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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatgacaataatctcttttagtcctgcccatccttcaaatatgtaagttgggttttaatctgtctttcactctgcttctctctagGTTATGAGCAGGCATTCTTGGAAAGATCAGGCTGCACAACCCAAGATCAAGTGCTTCACCCAGGTGAAGGCTCGGCCCCCAACTTTTGTTGCCTTTATGG

Basic information

species Vitis vinifera
transcript Vv12s0035g02010.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0035g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM5G848602_T01 (Zea mays), 3'ss of exon 8
-gtaagtatgacaataatctcttttagtcctgcccatccttcaaat--atgtaagttgggttttaatctgtctttc----actctgc---ttctctctagGTTATGAGCAGGCATTCTTGGAAAGATCAGGCTGCACAACCCAAGATCAAGTGCTTCACCCAGGTGAAGGCTCGGCCCCCAACTTTTGTTGCCTTTATGG
 |   | ||||   | |    |  |       |    |  | ||     |||    |   |||  | |  |  |||    ||  ||    |   ||||||||||||||||| ||||| |||||||||   ||| | || || ||  |||||| |||||| || |||||||| || || ||||| ||||||||||| ||| 
tgactgcatgatgttcaaagttactgactacactggccagtgaagccattgtggcatctatttcgaccattacttctaataccttgtgattgtgctctagGTTATGAGCAGACATTCCTGGAAAGATTCAGCTACTCAGCCAAAAGTCAAGTACTTCACTCAAGTGAAGGCACGACCACCAACATTTGTTGCCTTCATGA

upper sequence: Vv12s0035g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G40160.1 (Glycine max), 3'ss of exon 6
-------------gtaagtatgacaataatctcttttagtc-ctgcccatccttcaaat--atgtaagttgggttt-taatctgtc-tttcactctgcttctctctagGTTATGAGCAGGCATTCTTGGAAAGATCAGGCTGCACAACCCAAGATCAAGTGCTTCACCCAGGTGAAGGCTCGGCCCCCAACTTTTGTTGCCTTTATGG-----------
              | ||||   | || ||| ||||| ||  | |   |   | | | |  | |||| || | ||| | || | ||  ||     ||  | |    |||||||||||||||||||||||||||| || || ||||| || ||| | ||||  ||||| ||||| ||||| ||||| || || |||||||| ||| ||            
gttgcaaaaggcaattagtacatccatcatcactttttgtaacagtaaaatatgctattggaagtaaatttgctttcttatttctcactttggattggatttgatcaggttatgagcagGCATTCTTGGAAAGACCAAGCAGCACAGCCTAAGGTTAAGTATTTCACTCAGGTCAAGGCCCGGCCACCTACATTTGTTGCGTTTGTGCGTGGGAAGACT

upper sequence: Vv12s0035g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G00640.1 (Glycine max), 3'ss of exon 5
gtaagtatgacaataatctcttttagtcctgcccatccttcaaatatgtaagttgggttttaatctgtc-tttcactctgcttctctctagGTTATGAGCAGGCATTCTTGGAAAGATCAGGCTGCACAACCCAAGATCAAGTGCTTCACCCAGGTGAAGGCTCGGCCCCCAACTTTTGTTGCCTTTATGG
                                  || |      ||   || |||  || | || | ||  ||      | || |   ||||||||||||||||||||||||||||  || || ||||| || ||| | ||||  ||||| ||||| ||||| ||||| || || ||||||||        
---------------------------gtaaaatatgcaattggtaataaatttgctttcttatttctcactttgggtcggttttgattagGTTATGAGCAGGCATTCTTGGAAAGGCCAAGCAGCACAGCCTAAGGTTAAGTATTTCACTCAGGTCAAGGCCCGGCCACCTACATTTGTTGC--------

upper sequence: Vv12s0035g02010.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G39960.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagtatgacaataatctcttttagtcctgcccatccttcaaa-tatgtaa-gttgggttttaatctgtctttcactctgcttctc--tctagGTTATGAGCAGGCATTCTTGGAAAGATCAGGCTGCACAACCCAAGATCAAGTGCTTCACCCAGGTGAAGGCTCGGCCCCCAACTTTTGTTGCCTTTATGG
||  |||    ||  || |     | |   |   || |  ||||  || | |  |     |||  |   || ||   | ||  | |     |||||||||||| ||||||| ||||||||   |||| |||| || |||||||||| ||| || || ||||| ||||| || || |||||||| || ||| || 
gtttgtactttaa--atgttacagactatagtatatacaacaaaacatatgacatcattatttgcttaatcgttttttgtgtgtgttggcgtagGTTATGAGCCGGCATTCATGGAAAGACACGGCTTCACAGCCAAAGATCAAGTTCTTTACTCAAGTGAAAGCTCGACCGCCGACTTTTGTAGCGTTTGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccttcaaatatgtaagttgggttttaatctgtctttcactctgcttctctctagGTTATGAGCAGGCATTCTTGGAAAGATCAGGCTGCACAACCCAAGATCAAGTGCTTCACCCAGGTGAAGGCTCGGCCCCCAACTTTTGTTGCCTTTATGG
                      ttttaat  putative branch site (score: 3)
                            tctgtctttcactctg  CT-rich tract
      aaatatgtaa  TA-rich tract