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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttaaaggattattattacagtttagtatttatatgagaataaatgtttttataagtcagagataccaggaatatattaacacactgctcaatgtgtttacagATTTTCCAGTGGTTGGCTAGCATGCCTATTGAGTTGGAGGGCTATATCCGTCCTGGGTGTATCATCTTAACAATTTTTATTGCAATGCCAAAGTTTATGT

Basic information

species Vitis vinifera
transcript Vv05s0020g02160.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g02160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g33810.1 (Oryza sativa), 3'ss of exon 4
gtattttaaaggattattattacagtttagtatttatatgagaataaatgtttttataagtcagagat-accaggaatatattaacacactgctcaatgtgtttacagATTTTCCAGTGGTTGGCTAGCATGCCTATTGAGTTGGAGGGCTATATCCGTCCTGGGTGTATCATCTTAACAATTTTTATTGCAATGCCAAAGTTTATGT
           |  ||| |  |   | ||   ||   |  || |    |||||| ||     | ||||      |||   | |  || || |   ||| ||    ||||| ||  ||||| |  ||||||||||| ||||  ||||||||||||| |||||||| ||||  || |||||  | ||| ||||||||||| |   |||||
-----------gtatataaccaggctctaagtttctcaatagcacgc-tgttttcatgcccaaaagattgttctgaactcaatgccatac-gtaaaatatg----cagATATTTGAGTGGCTTTCTAGCATGCCTGTTGAACTGGAGGGCTATATTCGTCCTGGTTGTACAATTTTAACTGTATTTGTTGCAATGCCACAACATATGT

upper sequence: Vv05s0020g02160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G109354_T01 (Zea mays), 3'ss of exon 4
gtattttaaaggattattattacagtttagtatttatatgagaataaatgtttttataagtcagagataccaggaatatattaacacactgctcaatgtg--tttacagATTTTCCAGTGGTTGGCTAGCATGCCTATTGAGTTGGAGGGCTATATCCGTCCTGGGTGTATCATCTTAACAATTTTTATTGCAATGCCAAAGTTTATGT
                        || |||| ||  | | ||        ||  | |||   |||   |     | ||| ||||     ||||  |||||  | | ||||| ||| | ||||||| |||||||||| |||| ||||||||||| || ||||| || ||||| || |||||  | ||||||||||||||| ||  |||||
------------------------gtatagtcttgctctaag--------ttcatttaacatagaaccat----attattttaaagggatgctatatgtgaatgtgcagATCTTCGAATGGTTGGGTAGCATGCCTGTTGAATTGGAGGGCTACATTCGTCCGGGTTGTATTATTTTAACTGTATTTATTGCAATGCCACAGCATATGT

upper sequence: Vv05s0020g02160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G28460.1 (Glycine max), 3'ss of exon 4
gtattttaaaggattattattacagtttagtatttatatgagaataaatgtttttataagtcagagataccaggaatatattaacacactgctcaatgtgtttacagATTTTCCAGTGGTTGGCTAGCATGCCTATTGAGTTGGAGGGCTATATCCGTCCTGGGTGTATCATCTTAACAATTTTTATTGCAATGCCAAAGTTTATGT
||||||||||| ||| ||||| |||||||||||||  ||      ||    || ||      | | || | || ||   |||||||  ||||  ||||  ||| ||||| ||||| |||||||| || |||||| | ||||||||||| |||||||| ||||||||||  ||| | |||||||||||||||||||| ||  | ||||
gtattttaaagcattgttattgcagtttagtatttgaatagtggcaagatcttctaccg--tatacatgctagtaactgattaacaggctgccaaatgcatttgcagATATTCCAATGGTTGGCAAGTATGCCTGTGGAGTTGGAGGGATATATCCGCCCTGGGTGTACGATCCTGACAATTTTTATTGCAATGCCTAACATCATGT

upper sequence: Vv05s0020g02160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G10620.1 (Glycine max), 3'ss of exon 4
gtattttaaaggattattattacagtttagtatttatatgagaataaatgtttttataagtcagagataccaggaatatattaacacactgctcaatgtgttt--acagATTTTCCAGTGGTTGGCTAGCATGCCTATTGAGTTGGAGGGCTATATCCGTCCTGGGTGTATCATCTTAACAATTTTTATTGCAATGCCAAAGTTTATGT
||||||||||| ||| ||||| |||||||||||||  ||      ||    || |   |   | |  ||   | ||   |||||||  | ||  | ||  |||   ||||| ||||| |||||||| |  |||||| | || ||||| || |||||||| ||||||||||  ||| | ||| |||||||||||||||| ||  ||||||
gtattttaaagcattgttattgcagtttagtatttgaatagtggcaagatcttctgctatgtacatgtat--gtaactgattaacaggcagccaattgcatttgtgcagATATTCCAATGGTTGGCAAATATGCCTGTAGAATTGGAAGGATATATCCGCCCTGGGTGTACGATCCTGACAGTTTTTATTGCAATGCCTAACATTATGT

upper sequence: Vv05s0020g02160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G18830.3 (Arabidopsis thaliana), 3'ss of exon 4
gtattttaaaggattat-tattacagtttagtatttatatgagaataaatgtttttataagtcagagataccaggaatatattaacacactgctcaat-gtgtttacagATTTTCCAGTGGTTGGCTAGCATGCCTATTGAGTTGGAGGGCTATATCCGTCCTGGGTGTATCATCTTAACAATTTTTATTGCAATGCCAAAGTTTATGT
||||| | ||| ||||| |||||||||||||| || | | ||  ||   |   ||      |||||    | | |||  || || |   |   | | | |  ||| ||||| || || |||||||| | ||||||| ||||| |||||||||||||||| || || ||||  || || ||  | ||||| ||||||||| || ||||||
gtattctcaagaattatatattacagtttagtgttcaaa-gactatgtttaccttc-----tcagaatctcaaagaac-taatatcttgcgattaatttgaatttgcagATATTTCAATGGTTGGCCAACATGCCTGTTGAGCTGGAGGGCTATATCCGCCCAGGATGTACAATTTTGACTGTCTTTATAGCAATGCCAGAGATTATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttataagtcagagataccaggaatatattaacacactgctcaatgtgtttacagATTTTCCAGTGGTTGGCTAGCATGCCTATTGAGTTGGAGGGCTATATCCGTCCTGGGTGTATCATCTTAACAATTTTTATTGCAATGCCAAAGTTTATGT
                          tattaac  putative branch site (score: 1)
                      aatatattaacaca  TA-rich tract