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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctctgccttctctaaatatattgagttaagcattgggttttatggttaatcaaagacgatcaaccctatctcttttgtacttatatggcagGTAAGATGGTTCTTTTGGATAAGCTACTTCCAAAGCTAAAAGAGCGTGATTCTAGGGTTCTAATATTTTCACAG

Basic information

species Vitis vinifera
transcript Vv05s0020g01780.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 9
gtaagctctgccttc-tctaaatatattgagttaagcattgggttttatggttaatcaa--agacgatcaaccctatctcttttgtacttata----------tggcagGTAAGATGGTTCTTTTGGATAAGCTACTTCCAAAGCTAAAAGAGCGTGATTCTAGGGTTCTAATATTTTCACAG
|||| || |   | | | |||   || |   | ||   |    ||||  || | |||||  |||      |   ||||  |||| |||||| |          | |||||||| ||||||||  |||||||| ||||||| || |||||||| |||||||||||||| || ||||||||||||
gtaaactttatttacatttaagagtact---tcaaaagtcc--tttttaggctgatcaattagatctgtgattatatcatttttctacttaaaaatatctcatttgcagGTAAAATGGTTCTACTGGATAAGTTACTTCCTAAACTAAAAGAACGTGATTCTAGGGTCCTTATATTTTCACAG

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 9
gtaagctctgccttctctaaatatattgagttaagcattgggttttatggttaatcaaagacgatcaaccctatctctt-ttgtacttatatgg------cagGTAAGATGGTTCTTTTGGATAAGCTACTTCCAAAGCTAAAAGAGCGTGATTCTAGGGTTCTAATATTTTCACAG
|||| |||| | | |  |||      |     |  | ||   ||||  |||| || ||  |      |    || || | |||||   ||||        ||||||| |||||||||||||||||| ||||||| ||  | |||||||| ||||||||||| || ||||||||||||
gtaaactctacatacattaagagagatactgcagacgttc--tttttaggttgatgaataaaatctgagatcatttcctgttgtaaaaatattttgtttccagGTAAAATGGTTCTTTTGGATAAGTTACTTCCTAAATTGAAAGAGCGCGATTCTAGGGTCCTTATATTTTCACAG

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 9
gtaagctctgccttctctaa-atatattgagttaagcattgggttttatggttaatcaaagacgatcaaccctatctc-ttttgtacttatatgg----cagGTAAGATGGTTCTTTTGGATAAGCTACTTCCAAAGCTAAAAGAGCGTGATTCTAGGGTTCTAATATTTTCACAG
|||| |||| | | |  ||| | ||| || |     ||||   ||||  |||| || ||  |      |   ||| || | |||||   |||| |    ||||||| |||||||||||||||||| ||||||| ||  | |||||||| ||||||||||| || ||||||||||||
gtaaactctacatacattaagagatactgcg---gacattc--tttttaggttgatgaataaaatctgagattatttcatgttgtaaaaatattgtttccagGTAAAATGGTTCTTTTGGATAAGTTACTTCCTAAATTGAAAGAGCGCGATTCTAGGGTCCTTATATTTTCACAG

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 9
gtaagctctgccttctctaaatatattgagttaagcattgggttttatggttaatcaa--agacgatcaaccctatc--tcttttgtacttata----------tggcagGTAAGATGGTTCTTTTGGATAAGCTACTTCCAAAGCTAAAAGAGCGTGATTCTAGGGTTCTAATATTTTCACAG
|||| || ||  | |  |||   || |   | ||   |    ||||  || | |||||  |||      |   ||||  | |||| |||||| |          | |||||||| ||||| ||  |||||||| ||||||| || |||||||| |||||||||||||| || ||||||||||||
gtaaactttgtttacagtaagagtact---tcaaaagtcc--tttttaggctgatcaattagatctgtgattatatcatttttttctacttaaaaacatttcatttgcagGTAAAATGGTCCTACTGGATAAGTTACTTCCTAAACTAAAAGAACGTGATTCTAGGGTCCTTATATTTTCACAG

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagctctgccttctctaaatatattgagttaagcattgggttttatggttaatcaaagacgatcaaccctat-ctcttttgtacttatatggcagGTAAGATGGTTCTTTTGGATAAGCTACTTCCAAAGCTAAAAGAGCGTGATTCTAGGGTTCTAATATTTTCACAG
                     ||     ||  |   | | | |  |   | |       || | |       |  |   | | || |  |||   ||||||||||||||| ||||||||  | ||||| ||| | ||||| |||||||| ||||| || |||||||| |||
--------------------gtaaggctagaaataaactagatccttcagatttctgtggaagttttttatgaagcatctctatattgttattttagGTAAGATGGTTCTCTTGGATAAATTGCTTCCTAAGTTGAAAGAACGTGATTCAAGGGTGCTGATATTTTCTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttatggttaatcaaagacgatcaaccctatctcttttgtacttatatggcagGTAAGATGGTTCTTTTGGATAAGCTACTTCCAAAGCTAAAAGAGCGTGATTCTAGGGTTCTAATATTTTCACAG
       ggttaat  putative branch site (score: 4)
                                tctcttttgtactt  putative PPT
                                    ttttgtacttatat  TA-rich tract