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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtttacttatggtgttctatgtatgtttcataccatttgttttgatccatagctttgtttttcttattttttagGTTCATCCAAGTGATGTGATGGGACCTTCTATTCCTGGTCCTCTTGTATTGCTTGTAGACTGCCCAACGGAATCATATCTACAGGACCTTTTATCCGTGG

Basic information

species Vitis vinifera
transcript Vv09s0002g04000.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g04000.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G43270.1 (Glycine max), 3'ss of exon 6
---------------------------------------------------------gtgggttta---cttatggtgttctatgtatgtttcataccatttgttttgatccatagct-ttgtttttcttattttttagGTTCATCCAAGTGATGTGATGGGACCTTCTATTCCTGGTCCTCTTGTATTGCTTGTAGACTGCCCAACGGAATCATATCTACAGGACCTTTTATCCGTGG
                                                           |  |||    || ||||  ||| || |   || || |   ||   |    |  | |||   ||||| |||  |    ||||||||||||||||||||  |||| |||||| ||||||||||  ||||| | ||||| || |||||||| |||||  || |  | |   | || || ||  
gttagtctcaaaactctacattatttgcccaaagcagagtagaattagaaaaggaaacagaatttgagcctgatggatttcaatctcaattacacatgcttcaatacattgtaaagcaactgtttgtctactaaaatagGTTCATCCAAGTGATGTCTTGGGTCCTTCTGTTCCTGGTCCCATTGTACTCCTTGTTGATTGCCCAACAGAATCTCATTTGGAAGCATTATTGTCTGTAC

upper sequence: Vv09s0002g04000.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G02070.1 (Glycine max), 3'ss of exon 7
-----------------------------------------------------------------------gtgggtttacttatggtgttctatgtat--gtttcataccatttg-ttttga---tccatagctt----------tgtttttcttattttttagGTTCATCCAAGTGATGTGATGGGACCTTCTATTCCTGGTCCTCTTGTATTGCTTGTAGACTGCCCAACGGAATCATATCTACAGGACCTTTTATCCGTGG
                                                                       | |  || | |     |     |||  |  ||||  | | ||||| | |||    |||||| |||          ||||| |||  |    ||||||||||||||||||||  |||| |||||| ||||||||||  ||||| | ||||| || |||||||| |||||  || |  | |   | || ||  || 
gttagtcttaaaactcgacattatttgcccaaagcagagtagaattataaaaggaaacagaatttgagacagagatttcaatctcaattgcacatgctttagtttatttcaatttgatgttgggcttccataccttgtaaagtaactgtttgtctgctacaatagGTTCATCCAAGTGATGTCTTGGGTCCTTCTGTTCCTGGTCCCATTGTACTCCTTGTTGATTGCCCAACAGAATCCCATTTGGAAGCATTATTGTCTATGC

upper sequence: Vv09s0002g04000.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G16260.1 (Arabidopsis thaliana), 3'ss of exon 6
gtgggtttacttatggtgttctatgtatgtttcatacc-----atttgttttgatcca-------tagctttgtttttcttattttttagGTTCATCCAAGTGATGTGATGGGACCTTCTATTCCTGGTCCTCTTGTATTGCTTGTAGACTGCCCAACGGAATCATATCTACAGGACCTTTTATCCGTGG
||  || |      |   |  |  | |   |||| | |     ||  ||||  || ||       || |  ||||     |   |  ||||||||||| ||||||||||||||||||||  ||||||||||| |||| |||||||| || || ||||| || ||| ||    |||| ||  ||||  |  
gtatgtctcaaagagcaatcattgggaatcttcacaacccaatatcagtttctatacaagcagactaacactgttcacgcttaatcatagGTTCATCCGAGTGATGTGATGGGACCTTCAGTTCCTGGTCCTGTTGTTTTGCTTGTGGATTGTCCAACAGAGTCACATGCCGAGGAACTGCTATCTATCC

upper sequence: Vv09s0002g04000.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G52160.1 (Arabidopsis thaliana), 3'ss of exon 6
------gtgggtttacttatgg-tgttctatgtatgtttcataccat-----ttgttttgatccatagct--ttgttt-ttcttattttttagGTTCATCCAAGTGATGTGATGGGACCTTCTATTCCTGGTCCTCTTGTATTGCTTGTAGACTGCCCAACGGAATCATAT-CTACAGGACCTTTTATCCGTGG
       || | ||||  |||  |||| | |   | | ||  |         |||| |  |    || ||   ||||  | |||   | ||||||||||||||||||||| |||||||||||  | ||||||||  ||||  | ||||| ||||| ||||| || ||  |  || ||| ||  ||    | |  
gtatacctgcgattaccaatgactgtttttttcctctctctgagtggagatattgtatgaaattgtaactgactgttcatgctttgatcttagGTTCATCCAAGTGATGTTATGGGACCTTCACTCCCTGGTCCCATTGTTCTCCTTGTGGACTGTCCAACAGAGTCGCACGCTGCAGAACTGTTCTCACTTA-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtatgtttcataccatttgttttgatccatagctttgtttttcttattttttagGTTCATCCAAGTGATGTGATGGGACCTTCTATTCCTGGTCCTCTTGTATTGCTTGTAGACTGCCCAACGGAATCATATCTACAGGACCTTTTATCCGTGG
                    ttttgat  putative branch site (score: 4)
                                 ctttgtttttcttatt  putative PPT
                                  tttgtttttcttattt  TA-rich tract