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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttcttgcagccattttgtttccttcatgatctcttctttcaattgtgcaactttttaattgttcttgccatctgcttttcagAGTCAATTTGGAGAGGCACAAGCAAAAGAGCTAAAGGCAAAGCAAGCACAGCTGGCAAGGGCCAAGGCAGAGCCTGATATAAATCCAAATTTGATAGAGG

Basic information

species Vitis vinifera
transcript Vv13s0067g03760.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g03760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G126141_T01 (Zea mays), 3'ss of exon 4
gtatttcttgcagccattttgtttccttcatgatctcttctttcaattgtgcaactttttaattgttcttgccatctgcttttcagAGTCAATTTGGAGAGGCACAAGCAAAAGAGCTAAAGGCAAAGCAAGCACAGCTGGCAAGGGCCAAGGCAGAGCCTGATATAAATCCAAATTTGATAGAGG
|| |     |  |  | |||||||  ||  | || |  | | ||| || | |    | | | |||    |    | | | |   ||||||||||||| || |||||||| |||||||| || | ||||||||| ||||| || | ||| ||||||||    || || |||||||| || || ||||
gtgtgcaaggatgaaaatttgttt--ttggttatgttgtttatca-ttattccctctctcatttgaatgtttggtttacct---agAGTCAATTTGGTGAAGCACAAGCTAAAGAGCTTAAAGTAAAGCAAGCCCAGCTTGCTAAGGCAAAGGCAGAAGTAGACATTAATCCAAACTTTATTGAGG

upper sequence: Vv13s0067g03760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G38600.1 (Glycine max), 3'ss of exon 4
---------gtatttcttgcagccattttgtttccttcatgatctcttctttcaattgtgca---actttttaattgttcttgccatctgctt--ttcagAGTCAATTTGGAGAGGCACAAGCAAAAGAGCTAAAGGCAAAGCAAGCACAGCTGGCAAGGGCCAAGGCAGAGCCTGATATAAATCCAAATTTGATAGAGG
          |     |  || ||   |  ||   ||| || | | |   ||    || | |   | ||  |||  ||| ||   || ||  |  | |||||| |||||||||| || |||||||||||||  ||||| || ||||||||| |||||| ||| ||||| |  |||||||||||||||||  | |||||  
ctccatatcatccgcatcacaacccactgattgggttcttggtttgtctattgctgtgggaagtgatttcctaacagttgttattatttggctcatgcagAGTAAATTTGGAGAAGCTCAAGCAAAAGAGCACAAGGCCAAACAAGCACAGTTGGCAAAGGCAAAGGCTGCTCCTGATATAAATCCAAACCTAATAGAAA

upper sequence: Vv13s0067g03760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G43990.1 (Glycine max), 3'ss of exon 6
--------------gtatttcttgcagccatttt---gtttccttcatgatctcttctttcaattgtgcaactttttaattgttcttgccatc--tgcttttcagAGTCAATTTGGAGAGGCACAAGCAAAAGAGCTAAAGGCAAAGCAAGCACAGCTGGCAAGGGCCAAGGCAGAGCCTGATATAAATCCAAATTTGATAGAGG
                ||  | | |  ||| |||   ||  | |||    |  |||  |||  ||      | || ||  || | |||  ||   |  ||  |||||| |||||||||| || |||||||||||||  ||||| || ||||||||| |||||| ||| ||||| |  |||||||||||||| || || |||||  
gtatttttatccatccatccccttctcccactttctggtgactttcccttttacttaattcttttcaattgccttctatgtgct-ttgttattattatttgacagAGTAAATTTGGAGAAGCTCAAGCAAAAGAGCACAAGGCCAAACAAGCACAGTTGGCAAAGGCAAAGGCTGCTCCTGATATAAATCCTAACTTAATAGAAA

upper sequence: Vv13s0067g03760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G01460.1 (Glycine max), 3'ss of exon 3
--------------gtatttcttgcagccattttgt------ttccttcatgatct--cttctttcaattgtgcaactttttaattgttcttgccatctgctt--ttcagAGTCAATTTGGAGAGGCACAAGCAAAAGAGCTAAAGGCAAAGCAAGCACAGCTGGCAAGGGCCAAGGCAGAGCCTGATATAAATCCAAATTTGATAGAGG
                ||  | | |  ||| ||| |      || ||   | |  |   |  |||||||||       | |   ||||  ||   || ||  |  | |||||| |||||||||| || |||||||||||||  ||||| || |  |||||| |||||| ||| ||||| |  |||||||||||||| || || |||||  
gtatttttatccatccatccccttctcccactttctagtgactttctcttttacttagttcttttcaattgccttgtatgtgctttgtaattattatttgactcatgcagAGTAAATTTGGAGAAGCTCAAGCAAAAGAGCACAAGGCCAAACTGGCACAGTTGGCAAAGGCAAAGGCTGCTCCTGATATAAATCCTAACTTAATAGAAA

upper sequence: Vv13s0067g03760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G28060.1 (Arabidopsis thaliana), 3'ss of exon 4
-------gtatttcttgcagccattttgtttccttcatgatctcttctttcaattgtgcaactttttaattgt---tcttgccatctgcttttc--agAGTCAATTTGGAGAGGCACAAGCAAAAGAGCTAAAGGCAAAGCAAGCACAGCTGGCAAGGGCCAAGGCAGAGCCTGATATAAATCCAAATTTGATAGAGG------
        | | | ||| |   ||| | |||     ||  |||||  |     |  |  |  | | | |||||   | || |  |||  | ||   ||||||| ||||| || ||| |||| || ||||| ||||  ||||||||||| |||||       |||||| |   ||||||||||||||||||||||||||      
gtatgcattgtcttttgtatggattct-ttttgacgatattctctcttggtggtcttttagatgtctcattgtgtgtatttctgtcttttctttatagAGTCATTTTGGTGAAGCAAAAGCGAAGGAGCTGAAGGTGAAGCAAGCACAACTGGC------TAAGGCAAACGATGATATAAATCCAAATTTGATAGAGGTATCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatctcttctttcaattgtgcaactttttaattgttcttgccatctgcttttcagAGTCAATTTGGAGAGGCACAAGCAAAAGAGCTAAAGGCAAAGCAAGCACAGCTGGCAAGGGCCAAGGCAGAGCCTGATATAAATCCAAATTTGATAGAGG
                         ttttaat  putative branch site (score: 3)
                                           tctgcttttc  putative PPT
                     aactttttaattgtt  TA-rich tract