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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagttctaaaactaaaaccaaaatctaccaactgattctatttcttcttctttttttctttttttgtttctatgaagaaggatctctgatatttcatctttttgtttttgcacttagTTTCTTCAAGGAGTGTCCACACCCAGATGACAAGCAAAGGAAGGAGCTGAGCCGTGAATTAGGGTTAGAGCCCTTGCAGGTCAAATTTTGGTTCCAAAAC

Basic information

species Vitis vinifera
transcript Vv12s0059g02310.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0059g02310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G32050.1 (Glycine max), 3'ss of exon 3
gttagttctaaaactaaaaccaaaatctaccaactgattctatttcttcttctttttttctttttttgtttctatgaagaaggatctctgatatttcatctttttgtttttgcacttagTTTCTTCAAGGAGTGTCCACACCCAGATGACAAGCAAAGGAAGGAGCTGAGCCGTGAATTAGGGTTAGAGCCCTTGCAGGTCAAATTTTGGTTCCAAAAC
                 ||  |   | |   |  || || |     ||  | ||||||  |    ||   | |  ||  ||     | ||||| ||    ||||| || ||    | || ||||| ||||||||||| ||||| |||||||||||||||||||||||||| || || |||||||||||||| |||||||| || ||||||||||| |||
---------------ggaataatcttgtgttagttgtttatgcacattggtgttttttaatggaattcaattt--gattaatttgttttgataattttaattttttttcttct--tcagGTTCTTTAAGGAGTGTCCGCACCCTGATGACAAGCAAAGGAAGGAGCTGAGTCGAGAGTTAGGGTTAGAGCCATTGCAGGTTAAGTTTTGGTTCCAGAAC

upper sequence: Vv12s0059g02310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G46000.1 (Glycine max), 3'ss of exon 2
gttagttctaaaactaaaaccaaaatctaccaactgattctatttcttcttctttttttctttttttgtttctatgaagaaggatctctgatatttcatctttttgtttttgcacttagTTTCTTCAAGGAGTGTCCACACCCAGATGACAAGCAAAGGAAGGAGCTGAGCCGTGAATTAGGGTTAGAGCCCTTGCAGGTCAAATTTTGGTTCCAAAAC
 | | ||  |    |   |  ||| |  | ||     || |||||||| ||||| |||| |  || | ||  ||| ||   ||||    |||          ||||||||||||    |||| |||||||||||||| ||||||||||| |||||||||||||| |||||| | ||||||||||||||||| |||||||| || |||||||| || |||
-taaatttgaggcatctgattaaactgaaacagtctcttgtatttctttttcttcttttgtaattct-ttaatataaaattggatg---gat----------tttgtttttgca----gTTTTTTCAAGGAGTGTCCGCACCCAGATGATAAGCAAAGGAAGGAACTGAGCAGGGAATTAGGGTTAGAGCCATTGCAGGTTAAGTTTTGGTTTCAGAAC

upper sequence: Vv12s0059g02310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G10710.1 (Glycine max), 3'ss of exon 3
---------------------------------------gttagttctaaaactaaaacca---aaatctaccaactgattctatttcttcttctttttttctttttttgtttctatgaagaaggatctctgatatttcatctttttgt-ttttgcact-tagTTTCTTCAAGGAGTGTCCACACCCAGATGACAAGCAAAGGAAGGAGCTGAGCCGTGAATTAGGGTTAGAGCCCTTGCAGGTCAAATTTTGGTTCCAAAAC
                                        ||  | | | || ||   |     |  ||    ||   ||||| |||    |  ||   |||    ||    | |  |   ||      |  |||    |  |   ||  |||||   |  ||||| |||||||||||||| |||||||||||||||||||||||||| |||||| | || |||||||||||||| |||||||| || |||||||| || |||
gtaagttttcccaaataaaccccaatttcgtgatatttttttgataccagaaatagttctgttcatgtcagataaaaaattcttttttgagtatttaagttcaaacttaaacttttggttaaactggagcaaataaaaaaattggatgaattttgttttgcagTTTTTTCAAGGAGTGTCCGCACCCAGATGACAAGCAAAGGAAGGAACTGAGCAGGGAGTTAGGGTTAGAGCCATTGCAGGTTAAGTTTTGGTTTCAGAAC

upper sequence: Vv12s0059g02310.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G38430.1 (Glycine max), 3'ss of exon 3
gttagttctaaaactaaaaccaaaatctaccaactgattctatttcttcttctttttttctttttttgtttctatgaagaaggatctctgatatttcatctttttgtttttgcacttagTTTCTTCAAGGAGTGTCCACACCCAGATGACAAGCAAAGGAAGGAGCTGAGCCGTGAATTAGGGTTAGAGCCCTTGCAGGTCAAATTTTGGTTCCAAAAC
              |  |||  ||   |       | ||   ||| | |  ||  |  | |||  | |  |  |    ||   || | |  || |  || ||  | ||||| |  | || ||||| ||||||||||| ||||| ||||| || ||||||||||||||||| || || |||||||||||||| |||||||| || ||||||||||| |||
-------------ttggaac--aatcttgtgtgtcggtt--gtttatgcacctggtgctttttaatggaattcaatttgattaatttgttttaata-attttaatattttttc-ttcagGTTCTTTAAGGAGTGTCCGCACCCTGATGATAAACAAAGGAAGGAGCTGAGTCGAGAGTTAGGGTTAGAGCCATTGCAGGTTAAGTTTTGGTTCCAGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtttctatgaagaaggatctctgatatttcatctttttgtttttgcacttagTTTCTTCAAGGAGTGTCCACACCCAGATGACAAGCAAAGGAAGGAGCTGAGCCGTGAATTAGGGTTAGAGCCCTTGCAGGTCAAATTTTGGTTCCAAAAC
                     ctctgat  putative branch site (score: 4)
                             tttcatctttttgttt  CT-rich tract
                          atatttcatctttttg  TA-rich tract