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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagactatataaaaatgtttattttatttattccattttttttccctttctcttgtttaatgatagatcacaatatgccacatctagaatagagttgggcttaacctttttttcatgcttgttcagAGTGTCCTCCATGTCACCAAATGCAAGGATGGCAAGAATATCTTCTCTTGAGAACATGCTCAGCATTTCCTCAAATTCACTTGTGGCAATGGCTTCACAA

Basic information

species Vitis vinifera
transcript Vv18s0001g10090.t01
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA04G04380.1 (Glycine max), 3'ss of exon 22
----gtatagactatataaaaatgtttattttatttattccattttttttccctttctcttg------tttaatgat--agatcacaat--atgccacatct--agaatagagttgggcttaaccttttttt------catgcttgttcagAGTGTCCTCCATGTCACCAAATGCAAGGATGGCAAGAATATCTTCTCTTGAGAACATGCTCAGCATTTCCTCAAATTCACTTGTGGCAATGGCTTCACAA
     | |    | | || |||| || |||| ||||  |      |   || |    |||||      ||  ||  |  | || | |||  |||  | || |  || |||   |  |  ||     ||  ||        |   | |  || |  ||||||||||||||||||||||| ||||| |||||| |||| |||||||||||||| ||||| || || ||||||||||| ||||||||||| |||
gttaattttatttttgtataaat-ttaatttaatttgctaatgcctacctctcaaattcttgaaaatattggatctttgaaataataatgcatgggatatgtgaaggataacatctgttttcctggttacttataaaatttatctttctagGGCATCCTCCATGTCACCAAATGCAAGAATGGCCAGAATAGCTTCACTTGAGAACATGCTGAGCATATCATCTAATTCACTTGTAGCAATGGCTTCTCAA

upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA17G35780.1 (Glycine max), 3'ss of exon 21
-----gtatagactatataaaaatg-tttattttatttattccattttttttccctttc------tcttgtttaatgatagatcacaatatgccacatcta-gaatagagttgggcttaacct----ttttttcatgcttgt--------tcagAGTGTCCTCCATGTCACCAAATGCAAGGATGGCAAGAATATCTTCTCTTGAGAACATGCTCAGCATTTCCTCAAATTCACTTGTGGCAATGGCTTCACAA
      | |    |||||||| ||  || | ||| || || |  |  |  || | |||       | | | | | | | | |  |  |  ||| | ||  | | | ||  ||   ||   |||      |||| |  | |||        ||||||  ||||||||||||||||||||||| ||||| |||||| |||| ||||||| |||||| | ||| || || ||||||||||||||||||||||| |||
gtctgtttttttttatataaatataattaactttgttaatgctttcctcattactttttgaaaattttggctcattcaaataatagcacgtgcaatataaaaggaaagcatttctctcttcctggttgcttttaacacctgtcatttttctcagAGCATCCTCCATGTCACCAAATGCAAGAATGGCCAGAATAGCTTCACTTGAGAGCATGCTGAACATATCATCTAATTCACTTGTGGCAATGGCTTCTCAA

upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA06G04520.1 (Glycine max), 3'ss of exon 22
-------gtatagactatataaaaatg-tttattttatttattccattttttttccctttctc--ttgtttaatgat--agatcacaatatgc----cacatctagaatagagttgggcttaacctttttttca------tgcttgttcagAGTGTCCTCCATGTCACCAAATGCAAGGATGGCAAGAATATCTTCTCTTGAGAACATGCTCAGCATTTCCTCAAATTCACTTGTGGCAATGGCTTCACAA
        |||    | ||||||  |  |||| |||  | || ||    | ||  | | ||     | ||  ||  |  | || | ||| ||      | ||  || |||   |  |  ||     ||  |||       ||  | | ||| |  ||||||||||||||||||||||| ||||| | |||| |||| ||||| |||||||| ||||| || || ||||||||||||||||||||||| |||
gttaattttattttttgtataaatttaatttaatttgctaatgcctgcctcttaacttctcaaaaatattggatatttgaaataataatgtgtggaatatatgaagtataacatctgttttcctggttacttctaaaacttgtctttccagGGCATCCTCCATGTCACCAAATGCAAGAATGGCCAAAATAGCTTCACTTGAAAACATGCTGAGCATATCATCTAATTCACTTGTGGCAATGGCTTCTCAA

upper sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA14G09390.1 (Glycine max), 3'ss of exon 21
----gtatagactatataaaaatgtttattttatttattccattttttttccctttctcttgtttaatgatagatcacaatatgccacatctagaatagagttgggcttaacctttt-------tttcatgcttgt--------tcagAGTGTCCTCCATGTCACCAAATGCAAGGATGGCAAGAATATCTTCTCTTGAGAACATGCTCAGCATTTCCTCAAATTCACTTGTGGCAATGGCTTCACAA
    || |    |||||| || |   | | ||| |  |  ||||  ||||       | |||  |  |   | || | || | |    || || ||   |        |  | |  |       ||| |  | |||        ||||||  ||||||||||| ||||||||||| ||||| |||||| |||| ||||||| |||||| | ||| || || ||||||||||| ||||||||||| |||
gtctgttttatatatatataattaaatttgttagtgctctcattactttttgaaaaattttggctcttt-caaataataacacgtgcaatataaaaggaaaacatttctctcttcctggttgcttttaacacctgtcattcttctcagAGCATCCTCCATGTCCCCAAATGCAAGAATGGCCAGAATAGCTTCACTTGAGAGCATGCTGAACATATCATCTAATTCACTTGTAGCAATGGCTTCTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatatgccacatctagaatagagttgggcttaacctttttttcatgcttgttcagAGTGTCCTCCATGTCACCAAATGCAAGGATGGCAAGAATATCTTCTCTTGAGAACATGCTCAGCATTTCCTCAAATTCACTTGTGGCAATGGCTTCACAA
                           gcttaac  putative branch site (score: 3)
                                 cctttttttcatgctt  CT-rich tract
                                   tttttttcat  TA-rich tract