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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttatctattatttatatattataaattttgcattgtcgattaatcaaaaccgattatcactttggaagGTTCTAGCTGGAGACATTGACCCTGCTATTCGAACGCATACTGCCTTTTTTAGTGTTTGGAAAAGATATGGCTTCACCCCAGAGGGTTTTAATCTTGCCA

Basic information

species Vitis vinifera
transcript Vv05s0020g04650.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g04650.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os01g56670.3 (Oryza sativa), 3'ss of exon 11
------gtattttatctattatttatatattataaattttgcattgtcgattaatcaaaaccgattatcactttgg---aagGTTCTAGCTGGAGACATTGACCCTGCTATTCGAACGCATACTGCCTTTTTTAGTGTTTGGAAAAGATATGGCTTCACCCCAGAGGGTTTTAATCTTGCCA
       |   |  | ||| |   ||| |  | ||||  ||||       |  || |   |  ||| |  ||| |    |||||  ||||||||||  |||| ||||| |||||||| ||| ||||||| || ||||| ||||||| |||||||||||||||||| || ||||||||||| |
gtttggattactcgtatatcagagataaaaaa-aaatgatgcacacattctagatgatttcttattct-gcttagatttaagGTGTTAGCTGGAGATGTTGATCCTGCCATTCGAACTCATGCTGCCTTCTTCAGTGTATGGAAAAAATATGGCTTCACCCCAGAAGGGTTTAATCTTGCTA

upper sequence: Vv05s0020g04650.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G173868_T04 (Zea mays), 3'ss of exon 11
---gtattttatctattatttatatattata-aattttgcattgtcgattaatcaaaaccgattat--cactttgg---aagGTTCTAGCTGGAGACATTGACCCTGCTATTCGAACGCATACTGCCTTTTTTAGTGTTTGGAAAAGATATGGCTTCACCCCAGAGGGTTTTAATCTTGCCA
      ||  |  ||||  | |||  | ||     ||||        |||    |  |  | ||||    ||| |    |||||| ||||||||||  |||| ||||||||||| || ||| ||||||| || || || |||||||  ||||| || ||||| || |||||||||||||| |
gtttggttacacatatttctgataattgatgtggctttgtcgcacatattctagatgattgcttatgctgcttagatttaagGTTTTAGCTGGAGATGTTGATCCTGCTATTCGCACACATGCTGCCTTCTTCAGCGTCTGGAAAAAGTATGGTTTTACCCCTGAAGGTTTTAATCTTGCTA

upper sequence: Vv05s0020g04650.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA20G35290.1 (Glycine max), 3'ss of exon 6
----gtattttatctattatttatatattataaattttgc---attgtcgattaatcaaa----------accgattatcac-------tttggaagGTTCTAGCTGGAGACATTGACCCTGCTATTCGAACGCATACTGCCTTTTTTAGTGTTTGGAAAAGATATGGCTTCACCCCAGAGGGTTTTAATCTTGCCA-------
      |||||   | || || ||||| |   | ||||     | | | ||| ||| | |           |  ||| | |        |||| || ||| |||||||||| ||  | ||||| ||||| || ||| ||||||| || ||||| |||| ||||||||| || ||||| ||| | ||||||||||| |       
gttttcatttttcttgtttttgatataatggtatttttagttgactctggataaataatatcatggtggggctaattgtaatgtgtatttttgcaatgttttagCTGGAGATATCAATCCTGCAATTCGCACTCATGCTGCCTTCTTGAGTGTCTGGAGAAGATATGGTTTTACCCCTGAGAGCTTTAATCTTGCTAGTCTCAG

upper sequence: Vv05s0020g04650.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA10G32320.1 (Glycine max), 3'ss of exon 10
------------------------------gtatttt--atctattatttatatattataaattttgcattgtcgattaatcaaaaccgattatcactttggaagGTTCTAGCTGGAGACATTGACCCTGCTATTCGAACGCATACTGCCTTTTTTAGTGTTTGGAAAAGATATGGCTTCACCCCAGAGGGTTTTAATCTTGCCA
                              |||||||      | | |  ||| || |||| | |     ||  ||| |||   |||    | |   |||  |||||| |||||||||| ||  | || || ||||| || ||| ||||||| || ||||| |||| ||||||||| || || || ||||| ||||||||||| |
gttttcattttcctagtttttaatataatagtatttttagctgactctggataaataataa-tatcatggtggggat-aattgtaaca---tgtattttttcaagGTTTTAGCTGGAGATATCAATCCCGCAATTCGCACCCATGCTGCCTTCTTGAGTGTCTGGAGAAGATATGGTTTTACTCCTGAGGGCTTTAATCTTGCTA

upper sequence: Vv05s0020g04650.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT5G43710.1 (Arabidopsis thaliana), 3'ss of exon 11
---------------gtattttatcta-ttatttatatattataaattttgca--ttgtcgattaatcaaaaccgat-tatcacttt-ggaagGTTCTAGCTGGAGACATTGACCCTGCTATTCGAACGCATACTGCCTTTTTTAGTGTTTGGAAAAGATATGGCTTCACCCCAGAGGGTTTTAATCTTGCCA
                  ||| | | | || || |||||||  |   |    |  ||  | || | |    | | || | || || |   |||||| ||||||||||| |||| || || ||  |||| || |||||||| ||||| || |||||| ||||||| |||||||| ||||||||||||||||| |
gtaaatagtgattctacgtttgaccaaattgttaatatatttcaggctggaaaatttaactatgattttgtatctatgtttctctctcaaaagGTTTTAGCTGGAGACGTTGATCCAGCAATAAGAACTCACACTGCCTTCTTTAGCGTCTGGAAACGATATGGTTTCACCCCTGAGGGTTTTAATCTTGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatattataaattttgcattgtcgattaatcaaaaccgattatcactttggaagGTTCTAGCTGGAGACATTGACCCTGCTATTCGAACGCATACTGCCTTTTTTAGTGTTTGGAAAAGATATGGCTTCACCCCAGAGGGTTTTAATCTTGCCA
                        gattaat  putative branch site (score: 3)
                                           tcacttt  putative PPT
     ttataaattttgcatt  TA-rich tract