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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtcttttggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttttctgcacttaccttggtataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTTGTAAGCTCTTCTGA

Basic information

species Vitis vinifera
transcript Vv00s0972g00010.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0972g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g58590.1 (Oryza sativa), 3'ss of exon 11
-----gtgtgtcttttggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttttctgcacttaccttggtataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTTGTAAGCTCTTCTGA
      ||| | || |  || || || || |   |        ||||||| |  | | ||   |||||         | | || || | || |||   | ||  ||||||  ||        || | || ||||| |||||||| |||||||||||||| |||||||| |||||  | || ||                
gtatgttgtatattatatattaattatagttggaaagccaaggatttcatctgca-atgtatctaatt---------gctttgctgctattcctg---tcactgtggtattgaa--------gGACAATCATGGCCGTTTCTTCCTGGAATGACAATGGACAAAAGCAATTTGTTTACGACCCAA--------------

upper sequence: Vv00s0972g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G426275_T04 (Zea mays), 3'ss of exon 11
gtgtgtcttttggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttt-tctgcacttaccttggt-ataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTTGTAAGCTCTTCTGA
                              || ||||  ||   | | |      ||   |  ||  | ||     |||| | |   | | |  |||   |  | ||      | |  ||| | ||||||||||||||||| ||||||||||||||||| |||||||||||  | || ||                
-----------------------------gtatgttatgttat-tatatgctttctacatacaaatatgaggaacttgatatataaatttccttttattctaatcattgttgtacggaagGACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGCAGAAGCAGTTTGTTAACGACCCAA--------------

upper sequence: Vv00s0972g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G00200.1 (Glycine max), 3'ss of exon 11
gtgtgtcttttggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttttctgcacttaccttggta-taaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTTGTAAGCTCTTCTGA
|| ||| || | ||        ||| || | | | | ||||| |||||       | || ||| ||| ||    | |  |     | | | |  |   ||| || ||   | ||  ||| ||||||||||||||||| ||||||||||||||||| |||||||||||||| |||||||| |              
gtatgtgttctaga--------agcgcaga-atgctgaattt-attttc------ttttgattcactgcactagttttttaagactccggaatctctgttgttaatatttctattctagATCCATTATGGCTGTTTCCTCATGGAATGACAATGGACAAAAGCAGTTTGTACATGATCCAT--------------

upper sequence: Vv00s0972g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G00230.1 (Glycine max), 3'ss of exon 11
gtgtgtcttttggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttttctgcacttaccttggta-taaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTTGTAAGCTCTTCTGA
|| ||| || | ||   | |  ||       | | | ||||| |||||       | || |||  || ||    | |  |     ||  | |  |   ||| || |    | ||  ||| ||||||||||||||||| ||||||||||||||||| |||||||||||||| |||||||| |              
gtatgttttctaga---attgcaga------atgctgaattt-attttc------ttttgattcgctacactagttttttaagactttggaatctctgttgataatttttctattctagATCCATTATGGCTGTTTCCTCATGGAATGACAATGGACAAAAGCAGTTTGTACATGATCCAT--------------

upper sequence: Vv00s0972g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G38240.3 (Arabidopsis thaliana), 3'ss of exon 11
gtgtgtcttttggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttttctgcacttaccttggtataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTTGTAAGCTCTTCTGA
|| |||    |     | ||| | ||| ||||   ||| ||||      |||   ||  |||           || |  |  | |||||     |    ||||  |||    || |||  |||||||||||| ||| ||||||||||| ||||| || |||||||||||||||||||| |              
gtatgttacctactgaagctaga-ctcttatagtataagtttc---cacagagtatacaaat---------gtttttattactgtttctcattcttttctggtccaaacatgtgttagAACCATTATGGCTGCTTCATCATGGAATGATAATGGACAGAAGCAGTTTGTGCATGATCCCT--------------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttcagagttctgatgttttttctgcacttaccttggtataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTTGTAAGCTCTTCTGA
                           cacttac  putative branch site (score: 2)
               atgtttttt  TA-rich tract