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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttcaatgccctaattaattttagtcttcaattatttgattaaattaattgcttttgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC

Basic information

species Vitis vinifera
transcript Vv13s0067g01290.t01
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 21
gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttcaatgccctaat-taattttagtcttcaattatttgattaaattaattgcttttgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC
                                                  ||| |   ||    || |     |     | | | ||  |  || |    ||| |  ||||||   ||  |||   || | ||| |||||||||||| | ||||| || |||||||| || ||||| || |||||||| || || |||||||||||||| ||| | ||||| |||||||| || || |
------------------------------------------------gtatgcaactcttccaattcagtgttattggagtatcatcattctcatgtgctatgtatttaaat-gcttattttcctttatattg-tagGTGAACCCTGGAAATGCTCCATTAGTTGTTGGACAGCTACTTGATGATGAGTGCCCTGAAGATTTCATTAAGGGTTTGATTCTGTCTGTCCGTTCTCTCC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 21
gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttcaatgccctaat-taattttagtcttcaattatttgattaaattaattgcttttgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC
                                                  ||| |   ||    || |     |     | | | ||  |  || |    ||| |  |||||||  ||  |||   || | ||| |||||||||||| | ||||| || |||||||| || ||||| || |||||||| || || |||||||||||||| ||| | ||||| |||||||| || || |
------------------------------------------------gtatgcaactcttccaattcagtgttattggagtatcatcattctcatgtgctatgtatttaaattc-ttattttcctttatattg-tagGTGAACCCTGGAAATGCTCCATTAGTTGTTGGACAGCTACTTGATGATGAGTGCCCTGAAGATTTCATTAAGGGTTTGATTCTGTCTGTCCGTTCTCTCC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA14G06340.1 (Glycine max), 3'ss of exon 21
gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttcaatgccctaattaat-tttagtcttcaattatttgattaaattaattgcttttgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC
                                                    | |     || |        ||  | | | |  | | || ||||   || | ||  ||  | ||    |  ||| | |||  | ||||||||||  | ||||||||||||||||| |||||||||||||||||||||||  |||||||||| || |||||  | || |||||||| || ||  | |
----------------------------------------------------gtataatagtagccttgcttatctcatgagtgctatctactcttt--ttctctgcctatgtaaaac-ttcgtgcctttctatacagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAATGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTAC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 21
gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttcaatgccctaattaat-tttagtcttcaattatttgattaaattaattgcttttgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC
                                                    | |     || | |      ||  | | |||  | | || ||||   || | ||  ||  | ||    || ||| | |||  | ||||||||||  | ||||||||||||||||| |||||||||||||||||||| ||  |||||||||| || |||||  | || |||||||| || ||  | |
----------------------------------------------------gtataatagtagctttgcttatctcatgattgctatctactcttt--ttctctgcctatctaaaac-tttgtgcctttctatacagGTGAACCCAGGGAATGCACCTTTAGTTGTTGGGCAGCTGCTAGATGATGAGTGCGCAGAAGATTTTATCAAAGGCTTGATCCTTTCTGTTCGTTCATTAC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA18G02960.1 (Glycine max), 3'ss of exon 20
gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttcaatgccctaattaattttagtcttcaattatttgattaaattaattgcttt-tgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC
                        | ||| | | |  | ||    | ||| || |  | ||    |  ||  |||    |||    | |||| |  | ||  |       | | ||  |||| ||| |   || ||||||||||||  | ||||| |||||||| || ||||||||  ||||||||||||||||||||||||| || |||||  | ||||| ||||| || ||  | |
------------------------gtattatagtttgcatt--aataatgctgtaaccttgc---tttttacatg----aatactatctagtatctactttctctgccccactcataactttgtgccttgttttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGTCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttcaatgccctaattaattttagtcttcaattatttgattaaattaattgcttttgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC
                        | ||| | | |  | ||    | ||| || | || ||        | | | | | |||       | | |  | ||  |       | | ||  | ||      |||| ||||||||||||  | ||||| |||||||| || ||||||||  ||||||||||||| ||||||||||| || |||||  | ||||| ||||| || ||  | |
------------------------gtattatagtttgcatt--aataatgctgtaatcttgc-------ttattacacaaat-------actatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 21
gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttcaatgccctaattaattttagtcttcaattatttgattaaattaattgcttttgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC
                                                           ||| | | ||| |   |  |  |||| | | ||    | ||   |||   |||||  |   |  | | |  ||  |||||||| ||| | ||||| || ||||||||||||||| |||| ||||| ||||| || |||||||| || ||||| || ||||||||||| || ||  | |
--------------------------------------------------------gtatgtagtttctttag-acttttgttaaatatggtagg-attttcatgaaagaatta--tatatgcgatcccttttgtagGTGAATCCTGGGAATGCTCCCTTAGTTGTGGGGCAGTTGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTAC

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 21
gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttc-aatgccctaattaattttagtcttcaattatttgattaaattaattgcttttgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC
                                               || | |   ||||| |  | |||  |||||  |     | || ||| ||   ||||   ||  | |||  | | |||| |||| |  | ||||||||||| | ||||| || |||||||| |||||| |||| ||||||||||| || |||||||| || ||||| || ||||| ||||| || ||  |||
---------------------------------------------gtataa-ggtttcctgggactacttttaatgcgttgg---agttcagtttttttttatgaaat--attta--tacgtttgattctgtcaa-agGTGAACCCTGGGAATGCTCCCTTAGTTGTCGGGCAGTTGCTTGATGATGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTCTCTGTTCGTTCATTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattttagtcttcaattatttgattaaattaattgcttttgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC
                           aattaat  putative branch site (score: 3)
                                 ttgcttttgcttctct  CT-rich tract
     ttagtcttcaattatt  TA-rich tract