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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagaatactaaccaaatttatctgatgcccatacattactgcttataaacattgaaaaggctggtcaactggcagacatttggctatgttggctcgatatcagagtgttggttctccttatctcaaagggttcccaccttactataagataacagactattgacaatttcactgctaatgttgttgcagCAAAGATAGACCTGGACAGTATGAAAGCCACACTTCATTTACTCTTCCAGGGCTGTGTAGAGTTGTTTCAGGCATCAATCTCTTTGATCCCAAATTCAAC

Basic information

species Vitis vinifera
transcript Vv04s0079g00230.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G33240.1 (Glycine max), 3'ss of exon 9
gtcagaatactaaccaaatttatctgatgcccatacatt--actgcttataaacattgaaa--aggctggtcaactggcagacatttggctatgttggctcgatatcag----agtgttggttctccttatctcaa-agggttcccaccttactataagataacagactat------tgacaatttcactgctaa----tgttgtt-gcagCAAAGATAGACCTGGACAGTATGAAAGCCACACTTCATTTACTCTTCCAGGGCTGTGTAGAGTTGTTTCAGGCATCAATCTCTTTGATCCCAAATTCAAC
          ||   | |||| | |||   || | |  |  | ||| |  ||| || |||    | ||||   |||   ||| ||||   ||  | |  |  | |  ||    | | |      |  |     ||| ||  ||   |    |    |  | ||   | |        | |||  || | | || |    | ||||| |||||||||||||||| ||||| |||||||| ||  || ||||||| || |||||||||||||| ||||||||||| || ||| | ||||||||||| ||||||
--------gttagaaatattt-tttgacatcctttctcttgattgcctggaaa-atggaattttgtctggcacactca-agaaatttacttacatagtttataaaatagtaccaatatcaaaattgatagaaacaagagaattaataaaacaaagaagaaaaatcaattgaagtttgtaacatatttagttctgaaagttcttgtttgcagCAAAGATAGACCAGGACAATATGAAAGTCATGCTGCATTTACACTCCCAGGGCTGTGTAGGGTTGTTTCAGGGATAAATGTATTTGATCCCAAGTTCAAC

upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA14G39070.1 (Glycine max), 3'ss of exon 10
gtcagaatactaaccaaatttatctgatgcccatacattactgcttataaacattgaaaaggctggtcaactggcagacatttggctatgttggctcgatatcagagtgttggttctccttatctcaaagggttcccaccttactataagataacagactattgacaatttcactgctaatgttgttgcagCAAAGATAGACCTGGACAGTATGAAAGCCACACTTCATTTACTCTTCCAGGGCTGTGTAGAGTTGTTTCAGGCATCAATCTCTTTGATCCCAAATTCAAC
                                                                                         ||| |||| |    ||  |           | ||   ||     |   ||| ||  || | ||  | || | |||| | ||         |||||  ||||||||||||||||||||||| |||||||||||  || ||||||| || |||||||||||||| ||||||||||| || ||  | |||||||| || ||||||
-----------------------------------------------------------------------------------------gtttgctcaaa--tagccttacacacacgttaatgagaacaaaatagtaccctaaaatgaaat--ctgaattttgaaagtt--------gatgtt--tgcagCAAAGATAGACCTGGACAATATGAAAGCCATGCTGCATTTACCCTCCCAGGGCTGTGTAGGGTTGTTTCAGGGATAAACGTGTTTGATCCGAAGTTCAAC

upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA18G04990.1 (Glycine max), 3'ss of exon 10
gtcagaatactaaccaaatttatctgatgcccatacattactgcttataaacattgaaaaggctggtcaactggcagacatttggctatgttggctcgatatcagagtgttggttctccttatctcaaagggttcccaccttactataagataacagactattgacaatttcactgctaatgttgttgcagCAAAGATAGACCTGGACAGTATGAAAGCCACACTTCATTTACTCTTCCAGGGCTGTGTAGAGTTGTTTCAGGCATCAATCTCTTTGATCCCAAATTCAAC
                                                                             ||   |  | |  ||| |  || |  |||   ||  |       ||    |||       |  | | |  ||| |   |   || | |   | | |  | |  ||||  ||||||||||||||||| ||||| |||||||| ||  || ||||||| || |||||||||||||| ||||||||||| || ||| | |||||||||||       
-----------------------------------------------------------------------------accgatatcaaaattgaca-gaaaaaagaaaattaataa-----ataaagaagaa-----aaatcaattgaagtttgtaacatactaa-gttctgaaagttcttgtt--tgcagCAAAGATAGACCAGGACAATATGAAAGTCATGCTGCATTTACACTCCCAGGGCTGTGTAGGGTTGTTTCAGGGATAAATGTATTTGATCCCAA-------

upper sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G40740.1 (Glycine max), 3'ss of exon 9
gtcagaatactaaccaaatttatctgatgcccatacattactgcttataaacattgaaaaggctggtcaactggcagacatttggctatgttggctcgatatcagagtgttggttctccttatctcaaagggttcccaccttactataagataacagactattgacaatttcactgctaatgttgttgcagCAAAGATAGACCTGGACAGTATGAAAGCCACACTTCATTTACTCTTCCAGGGCTGTGTAGAGTTGTTTCAGGCATCAATCTCTTTGATCCCAAATTCAAC
                                                                                         ||| |||| |    | ||  ||       |  || | || | |  |  |   || ||    | ||   | | |  |   |||    | | || ||  ||||||||||||||||||||||| |||||||| ||  || ||||||| || |||||||||||||| ||||||||||| || ||  | |||||||| || ||||||
-----------------------------------------------------------------------------------------gtttgctcaa----atagcctta----cacacatgttaatgagaacaaag--tagtaccctaaaatgaaatctgaattttttttaagttgatatt--tgcagCAAAGATAGACCTGGACAATATGAAAGTCATGCTGCATTTACCCTCCCAGGGCTGTGTAGGGTTGTTTCAGGGATAAACGTGTTTGATCCGAAGTTCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caccttactataagataacagactattgacaatttcactgctaatgttgttgcagCAAAGATAGACCTGGACAGTATGAAAGCCACACTTCATTTACTCTTCCAGGGCTGTGTAGAGTTGTTTCAGGCATCAATCTCTTTGATCCCAAATTCAAC
                                      tgctaat  putative branch site (score: 2)
        tataagataa  TA-rich tract