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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatacaattaattataaaattttgtgatacaaattaactatttgcattatgatggagtatatatgtgcatgttttacggggtattacgcagCGGTTTTCGTGGATGAATATGATATCGCAACATACACAATCAAAACAATTGATGATCCTCGTACATTGAACAAGACAGTTTACATTAGGCCACCGGAAAA

Basic information

species Vitis vinifera
transcript Vv17s0053g00460.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0053g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g16220.3 (Oryza sativa), 3'ss of exon 1
-----gtacatacaattaattataaaattttgtgatacaaattaactatttgcatt-atgatggagtata-tatgtgcatgttttacggggtattacgcagCGGTTTTCGTGGATGAATATGATATCGCAACATACACAATCAAAACAATTGATGATCCTCGTACATTGAACAAGACAGTTTACATTAGGCCACCGGAAAA
      || ||  |    |||  |||   || |     ||  | || ||  |  || ||  |  | |||| ||      |    | |   ||  || |||||| |||| ||||||||| ||||| | | |||||| ||||||||| |||| ||||||||||| || |||||||||||| | ||||| || ||||  || ||
aggaaata-atttagggcattgaaaaccattcttcagtaatattacaatcagttttgattttcaactatactaaccaattaagctgcaatgttatatgcagCGTTTTTTGTGGATGAAGATGATGTGGGAACATATACAATCAAATCAATCGATGATCCTCGCACCTTGAACAAGACAATATACATAAGACCACAAGATAA

upper sequence: Vv17s0053g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g16240.1 (Oryza sativa), 3'ss of exon 1
----gtacatacaattaattataaaattttgtgatacaaattaactatttgcattatgatggagtatatatgtgcatgtt---ttacggggtattacgcagCGGTTTTCGTGGATGAATATGATATCGCAACATACACAATCAAAACAATTGATGATCCTCGTACATTGAACAAGACAGTTTACATTAGGCCACCGGAAAA
     ||  |       |||  |||   || |     ||  | || | |    |||  ||      ||||    |   ||    | |   ||  ||  ||| | |||| ||||||||| ||||| | | |||||| ||||||||| |||| ||||||||||| || |||||||||||| | ||||| || |||| ||| ||
agaactaagttagggctattgaaaaccattctttagtaatattac-actcagtttagaatttcaactatactaaccaattaagctgcaatgttatatccagTGTTTTTTGTGGATGAAGATGATGTGGGAACATATACAATCAAATCAATCGATGATCCTCGCACCTTGAACAAGACAATATACATAAGACCACAGGATAA

upper sequence: Vv17s0053g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g16410.1 (Oryza sativa), 3'ss of exon 2
----gtacatac-aattaattataaaattttgtgatacaaattaactatttgcattatgatggagtatata----tgtgcatgtttta-cggggtattacgcagCGGTTTTCGTGGATGAATATGATATCGCAACATACACAATCAAAACAATTGATGATCCTCGTACATTGAACAAGACAGTTTACATTAGGCCACCGGAAAA
      | |||  || ||| |||||     ||   |||| | |||      |||||    || | | | ||    ||  || | |  |     |   ||  ||| | |||||||||| ||| ||||| | | ||||||  |||| ||| |||| ||||||||||| || |||||||||||| | ||||| ||||| |  || ||
ccagaaatatatgaagtaaatataag----tgcactacagaataatgcagagcatttgtttgaaatttgtactactgaccaagctgcaatattgctctatacagTGTTTTTCGTGGACGAAAATGATGTGGGAACATATGCAATAAAATCAATCGATGATCCTCGCACCTTGAACAAGACAATATACATAAGGCCTCAAGATAA

upper sequence: Vv17s0053g00460.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G34470.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------------------gtacatacaattaattataaaattttgtgata------caaatt-aactatttgcattatgatggagtata-ta-tgtgcatgttttacggggt--attacgcagCGGTTTTCGTGGATGAATATGATATCGCAACATACACAATCAAAACAATTGATGATCCTCGTACATTGAACAAGACAGTTTACATTAGGCCACCGGAAAA
                                                                                     |||  |   ||    |   |||| |  | |||      |||||| ||  |  |||||    |||  || || || | || |    |||  |  |  |  | ||||  ||||   || ||||| ||||| | ||| |||||||||| || ||||| ||||||||||| |||||||||||||| || ||| | || ||||| |||||
gtactccacattttaaaaattccaatcaatcataaaacaagtgttagaaagaaagtgtcatagtgtcgttactttctttatatttgtatgtgtcatagtatgcgaaatgtattcatagtttaccaaatttaaacacatgcatgcacatgtggtctaatactttgtactaattaatgaattcacaatgcagTTGTTTATATGAATGAAGATGATGTTGCAGCATACACAATAAAGACAATCGATGATCCTCGAACATTGAACAAGACGGTATACCTAAGACCACCAGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actatttgcattatgatggagtatatatgtgcatgttttacggggtattacgcagCGGTTTTCGTGGATGAATATGATATCGCAACATACACAATCAAAACAATTGATGATCCTCGTACATTGAACAAGACAGTTTACATTAGGCCACCGGAAAA
 aattaac  putative branch site (score: 2)
                   agtatatat  TA-rich tract