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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtagttggtcaacataatgcttacgtaaatcctatcttttataaatggaattttaccctaattttatgtccatctcatttggcctttttagGTGGTTGAGGTTGTAAGTGGGGATTGCATCATTGTAGCTGATGATTCTCTCCCATTCGGCAGCCCATTAGCAGAACGACGAGTTAACCTCTCCAGTATCA

Basic information

species Vitis vinifera
transcript Vv00s0283g00020.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os02g32350.2 (Oryza sativa), 3'ss of exon 8
gtgggtagttggtcaacataatgcttacgtaaatcctatcttttataaatggaattttaccctaattttatgtccatctcatttggcctttt-tagGTGGTTGAGGTTGTAAGTGGGGATTGCATCATTGTAGCTGATGATTCTCTCCCATTCGGCAGCCCATTAGCAGAACGACGAGTTAACCTCTCCAGTATCA
           ||        || |  |  || |  | | ||  | |  ||    |       ||  | || | | |    ||   |||||  ||||| || |||||||| |||||||||||||||||||| ||||||||  |    || | ||| || || |  |||||||| || ||||| || || || || |
-----------gtgggttccctgttctcacaagtagtgtattcaaca--tgatcatgcgattgaagctaatttgctttgtgttgatcctttcatagGTTGTAGAGGTTGTGAGTGGGGATTGCATCATTGTTGCTGATGACGCAGCTCCTTACGGAAGTCCTTCTGCAGAACGCCGGGTTAATCTTTCAAGCATTA

upper sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AC207890.3_FGT002 (Zea mays), 3'ss of exon 8
gtgggtagttggtcaacataatgcttacgtaaatcctatcttttataaatggaattttaccctaattt-tatgtccatctcat-ttggccttttt--agGTGGTTGAGGTTGTAAGTGGGGATTGCATCATTGTAGCTGATGATTCTCTCCCATTCGGCAGCCCATTAGCAGAACGACGAGTTAACCTCTCCAGTATCA
||| ||  |  ||   ||  ||| |   ||  || | ||| |  ||  |   |||| ||   || |   ||| |   | |||| ||| ||| ||   ||||||| ||||||||||||||||||||||| ||||| ||||||||||||   ||||  || || || | ||| ||||| || ||||| || || || || |
gtgtgtcttatgttccca-gatgatagtgtctattc-atcatg-attcacataattgtatgatagtaaatatttttttttcatgttgacctcttcacagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGAAGTCCTTCAGCTGAACGTCGGGTTAATCTGTCAAGCATTA

upper sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G136296_T03 (Zea mays), 3'ss of exon 9
gtgggtagttggtcaacataatgcttacgtaaatcctatcttttataaatggaattttaccctaatt-ttatgtccatctcat-ttggccttttt--agGTGGTTGAGGTTGTAAGTGGGGATTGCATCATTGTAGCTGATGATTCTCTCCCATTCGGCAGCCCATTAGCAGAACGACGAGTTAACCTCTCCAGTATCA
||| ||  |   |   |   |||     ||  || | ||| | |  | ||  |||| ||   || |   ||| |   |  ||| |||  || ||   ||||||| ||||||||||||||||||||||| ||||| ||||||||||||   ||||  ||||| || | ||| ||||| || ||||| || || || || |
gtgtgtcttacattctc-cgatgacagtgtgtattc-atcatgttcacat--aattgtatgatagtaactattttttttccatgttgatctcttcgcagGTGGTAGAGGTTGTAAGTGGGGATTGCATTATTGTGGCTGATGATTCTGCTCCATATGGCAGTCCTTCAGCCGAACGTCGGGTTAATCTGTCAAGCATTA

upper sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G00910.1 (Glycine max), 3'ss of exon 9
--------------------------------------------------------------------------------------------------gtgggtagttggtcaacataatgcttacgtaaatcctatcttttataaatggaattttaccctaattttatgtccatctc----atttggccttttt-agGTGGTTGAGGTTGTAAGTGGGGATTGCATCATTGTAGCTGATGATTCTCTCCCATTCGGCAGCCCATTAGCAGAACGACGAGTTAACCTCTCCAGTATCA
                                                                                                   || ||  |      | ||  |  ||     | |  | | |   | | ||  ||| ||     |  |||| ||| || |     | ||  | ||||  |||||||||||||||| ||||| |||||||||||||| |||||||||||  | ||||  ||||| ||| ||||||| || ||||| ||||| || ||||| |
gtaaaattttctctaaccattggtttatcccaaattaaaaaggatctcatggtgaataatatccctgaggatttggtttttgaccaaagccaatgacgttgtgtgatccacatatattgtagttgttgtattagtttatcccaaatattcaatcttcattca--tttaagtctattttttggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTCGATTCCATATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA

upper sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA05G33320.1 (Glycine max), 3'ss of exon 9
-----gtgggtagttggtcaacataatgcttacgtaaatcctatcttttataaatggaattttaccctaattttatgtccatctc---atttggccttttt-agGTGGTTGAGGTTGTAAGTGGGGATTGCATCATTGTAGCTGATGATTCTCTCCCATTCGGCAGCCCATTAGCAGAACGACGAGTTAACCTCTCCAGTATCA
          ||  | ||  || |  |  ||   | | |    | |   | |  |  ||| || |  | |||||| |||  | |    | ||  | ||||  |||||||||||||||| ||||| |||||||||||||| ||||||||||   | || |  ||||| ||| ||||||| || ||||| ||||| || ||||| |
gtggtccacatatattgtagacgttgttgttgtattagtt---tatcccaaatgttcaatctt-cattcattttaagtctttttttggacttatctttttccagGTGGTTGAGGTTGTTAGTGGAGATTGCATCATTGTTGCTGATGATTTGATTCCGTATGGCAGTCCACTAGCAGAGCGGCGAGTCAACCTTTCAAGTATTA

upper sequence: Vv00s0283g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G17050.4 (Glycine max), 3'ss of exon 9
gtgggtagttggtcaacataatgcttacgtaaatc--ctatcttttataaatggaattttaccctaattttatgtccatctcatttggcctttttagGTGGTTGAGGTTGTAAGTGGGGATTGCATCATTGTAGCTGATGATTCTCTCCCATTCGGCAGCCCATTAGCAGAACGACGAGTTAACCTCTCCAGTATCA
||   || ||| ||||     |  ||| |  || |    |   || ||  ||  ||   || |  | |||||          | |||   |||  |||||||||||||||| ||||| ||||| ||  |||| |||||||||||  | ||||  || || ||  |||| ||  | ||||||||||| || ||||| |
gtaaata-ttgctcaatcatttatttatgccaaacagtcagtcttcattcatataaacatatcaca-tttta----------acttgagttttacagGTGGTTGAGGTTGTGAGTGGAGATTGTATTGTTGTTGCTGATGATTCCATTCCATATGGTAGTCCTCTAGCTGAGAGGCGAGTTAACCTTTCAAGTATTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttataaatggaattttaccctaattttatgtccatctcatttggcctttttagGTGGTTGAGGTTGTAAGTGGGGATTGCATCATTGTAGCTGATGATTCTCTCCCATTCGGCAGCCCATTAGCAGAACGACGAGTTAACCTCTCCAGTATCA
                   ccctaat  putative branch site (score: 3)
                                              ccttttt  putative PPT
     taaatggaatttta  TA-rich tract