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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactggcattacatacttctctacaaagttagaaaagacaagctgtttagttcctactcaatttaatatttatccagCTGTCAGAACCCTTCAAAATTTTTGAATTTGACTTTTCGAAACGGCCAGACAGTCATGAGGAAACTGAACTACACATAAAGGCAATTGACAATGGCAGTG

Basic information

species Vitis vinifera
transcript Vv02s0154g00540.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0154g00540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os06g01640.1 (Oryza sativa), 3'ss of exon 4
gtactggcattacatacttctctacaaagttagaaaagacaagctgttt-agttccta--ctcaatttaatatttatccagCTGTCAGAACCCTTCAAAATTTTTGAATTTGACTTTTCGAAACGGCCAGACAGTCATGAGGAAACTGAACTACACATAAAGGCAATTGACAATGGCAGTG
|||  | | |||     || |  | |||  | | | | |     |||   |  ||| |    | | ||  | || ||  |||||||||||||||||||| |||||||||||||||||| |||||||||||| ||||||   ||  |  |  |  | |||    |||      ||||   ||
gtatggactttag----ttttgca-aaatctggtagaaaagtattgtcccaactcccaagtcctaatttgtcttaatgtagCTGTCAGAACCCTTCAAAGTTTTTGAATTTGACTTTTGGAAACGGCCAGATAGTCATCGTGAGGCCAATATCAAGATACGAACAACACGAGATGGATATG

upper sequence: Vv02s0154g00540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G037624_T01 (Zea mays), 3'ss of exon 4
gtactggcattacatacttctctacaaagttagaaaagacaagctgtttagttcctactcaatttaatatttatccagCTGTCAGAACCCTTCAAAATTTTTGAATTTGACTTTTCGAAACGGCCAGACAGTCATGAGGAAACTGAACTACACATAAAGGCAATTGACAATGGCAGTG
      | | |   |  || ||| |  |  | |        |    | | ||||| | ||    |    ||  |  |||||||||||||||||||| |||||||||||||||||||| |||| ||||| ||||||   |||||  |  |  | ||||| ||||  |   ||||   ||
------gtactgagt--ttttctgcgcatgttgttttatttaataatgttgttccaagtcctaatttctttgctttagCTGTCAGAACCCTTCAAAGTTTTTGAATTTGACTTTTCGGAACGTCCAGATAGTCATCGTGAAACAAAGATTGAGATAAAAGCAACAGCTGATGGGCATG

upper sequence: Vv02s0154g00540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G04600.1 (Glycine max), 3'ss of exon 4
gtactggcattacatacttctctacaaagttagaaaagacaagctgtttagttcctactcaatttaatatttatccagCTGTCAGAACCCTTCAAAATTTTTGAATTTGACTTTTCGAAACGGCCAGACAGTCATGAGGAAACTGAACTACACATAAAGGCAATTGACAATGGCAGTG
||      | ||   | |   | ||    | | | |  |  ||  || |  | ||||||||| |||| ||   ||||||| ||||||||||||||||||||||||||||| |||| |||||||||||| |||  ||  |||||||| ||     ||||||||| | |  |||| ||  
gtgtgtttaataagaattctgcaactccat-aaacattattagtagtatcttgcctactcaaattaagatcc-tccagCTTTCAGAACCCTTCAAAATTTTTGAATTTGATTTTTGGAAACGGCCAGAGAGTTCTGGAGAAACTGAGCTGTGTGTAAAGGCAACTAATGATGGGAGAA

upper sequence: Vv02s0154g00540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G16570.1 (Arabidopsis thaliana), 3'ss of exon 4
gtactggcattacatacttctctacaaagttagaaaagacaagctgtttagttccta--ctcaattta-atatttatccagCTGTCAGAACCCTTCAAAATTTTTGAATTTGACTTTTCGAAACGGCCAGACAGTCATGAGGAAACTGAACTACACATAAAGGCAATTGACAATGGCAGTG
||||| | ||     |||||||   | ||||    ||    ||||  ||||||  ||  ||||||| | ||||| |||||| ||||||| ||| ||||||| |||||||||||||||| |||||||||||| ||| |||  ||   |||  | |||||| | ||||    ||  || ||||
gtactagtatcctgaacttctccctacagttttgcaa--tgagct--ttagtttataaactcaattcatatattcatccagTTGTCAGAGCCCGTCAAAATATTTGAATTTGACTTTTGGAAACGGCCAGAAAGTAATGGAGAGCTTGATGTGCACATAGAAGCAAAAACCACGGGTAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaagttagaaaagacaagctgtttagttcctactcaatttaatatttatccagCTGTCAGAACCCTTCAAAATTTTTGAATTTGACTTTTCGAAACGGCCAGACAGTCATGAGGAAACTGAACTACACATAAAGGCAATTGACAATGGCAGTG
                                      atttaat  putative branch site (score: 4)
                                              tttatcc  CT-rich tract
                                tactcaatttaatatt  TA-rich tract