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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgatcatctctattttcatagtgttctaatgaaagcttcatctctatttcatggatataaaactggtatcatgaccattgaaattgattttggagaagtttttgctacaaaatatctgattttactgtgtaagcgatatgcatcaacagGAGAAGAATGGCTCCAAGATGGCTTTCTTAGATGGTAATCCTCCAGAGAGACTCTGCATGCCCATTGTTGACCATATTCAGTCACTAGGTGGTCAAGTCC

Basic information

species Vitis vinifera
transcript Vv09s0002g00100.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g08570.1 (Oryza sativa), 3'ss of exon 8
gt-ttgatcat----ctctattttcata-gtgttcta-atgaaagcttcatctctatttcatggatataaaactg--gtatcatgaccattgaaattgattttggagaagtt-tttgctac--------aaaatatctgatttt----------actgtgtaagcga---tatgc--atcaacagGAGAAGAATGGCTCCAAGATGGCTTTCTTAGATGGTAATCCTCCAGAGAGACTCTGCATGCCCATTGTTGACCATATTCAGTCACTAGGTGGTCAAGTCC
|| || || ||    ||||||  ||||  |||||  | ||||    ||| ||| |  ||   |||     | ||   |||| |   || |   | |   | |||     ||| ||| ||||        ||   |  ||| |||           |  | |||   |   |||||  ||    |||||||| |||| || |||||||| ||||| |||||||||||||| || ||  | |||||||| |||||||||||| |||  ||  | |||||| | || |
gtatttattatgttgctctatggtcatgtgtgttgcatatgagtaattcttctgttctttccggagtagtaccttacgtattacatccttcttagtgtttcttgtctctgttgtttcctaccttgaggaaactcaaatgaattttcgcttagaggccttttaaaaaaaattatgcaaatgtgtagGAGAAGCATGGTTCTAAGATGGCATTCTTGGATGGTAATCCTCCTGAAAGGTTATGCATGCCTATTGTTGACCATGTTCGCTCTTTGGGTGGTGAGGTTC

upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G410515_T01 (Zea mays), 3'ss of exon 8
-------------gtttgatcat-ctctattttcatag--tgttctaat-gaaagcttcatctctatttcatggatataaaactggtatcatgaccattgaaattgattttggagaa---------gtttttgctac---aaaatatct----gatttt----actgtgtaagcgatatgcatcaacagGAGAAGAATGGCTCCAAGATGGCTTTCTTAGATGGTAATCCTCCAGAGAGACTCTGCATGCCCATTGTTGACCATATTCAGTCACTAGGTGGTCAAGTCC
              ||| ||  | |  ||| ||  | |  |||| |  | |||    |    |  |  |  ||  | | |   |  | ||   |   ||    || | ||  || ||         ||  |||| ||   || ||  ||    ||| ||    |  |  ||    || |  ||   ||||||||| |||| || || ||||| ||||| ||||||||||| || || || || |||||||| |||||||| || |||| |||    |||||  | ||||
gtatagctgttctatttaattgtgcaatatattagttgcctgttttgtttgaagaaatagcttacaaatattgatttttattttcttgtctatattctttgtttttacttgagaaaatgctaatatgtacttgcaacgttaagatgccttgtggatcttttgaaaagattactttatgtaaatgtgcagGAGAAGCATGGTTCTAAAATGGCATTCTTGGATGGTAATCCGCCTGAAAGGCTATGCATGCCTATTGTTGATCACATTCGGTCTAGGGGTGGAGAGGTCC

upper sequence: Vv09s0002g00100.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT4G14210.2 (Arabidopsis thaliana), 3'ss of exon 8
gtttgatcatctctattttcatagtgttctaatgaaagcttcatctctatttcatggatataaaactggtatcatgaccattgaaattgattttggagaagtttttgctacaaaatatctgattttactgtgtaagcgatatgcatcaacagGAGAAGAATGGCTCCAAGATGGCTTTCTTAGATGGTAATCCTCCAGAGAGACTCTGCATGCCCATTGTTGACCATATTCAGTCACTAGGTGGTCAAGTCC
                                          || | | |    | || |   |    || |||| | |  || ||  |||  |   ||  || |   |    || ||   |  | |   | | | |    | |||  |||||| ||  |||| ||||||||||| ||||| |||||||||||||| || || || || |||||  | || || |||||||  |||||||||||  |||| |
------------------------------------------atgtttctcattttgaaacttattgtgtgtcataagc--tgcaacagatggttaggatattgtgaatttgcaa-atgcaaactaa---tatgaac----tacattgacagGAAAAACATGGTTCCAAGATGGCATTCTTGGATGGTAATCCTCCGGAAAGGCTTTGTATGCCAGTAGTGGATCATATTCGATCACTAGGTGGGGAAGTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagtttttgctacaaaatatctgattttactgtgtaagcgatatgcatcaacagGAGAAGAATGGCTCCAAGATGGCTTTCTTAGATGGTAATCCTCCAGAGAGACTCTGCATGCCCATTGTTGACCATATTCAGTCACTAGGTGGTCAAGTCC
                   atctgat  putative branch site (score: 4)
              aaaatatctgatttta  TA-rich tract