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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttacaattaattataaaattttgtgatacaaattaactctttgcattatgatggagtatatgtgtgcatgttttacggggtattacgcagCGGTTTTCGTGGATGAATATGATATTGCAACATACACAATCAAAACAATAGATGATCCTCGTACTTTGAACAAGACAGTTTACATTAGGCCACCAGAAAA

Basic information

species Vitis vinifera
transcript Vv02s0033g00290.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0033g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g16220.3 (Oryza sativa), 3'ss of exon 1
-----gtacttacaattaattataaaattttgtgatacaaattaactctttgcatt-atgatggagtata-tgtgtgcatgttttacggggtattacgcagCGGTTTTCGTGGATGAATATGATATTGCAACATACACAATCAAAACAATAGATGATCCTCGTACTTTGAACAAGACAGTTTACATTAGGCCACCAGAAAA
      || ||  |    |||  |||   || |     ||  | ||  |  |  || ||  |  | |||| |       |    | |   ||  || |||||| |||| ||||||||| ||||| | | |||||| ||||||||| |||| ||||||||||| || |||||||||||| | ||||| || |||| ||| ||
aggaaataatt-tagggcattgaaaaccattcttcagtaatattacaatcagttttgattttcaactatactaaccaattaagctgcaatgttatatgcagCGTTTTTTGTGGATGAAGATGATGTGGGAACATATACAATCAAATCAATCGATGATCCTCGCACCTTGAACAAGACAATATACATAAGACCACAAGATAA

upper sequence: Vv02s0033g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g16240.1 (Oryza sativa), 3'ss of exon 1
-----gtacttacaattaattataaa-attttgtgatacaaattaactctttgcattatgatggagtata-tgtgtgcatgttttacggggtattacgcagCGGTTTTCGTGGATGAATATGATATTGCAACATACACAATCAAAACAATAGATGATCCTCGTACTTTGAACAAGACAGTTTACATTAGGCCACCAGAAAA
       | |||    || | | ||  ||| | |  ||  | |  ||||  |  |  ||  |  | |||| |       |    | |   ||  ||  ||| | |||| ||||||||| ||||| | | |||||| ||||||||| |||| ||||||||||| || |||||||||||| | ||||| || ||||  || ||
agaactaagttagggctattgaaaaccattctttagtaatattacactcagtttagaatt-tcaactatactaaccaattaagctgcaatgttatatccagTGTTTTTTGTGGATGAAGATGATGTGGGAACATATACAATCAAATCAATCGATGATCCTCGCACCTTGAACAAGACAATATACATAAGACCACAGGATAA

upper sequence: Vv02s0033g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g16410.1 (Oryza sativa), 3'ss of exon 2
----gtacttac-aattaattataaaattttgtgatacaaattaactctttgcattatgatggagtatatg----tgtgcatgtttta-cggggtattacgcagCGGTTTTCGTGGATGAATATGATATTGCAACATACACAATCAAAACAATAGATGATCCTCGTACTTTGAACAAGACAGTTTACATTAGGCCACCAGAAAA
      |  ||  || ||| |||||     ||   |||| | |||  |   |||||    || | | | |     ||  || | |  |     |   ||  ||| | |||||||||| ||| ||||| | | ||||||  |||| ||| |||| ||||||||||| || |||||||||||| | ||||| ||||| | ||| ||
ccagaaatatatgaagtaaatataag----tgcactacagaataatgcagagcatttgtttgaaatttgtactactgaccaagctgcaatattgctctatacagTGTTTTTCGTGGACGAAAATGATGTGGGAACATATGCAATAAAATCAATCGATGATCCTCGCACCTTGAACAAGACAATATACATAAGGCCTCAAGATAA

upper sequence: Vv02s0033g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G34470.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------------------gtacttacaattaattataaaattttgtgata------caaatt-aactctttgcattatgatggagtata----tgtgtgcatgttttacggggt-attacgcagCGGTTTTCGTGGATGAATATGATATTGCAACATACACAATCAAAACAATAGATGATCCTCGTACTTTGAACAAGACAGTTTACATTAGGCCACCAGAAAA
                                                                                     |||  |   ||    |   |||| |  | |||      |||||| ||     |||||    |||  || ||    | ||| | |  || | |   | |  | ||||  ||||   || ||||| ||||| ||||| |||||||||| || ||||| ||||||||||| || ||||||||||| || ||| | || |||||||||||
gtactccacattttaaaaattccaatcaatcataaaacaagtgttagaaagaaagtgtcatagtgtcgttactttctttatatttgtatgtgtcatagtatgcgaaatgtattcatagtttaccaaatttaaacacatgcatgcacatgtggtctaatactttgtac-taattaatgaattcacaatgcagTTGTTTATATGAATGAAGATGATGTTGCAGCATACACAATAAAGACAATCGATGATCCTCGAACATTGAACAAGACGGTATACCTAAGACCACCAGAAAA

upper sequence: Vv02s0033g00290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G17680.1 (Glycine max), 3'ss of exon 2
gtacttacaattaattataaaattttgtgatacaaat-taactctttgcattatgatgg-agtatatgtgtgcat----gttttacggggtattacgcagCGGTTTTCGTGGATGAATATGATATTGCAACATACACAATCAAAACAATAGATGATCCTCGTACTTTGAACAAGACAGTTTACATTAGGCCACCAGAAAA
  |         |||   ||| ||     | | |  | ||  |  ||  ||||||     |  ||   |   |||    |  || | | |      |||||  ||||  |||||||| ||||| |||||||||| ||||||||  ||||||||||||| || ||  | ||||| ||| | ||| | ||||| ||||||||
aaaaccttggccaataccaaacttaatcaaaatagttatattttattttattatgtcaacaagatggttagtcattatggcatttctgtgatgattgcagCTATTTTTCTGGATGAAGATGATGTTGCAACATATACAATCAAGGCAATAGATGATCCACGAACCCTTAACAAAACATTGTACCTAAGGCCTCCAGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actctttgcattatgatggagtatatgtgtgcatgttttacggggtattacgcagCGGTTTTCGTGGATGAATATGATATTGCAACATACACAATCAAAACAATAGATGATCCTCGTACTTTGAACAAGACAGTTTACATTAGGCCACCAGAAAA
 aattaac  putative branch site (score: 2)
         attatgat  TA-rich tract