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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcgcttggatagagttttggaagatgatgctccttttgatattttcagttgccagCTTGCTATGCATTACTCATGGTCTACTGAGGCACCGGCACGACGTGCTTTGGGCCAATGTATTCAGCATTACTTCGTCCAGAAGGCATCTTCATTGGAAT

Basic information

species Vitis vinifera
transcript Vv04s0023g02860.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g02860.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G17220.1 (Glycine max), 3'ss of exon 7
---------gttcgcttggatagagttttggaagatgatgctccttttgatattttcagttgccagCTTGCTATGCATTACTCATGGTCTACTGAGGCACCGGCACGACGTGCTTTGGGCCAATGTATTCAGCATTACTTCGTCCAGAAGGCATCTTCATTGGAAT
         |||| ||  | |  | | |    |  |||   |  | | |||  |   ||| ||   ||   | | |||  ||     ||   ||        |     | ||      |    ||||        | || | |     |    |  |     |   
ccatcttgtgttc-ctcagcttcaatatcaatatctgaattttgtatagatgatcaaagtagct--ctaattgttcatagcttcatatcatttgctattgtagGTTCGCTTGGACAAAGTTCTTGTA---GATGATGCTCCTTTTGATATTTGTAGTTGCCAG---

upper sequence: Vv04s0023g02860.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G41190.1 (Glycine max), 3'ss of exon 5
gttcgcttggatagagttttggaagatgatgctccttttgatattttcagttgccagCTTGCTATGCATTACTCATG-GTCTACTGAGGCACCGGCACGACGTGCTTTGGGCCAA-TGTATTCAGCATTACTTCGTCCAGAAGGCATCTTCATTGGAAT-------------
                 |   |||  ||||  |    |  | |  |||| |   ||  || ||     ||  | |   ||  |  || |  |        | |    |  || |  |    |  |    | ||| | |||| |         |||  ||             
-------------tctctagagaaagtgatcttgtgatccacagcttcaat-atcaattt-ctgaattttgtttagatgttcaaagaaggtctaattgttcatatcattcgctagGTTCGCTTGGACAAAGTTCTTGCAGATGATGCTCCTTTTGATATTTGTAGCTGCCAG

upper sequence: Vv04s0023g02860.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G22390.1 (Glycine max), 3'ss of exon 5
--gttcgcttggata-gagttttggaagatgatgctccttttgatattttcagttgccagCTTGCTATGCATTACTCATGGTCTACTGAGGCACCGGCACGACGTGCTTTGGGCCAATGTATTCAGCATTACTTCGTCCAGAAGGCATCTTCATTGGAAT
        |    || |  | ||        || |   |||   ||||||  |||      || |     |   || || ||  |         |      | || |  | || ||| ||  |      |  | |  |       | |  |  |||  | 
ggagaaagtgatctacggatcttcagcttcaataccattttctgtatttt--gtt-tagattttcagaaaaggcctaattgttcatatcattcgcaatttcagGTTCGCTTGGACAAAGTTCTTGCAGATGATGCTCCTTTTGATCTTTGTAGTTGCCAG

upper sequence: Vv04s0023g02860.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G20650.1 (Arabidopsis thaliana), 3'ss of exon 6
----------------------------------------gttcgcttgg--atagagttttggaagatgatgct-ccttttgatattttcagttgccagCTTGCTATGCATTACTCATGGTCTACTGAGGCACCGGCACGACGTGCTTTGGGCCAATGTATTCAGCATTACTTCGTCCAGAAGGCATCTTCATTGGAAT--
                                         |    || |   |  |||| ||||   | | | | ||   | ||  ||| | |    || |||||||||||||||||||| ||||||||||||  |||||||| ||||||| | ||||| |||||| ||||||||||||| |||  |||| || ||||   
gtttttcccactggcatattgaagttgtagcgtggttgaaatatagttagttgtgtagttatggattctaaagttaccaagtcattgtttaactgtgtagTTTGCTATGCATTACTCATGGACTACTGAGGCACGTGCACGACGAGCTTTGG-CAAATGT-TTCAGCTTTACTTCGTCCAGGAGGTGTCTTTATCGGAACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgcttggatagagttttggaagatgatgctccttttgatattttcagttgccagCTTGCTATGCATTACTCATGGTCTACTGAGGCACCGGCACGACGTGCTTTGGGCCAATGTATTCAGCATTACTTCGTCCAGAAGGCATCTTCATTGGAAT
                                 ttttgat  putative branch site (score: 4)
                                       tattttc  CT-rich tract
                                 ttttgatattttca  TA-rich tract