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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattatgcatgtgccctgcacacaacagaggattcaagatcatagatattgagtactggtaataacagtttgtatttattttggcagTCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCTCCAGCCCACGTCCTTAGCCGGGGTATCGGCTGGCAG

Basic information

species Vitis vinifera
transcript Vv10s0003g01460.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0003g01460.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G12360.1 (Glycine max), 3'ss of exon 10
---gtattatg-catgtgccctgcacacaacagaggatt---------caagatcatagatattgagtactggtaataacagtttgtatttattttggcagTCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCTCCAGCCCACGTCCTTAGCCGGGGTATCGGCTGGCAG-------------
     || ||    | ||  |     | |  | |  ||           || | |||  | || || || |      || |     |   | ||||  |||||||| || || || || ||||| || || || |||||||||||||||||||| || ||||| || ||||| |||||||| ||||||             
catacatgataatttctgatcgaataatagtataaaatcgttttaaactaacagcatgaacatagactatttactcaaataaagaatcacttttttt-cagTCAACCGGGGCATACAAAGCTGCATCACGTCTTGCAAGTGCCACACCACCTCCTGCTCACGTGCTGAGCCGTGGTATCGGTTGGCAGGGAATTGGAATCT

upper sequence: Vv10s0003g01460.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G06750.1 (Glycine max), 3'ss of exon 8
------------gtattatgcatgtgccctgcacacaacagaggattcaagatcatagatatt-gagtactggtaataacagtttgtatttatt---ttggcagTCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCTCCAGCCCACGTCCTTAGCCGGGGTATCGGCTGGCAG-------------
            ||||  | |   |         ||   ||| | ||| |    ||||| |||  | |  | |   | ||   ||  ||| |     ||| ||||||||||| || || || ||||| || || ||||||||||| |||||||||||||| || || || ||||| ||||| || |||||              
gtgtgttaaaaagtatgttactaatatttgttgtaccgaagatggttcta----atagaaattcaaatgttagcgttgactaattacattgaaaaaattgacagTCAACTGGGGCATACAAAGCTGCATCACGACTAGCAAGTGCAACACCACCTCCAGCTCATGTTCTGAGCCGTGGTATTGGTTGGCAAGGAATTGGAATCT

upper sequence: Vv10s0003g01460.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G06840.1 (Glycine max), 3'ss of exon 8
---gtattatgcatg-tgccctgcacacaacagaggattcaagatc---atagatattgagtactggtaataacagtttgtattta-----ttttggcagTCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCTCCAGCCCACGTCCTTAGCCGGGGTATCGGCTGGCAG-------------
   ||   |   |   |    ||    ||| |   |    | | ||   ||||| ||| |    | ||  | ||   || |||| |     || |||||||||||||| || || || ||||| || || || |||||||| |||||||||||||| || || || ||||| ||||| || |||||              
gaagtgagacataaaattttatgattccaatatttgtcgtacggtcctaatagaaattcaaatgtagtgttgactagttatattaaaaaaattgtggcagTCAACTGGGGCATACAAAGCTGCATCACGACTTGCAAGTGCAACACCACCTCCAGCTCATGTTCTGAGCCGTGGTATTGGTTGGCAAGGAGTTGGAATCT

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|30252279|gb|CB969830.1|CB969830
EST:     CTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAG                         TCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCT
genomic: CTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAGgtattatgca ... attttggcagTCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCT
EST: gi|30252280|gb|CB969831.1|CB969831
EST:     CTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAG                         TCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCT
genomic: CTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAGgtattatgca ... attttggcagTCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCT
EST: gi|30251875|gb|CB969608.1|CB969608
EST:     CTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAG                         TCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCT
genomic: CTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAGgtattatgca ... attttggcagTCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCT
EST: gi|30252292|gb|CB969843.1|CB969843
EST:     CTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAG                         TCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCT
genomic: CTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAGgtattatgca ... attttggcagTCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCT
EST: gi|30252293|gb|CB969844.1|CB969844
EST:     CTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAG                         TCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCT
genomic: CTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAGgtattatgca ... attttggcagTCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCT
EST: gi|30251886|gb|CB969619.1|CB969619
EST:     CTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAG                         TCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCT
genomic: CTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAGgtattatgca ... attttggcagTCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaagatcatagatattgagtactggtaataacagtttgtatttattttggcagTCAACTGGAGCTTATAAGGCTGCGTCTCGGCTAGCAAGTGCCACACCACCTCCAGCCCACGTCCTTAGCCGGGGTATCGGCTGGCAG
                           taataac  putative branch site (score: 1)
                                          tttatttt  putative PPT
                           taataacagtttgtat  TA-rich tract