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SpliceDB: canonical and non-canonical splice site sequences in mammalian genes

Burset M., Seledtsov I., Solovyev V. (Nucl.Acids Res.,2000,28,4364-4375; Nucl. Acids Res.,2001,29,255-259)

About DB Format of files


Complete mammals (43337 pairs) database
Complete human (28468 pairs) database

SpliceDB

  Canonical Non-canonical
Mammal pairs from GenBank X X
Mammal EST supported pairs X X
Mammal EST supported and corrected pairs X X
Human pairs from GenBank X X
Human EST supported pairs X X
Human EST supported and corrected pairs X X
Human EST supported, corrected and HTG supported pairs   X

Mammalian frequency matrices for GT-AG pairs
donor site

   34.08   60.36    9.14    0.00    0.00   52.57   71.26    7.08   15.98
   36.24   12.90    3.27    0.00    0.00    2.82    7.56    5.50   16.46
   18.31   12.48   80.34  100.00    0.00   41.94   11.76   81.35   20.90
   11.38   14.25    7.24    0.00  100.00    2.55    9.29    5.88   46.16

acceptor site

    9.00    8.44    7.51    6.82    7.63    7.98    9.66    9.23    7.57    7.69   23.76    4.21  100.00    0.00   23.86
   31.03   31.04   30.69   29.32   32.60   33.00   37.26   38.56   41.02   35.28   30.92   70.82    0.00    0.00   13.81
   12.50   11.52   10.56   10.35   11.05   11.32   11.25    8.52    6.56    6.37   21.14    0.32    0.00  100.00   51.97
   42.36   44.04   47.04   49.43   47.05   46.28   40.81   42.89   44.54   50.50   24.09   24.61    0.00    0.00   10.37

Mammalian frequency matrices for GC-AG pairs
donor site

   40.48   88.89    1.59    0.00    0.00   87.30   84.13    1.59    7.94
   42.06    0.79    0.79    0.00  100.00    0.00    3.17    0.79   11.90
   15.87    1.59   97.62  100.00    0.00   12.70    6.35   96.83    9.52
    1.59    8.73    0.00    0.00    0.00    0.00    6.35    0.79   70.63

acceptor site

   11.11   12.70    3.17    4.76   12.70    8.73   16.67   16.67   12.70    9.52   26.19    6.35  100.00    0.00   21.43
   36.51   30.95   19.05   23.02   34.92   39.68   34.92   40.48   40.48   36.51   33.33   68.25    0.00    0.00    7.94
    9.52   10.32   15.08   12.70    8.73    9.52   16.67    4.76    2.38    6.35   13.49    0.00    0.00  100.00   62.70
   38.89   41.27   58.73   55.56   42.06   40.48   30.95   37.30   44.44   47.62   26.98   25.40    0.00    0.00    7.94
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