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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttacaattaattataaaattttgtgatacaacttaattatttgcaatacgattgtgtgtatatgaaccggttttacggggtattatacagCGGTTTTCGTGGATGAAGATGATGTTGCAACATACGCAATCAAAACAATAGATGATCCTCGTACATTGAACAAGACAGTTTACATCAGACCACCAGAGAA

Basic information

species Vitis vinifera
transcript Vv02s0033g00270.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0033g00270.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g16220.3 (Oryza sativa), 3'ss of exon 1
-----gtacttacaattaattataaa-attttgtgatacaact-taattatttgcaatacgattgtgtgtatatgaaccggtt---ttacggggtattatacagCGGTTTTCGTGGATGAAGATGATGTTGCAACATACGCAATCAAAACAATAGATGATCCTCGTACATTGAACAAGACAGTTTACATCAGACCACCAGAGAA
      || ||      | | | ||  ||| |    ||  | |  ||| | ||   ||    ||     ||||  ||||  ||    | |   ||  ||| ||||| |||| ||||||||||||||||| | ||||||  |||||||| |||| ||||||||||| || |||||||||||| | ||||| ||||||| ||| ||
aggaaataatttagggcattgaaaaccattcttcagtaatattacaatcagttttgat----tttcaactatactaaccaattaagctgcaatgttatatgcagCGTTTTTTGTGGATGAAGATGATGTGGGAACATATACAATCAAATCAATCGATGATCCTCGCACCTTGAACAAGACAATATACATAAGACCACAAGATAA

upper sequence: Vv02s0033g00270.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g16240.1 (Oryza sativa), 3'ss of exon 1
-gtacttacaattaattataaaattttgtgatacaacttaattatttgcaa--tacgattgtgtgtatatgaaccggtt---ttacggggtattatacagCGGTTTTCGTGGATGAAGATGATGTTGCAACATACGCAATCAAAACAATAGATGATCCTCGTACATTGAACAAGACAGTTTACATCAGACCACCAGAGAA
 | ||| |        |||  ||     |  |  |     ||||    ||   ||  |||     ||||  ||||  ||    | |   ||  ||| ||| | |||| ||||||||||||||||| | ||||||  |||||||| |||| ||||||||||| || |||||||||||| | ||||| |||||||  || ||
agaactaagttagggctattgaaaaccattctttagtaatattacactcagtttagaatttcaactatactaaccaattaagctgcaatgttatatccagTGTTTTTTGTGGATGAAGATGATGTGGGAACATATACAATCAAATCAATCGATGATCCTCGCACCTTGAACAAGACAATATACATAAGACCACAGGATAA

upper sequence: Vv02s0033g00270.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g16410.1 (Oryza sativa), 3'ss of exon 2
------gtacttacaattaattataaaattttgtgatacaactta-attatttgcaatacgattgtgtgtatatgaaccggtttta-cggggtattatacagCGGTTTTCGTGGATGAAGATGATGTTGCAACATACGCAATCAAAACAATAGATGATCCTCGTACATTGAACAAGACAGTTTACATCAGACCACCAGAGAA
       ||  |  | | |||   |      |     | ||   | |  |||||   |   | | |||     ||| |  | |  |     |   ||||||| | |||||||||| ||| ||||||| | |||||| ||||| ||| |||| ||||||||||| || |||||||||||| | ||||| || || | ||| ||
ccagaaatatatgaagtaaatataagtgcactacagaataatgcagagcatttgt--ttgaaatttgtactactgaccaagctgcaatattgctctatacagTGTTTTTCGTGGACGAAAATGATGTGGGAACATATGCAATAAAATCAATCGATGATCCTCGCACCTTGAACAAGACAATATACATAAGGCCTCAAGATAA

upper sequence: Vv02s0033g00270.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G326116_T01 (Zea mays), 3'ss of exon 3
-----gta-cttaca-attaattataaaattttgtgatacaacttaattatttgcaatacgattgtgtgtatatgaaccggttttacggggtattatacagCGGTTTTCGTGGATGAAGATGATGTTGCAACATACGCAATCAAAACAATAGATGATCCTCGTACATTGAACAAGACAGTTTACATCAGACCACCAGAGAA
     ||| | || | ||   |  ||||| || ||  | || |   ||||       ||| |     || ||   |    |  | | |    |  || ||||  | |||   |||||||| ||||||||||| ||  |||||||  |  | |||||||||||  |||||||||||||| | ||||| ||||||||||| ||
tctttgtatcatagatatccttagtaaaacttggttgttcatcaacattagcatttttactaggagatgaattaaatataggctcatgac-caccatgcagCTATATTCTGTGATGAAGACGATGTTGCAACGTATACAATCAAGTCTGTTGATGATCCTCGCGCATTGAACAAGACACTATACATAAGACCACCAGAAAA

upper sequence: Vv02s0033g00270.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G34470.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------------------gtacttacaattaattataaaattttgtgatacaacttaattatttgcaatacgattgtgtgtatatgaaccggttttacggggtatt-------------atacagCGGTTTTCGTGGATGAAGATGATGTTGCAACATACGCAATCAAAACAATAGATGATCCTCGTACATTGAACAAGACAGTTTACATCAGACCACCAGAGAA
                                                                                     |||  |   ||    |   |||| |  | |||    |||   | ||  || ||     ||   || ||  |   |  |  |   || |             || |||  ||||   || ||||||||||||||||| ||||| |||| || ||||| ||||||||||| |||||||||||||| || ||| | ||||||||||| ||
gtactccacattttaaaaattccaatcaatcataaaacaagtgttagaaagaaagtgtcatagtgtcgttactttctttatatttgtatgtgtcatagtatgcgaaatgtattcata--gtttaccaaatttaaacacatgcatgcacatgtggtctaatactttgtactaattaatgaattcacaatgcagTTGTTTATATGAATGAAGATGATGTTGCAGCATACACAATAAAGACAATCGATGATCCTCGAACATTGAACAAGACGGTATACCTAAGACCACCAGAAAA

upper sequence: Vv02s0033g00270.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G17680.1 (Glycine max), 3'ss of exon 2
-------------gtacttacaattaattataaaattttgtgatacaacttaattatttgcaatacgattgtgtgtatatgaaccggttttacggggtattatacagCGGTTTTCGTGGATGAAGATGATGTTGCAACATACGCAATCAAAACAATAGATGATCCTCGTACATTGAACAAGACAGTTTACATCAGACCACCAGAGAA
              |||  | | ||||| | || | ||    ||   | || ||||| | ||| | ||| ||  ||   |    |  || |  |  | |||   ||||  ||||  |||||||||||||||||||||||||  |||||||  ||||||||||||| || ||  | ||||| ||| | ||| | || || ||||| ||
aaaaccttggccaataccaa-acttaatcaaaatagttat--attttattttattatgt-caacaagatggttagtcattatggcatttctgtgatg-attg--cagCTATTTTTCTGGATGAAGATGATGTTGCAACATATACAATCAAGGCAATAGATGATCCACGAACCCTTAACAAAACATTGTACCTAAGGCCTCCAGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attatttgcaatacgattgtgtgtatatgaaccggttttacggggtattatacagCGGTTTTCGTGGATGAAGATGATGTTGCAACATACGCAATCAAAACAATAGATGATCCTCGTACATTGAACAAGACAGTTTACATCAGACCACCAGAGAA
 acttaat  putative branch site (score: 4)
                                             tattataca  TA-rich tract