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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttacttcacatcattccgattttcaaagcatccggtttaattatgttttggaatgataacatctcattatgtttgtctcattgttttttgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGAAAACTATTACTGGTTTGCTCGATGGGAGTGGCGAATATACGCTTGTTTA

Basic information

species Vitis vinifera
transcript Vv09s0002g03410.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g03410.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G02350.1 (Glycine max), 3'ss of exon 3
---gttacttcacatc---attccgattttcaaagcatccggtttaattatgttttggaatgataacatctcattatgtttgtctcattgttttttgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGAAAACTATTACTGGTTTGCTCGATGGGAGTGGCGAATATACGCTTGTTTA
      | ||  | |    |||  | ||||| | || |  | |||| || | ||   || ||  || |    |     ||||||| |    |   ||   || |||||||||||||||||||||||||||| | || | |||||| |||||||||||| | ||||| || ||  | ||||| ||||| || ||||| ||||||||
tagaccattttgctttcaaattttgtttttccacgctttagttttagttctcttcgtgattgtcaagaaggaaac---tttgtctta--actcactgctgttcagCTCAAAGAGATTCCTCTGCTGGTGGAGTTCACAACAAGCAGGAGGAAGAGAAAGCAATTACGGGGTTATTGGATGGAAGTGGAGAGTATACTCTTGTTTA

upper sequence: Vv09s0002g03410.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G43050.1 (Glycine max), 3'ss of exon 3
gttacttcacatcattccgattttcaaagcatccggtttaattatgttttggaatgataacatctcattatgtt-------tgtctcattgtttt-ttgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGAAAACTATTACTGGTTTGCTCGATGGGAGTGGCGAATATACGCTTGTTTA
        | | ||||  | ||||| | || |  | | |  |  || ||   ||  |  | |  |  | | |||       | | ||||| | |   ||   || |||||||||||||||||||||||||||  | || | |||||| |||||||||||| | ||||| || ||  | ||||| ||||| || | ||| ||||||||
-------tagaccattttgtttttccacgctttagttatcttcctgattgtcaagaaggaaacttggtgaagttatctgattttgtcattttctcactgctgttcagCTCAAAGAGATTCCTCTGCTGGTGGGGTTCACAACAAGCAGGAGGAAGAGAAAGCAATTACGGGGTTATTGGATGGAAGTGGAGAGTTTACTCTTGTTTA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|110422054|gb|EC988366.1|EC988366
EST:     TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAG                         CTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGA
genomic: TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAGgttacttcac ... tgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGA
EST: gi|110418706|gb|EC984872.1|EC984872
EST:     TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAG                         CTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGA
genomic: TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAGgttacttcac ... tgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGA
EST: gi|30251350|gb|CB969083.1|CB969083
EST:     TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAG                         CTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCAAGAGGAAGAGA
genomic: TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAGgttacttcac ... tgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGA
EST: gi|30251265|gb|CB968998.1|CB968998
EST:     TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAG                         CTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCAAGAGGAAGAGA
genomic: TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAGgttacttcac ... tgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGA
EST: gi|30251355|gb|CB969088.1|CB969088
EST:     TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAG                         CTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCAAGAGGAAGAGA
genomic: TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAGgttacttcac ... tgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGA
EST: gi|30251271|gb|CB969004.1|CB969004
EST:     TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAG                         CTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCAAGAGGAAGAGA
genomic: TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAGgttacttcac ... tgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGA
EST: gi|161721537|gb|FC069747.1|FC069747
EST:     TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAG                         CTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCAAGAGGAAGAGA
genomic: TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAGgttacttcac ... tgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGA
EST: gi|110386232|gb|EC950813.1|EC950813
EST:     TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAG                         CTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCAAGAGGAAGAGA
genomic: TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAGgttacttcac ... tgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGA
EST: gi|156736126|gb|EV240247.1|EV240247
EST:     TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAG                         CTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCAAGAGGAAGAGA
genomic: TGAAAAACTTTCATCTGCTGTTGATGAGCTATTCAGGGGCCTTCTAGCAGgttacttcac ... tgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttttggaatgataacatctcattatgtttgtctcattgttttttgtgttttagCTCAAAGAGATTCCTCTGCTGGTGGAATCCAGACCAAGCATGAGGAAGAGAAAACTATTACTGGTTTGCTCGATGGGAGTGGCGAATATACGCTTGTTTA
          tgataac  putative branch site (score: 2)
                                tctcattgtttttt  putative PPT
                                        ttttttgtgtttta  TA-rich tract