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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatatgatatgataaattttgtttttctgaagcataatttttgtttttgagttaaagagataatgtatcttcttttgtttggcattagtttgtgtttatttggtgggatttgatatgggttttgatgctacttaagtgatttggttgtggctgtagGCAAACTGGGAATGTGTACAAAAATGTCAAGAAGAAGATCGAGAGGGGTGTTGCATTTCCGACTTGCATTTCAGTAAACAACACTGTTTGTCACTTCTCA

Basic information

species Vitis vinifera
transcript Vv06s0004g06870.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g06870.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G18500.1 (Glycine max), 3'ss of exon 3
gtatgatatgatatgataaattttgtttttct-gaagcataatttttgtttttgagttaaagagataatgtatcttcttttgtttggcattagtttgtgtttatttggtgggatttgatatgggttttgatgctacttaagtgatttggttgtggctgtagGCAAACTGGGAATGTGTACAAAAATGTCAAGAAGAAGATCGAGAGGGGTGTTGCATTTCCGACTTGCATTTCAGTAAACAACACTGTTTGTCACTTCTCA
        | |  | ||||  ||  |   |   | |||||  | ||||   ||   ||||   |    ||||| ||   ||| |         ||||||||| |||       | |  | | | || |   | |       || ||||   |||  |||||||||||||| ||||||||||| ||||| |||| |||||| ||||| |||||||| || || || ||  | || |||||||||  ||| || || ||||| 
-------gtaagcttataatattcataaatgaaggagcattgtctttgacatttttttaacatg----tgtatatttaattgct-------gctttgtgttttttttaatatttatattttagcttatagggtt-------tgctttgtgggtg--tgtagGCAAACTGGAAATGTGTACAAGAATGTGAAGAGGAAGATTGAGAGAGGTGTTGCTTTCCCTACATGTTTGTCTGTAAACAACGTTGTCTGCCATTTCTCT

upper sequence: Vv06s0004g06870.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G43390.1 (Glycine max), 3'ss of exon 3
gtatgatatgatatgataaattt-tgtttttctgaagcataatttttgtttttgagttaaagagataatgtatcttcttttgtttggcattagtttgtgtttatttggtgggatttgatatgggttttgatgctacttaagtgatttggttgtggctgtagGCAAACTGGGAATGTGTACAAAAATGTCAAGAAGAAGATCGAGAGGGGTGTTGCATTTCCGACTTGCATTTCAGTAAACAACACTGTTTGTCACTTCTCA
                |||  || |  | |||  ||    |       | | ||   | || | ||| ||||  |||  ||| |        |||||||| | |||  |   ||||   |||| ||     |||| ||  ||  || | |||||  |||||||||||||| ||||||||||| ||||| |||| |||||| ||||| |||||||| || || || ||  | ||| | ||||||  ||| || || ||||| 
--------------agtaagcttataatattcataaatgaaggagcattgtctgttcttaacatata-tgtacattcaattgct-------ggtttgtgtctttttt-taatattt---atggatta----gctaattgggt--ttggtttgtg--tgtaGGCAAACTGGAAATGTGTACAAGAATGTGAAGAGGAAGATTGAGAGAGGTGTTGCTTTCCCAACATGTTTATCAATCAACAACGTTGTCTGCCATTTCTC-

upper sequence: Vv06s0004g06870.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G29420.1 (Glycine max), 3'ss of exon 3
gtatgatatgatatgataaattttgtttttctgaagcataatttttgtttttgagttaaagagataatgtatcttcttt---tgtttggcattagtttgtgtttatttggtgggatttgat-atgggttttgatgctacttaagtgatttggttgtggctgtagGCAAACTGGGAATGTGTACAAAAATGTCAAGAAGAAGATCGAGAGGGGTGTTGCATTTCCGACTTGCATTTCAGTAAACAACACTGTTTGTCACTTCTCA
                                      |||  |||||  || | ||      ||  ||||| |  |     |||||   |||  | | |  |||||| |||   || | | ||||| |||| ||         || |||  ||     || ||||||||||| ||  ||||||| ||||| |||| |||||| ||||| |||||||| || ||||| ||  | || || ||||||||||| ||||||||||| 
-------------------------------------gtaagctttgtgcttaattttgccccatt-tgtatttgttacaggtgtttatgattgttcttttattattttgtgattttagcttatggggtttgctg---------tgtttttttttctaatgaagGCAAACTGGTAACATGTACAAGAATGTGAAGAGGAAGATTGAGAGAGGTGTTGCCTTCCCGACATGTGTGTCTGTGAACAACACTGTCTGTCACTTCTCT

upper sequence: Vv06s0004g06870.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S119_137V6.1 (Physcomitrella patens), 3'ss of exon 2
gtatgatatgatatgataaattttgtttttctgaagcataatttttgtttttgagttaaagagataatgtatcttcttttgtttggcattagtttgtgtttatttggtgggatttgatatgggttttgatgctacttaagtgatttggttgtggctgtagGCAAACTGGGAATGTGTACAAAAATGTCAAGAAGAAGATCGAGAGGGGTGTTGCATTTCCGACTTGCATTTCAGTAAACAACACTGTTTGTCACTTCTCA
                                   | || | || | ||  | |  | ||  ||||          | |||||  ||  | || ||  ||||  || ||  |||           ||  |||| || | |  ||||     |    | || | ||| |    | ||||||| ||  | || ||||| || || || || ||||||||||| |||||| | || || ||||||||||| ||||||||||| 
-----------------------------------gtattagttatattcatcaactcaattgatagg--------tgttgtt--gctgtcgtctgaatttacgtgttgaaattc----------ttactgctgctaacggaattt-----tactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGTTGCATTTCCCACTTGCGTATCTGTGAACAACACTGTATGTCACTTCTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtgggatttgatatgggttttgatgctacttaagtgatttggttgtggctgtagGCAAACTGGGAATGTGTACAAAAATGTCAAGAAGAAGATCGAGAGGGGTGTTGCATTTCCGACTTGCATTTCAGTAAACAACACTGTTTGTCACTTCTCA
                  ttttgat  putative branch site (score: 4)
      atttgatat  TA-rich tract