Number 0.004 +strand +11 : +19 AAACCCTAA AC RSP00369 Mean Expected Number 0.000 -strand -81 : -89 AAACCCTAA AC RSP00369 Mean Expected Number 0.000 -strand -110 : -118 AAACCCTAA AC RSP00438 Mean Expected Number 0.001 +strand -133 : -128 GGCGGC AC RSP00483 Mean Expected Number 0.007 -strand -128 : -132 GCCGC AC RSP00807 Mean Expected Number 0.001 -strand -128 : -133 GCCGCC AC RSP01237 Mean Expected Number 0.003 +strand -37 : -28 CTCTATATAT AC RSP01303 Mean Expected Number 0.010 +strand +10 : +19 aAAACCCTAA AC RSP01303 Mean Expected Number 0.001 -strand -80 : -89 aAAACCCTAA AC RSP01303 Mean Expected Number 0.001 -strand -109 : -118 TAAACCCTAA AC RSP01304 Mean Expected Number 0.000 -strand -109 : -118 TaAACCCTAA AC RSP01601 Mean Expected Number 0.002 -strand -192 : -199 TTTCACTT Totally 15 motifs of 9 different REs have been found Description of REs found 270. Group RE: inverted Telo box /AC: RSP00279//OS: Arabidopsis thaliana /GENE: A-p40/RE: inverted Telo box /TF: unknown ||Identical REs AC: RSP00448 354. Group RE: telo-box /AC: RSP00369//OS: Arabidopsis thaliana /GENE: eEF1AA1/RE: telo-box /TF: unknown 418. Group RE: PR-box /AC: RSP00438//OS: Arabidopsis thaliana /GENE: PR-1/RE: PR-box /TF: unknown 460. Group RE: GC-2 /AC: RSP00483//OS: Zea mays /GENE: Adh1/RE: GC-2 /TF: unknown 760. Group RE: GCC box /Group TF: Pti4 /AC: RSP00807//OS: Arabidopsis thaliana /GENE: PDF1.2/RE: GCC box /TF: Pti4 ||Identical REs AC: RSP00809 RSP00811 RSP00814 RSP00921 RSP01328 1142. Group RE: -23 Z-BAC+ /AC: RSP01237//OS: Phaseolus vulgaris /GENE: BAC/RE: -23 Z-BAC+ /TF: unknown 1196. Group RE: Telo box /AC: RSP01303//OS: Arabidopsis thaliana /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1197. Group RE: Telo box /AC: RSP01304//OS: Lycopersicon esculentum /GENE: A1 EF-1alpha/RE: Telo box /TF: unknown 1422. Group RE: Inr /AC: RSP01601//OS: Spinacia o