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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcttattctcatagaaatgaactttctctttatcaggctcacttatcaggttttgtgaagtagttatagaatatcttgaagtaacccttgaactccaccttgcttggttcagATTGTGAAGCAGCTTTGGGCATACATTAGGAAAAACAACCTCCAAGATCCTAGTAACAAGCGAAAGATAATTTGTGATGATGCCCTCCGCTTGGTGTTTG

Basic information

species Vitis vinifera
transcript Vv00s0187g00190.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0187g00190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G124502_T01 (Zea mays), 3'ss of exon 2
gttcttattctcatagaaat-gaactttctctttatcaggctcacttatcaggttttgtg-aagtagttatagaatatcttgaagtaacccttgaactccaccttgcttggttcagATTGTGAAGCAGCTTTGGGCATACATTAGGAAAAACAACCTCCAAGATCCTAGTAACAAGCGAAAGATAATTTGTGATGATGCCCTCCGCTTGGTGTTTG
|| || | | |||| |  || ||| |||            |||   |   |   ||||    | |   | || |   ||| |||        | ||    |     |||  ||||||||||||||||||| |||||||| || ||| | ||||| || |||||||||  | ||||  | ||||| |||||  |||| |  || ||  |||| ||||
gtactaaatttcattgtgatagaaatttacacactctgtactcttctggtactctttgaatgattgactctatagagtctagaaaa------taaatattagt---ctttattcagATTGTGAAGCAGCTCTGGGCATATATCAGGCAGAACAATCTTCAAGATCCTGATGACAAAAGGAAGATTATTTGCAATGACGAACTTCGTGTGGTTTTTG

upper sequence: Vv00s0187g00190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G035325_T01 (Zea mays), 3'ss of exon 2
gttcttattctcatagaaatgaactttctctttatcaggctcacttatcaggttttgtgaagtagttatagaatatcttgaagtaacccttg-aactccaccttg--cttggttcagATTGTGAAGCAGCTTTGGGCATACATTAGGAAAAACAACCTCCAAGATCCTAGTAACAAGCGAAAGATAATTTGTGATGATGCCCTCCGCTTGGTGTTTG
             ||  | | || ||||| |  |  ||    | ||  ||   | | |    || |  ||   | |     | | || || | || |  |  ||   |||  ||||||||||||||||||| |||||||| || ||| | ||||| || |||||||||  | ||||  | ||||| |||||  |||| |  || ||  |||| ||||
------------gtactactcaa-tttctttacaataga---aattgacacactctatactctactggtactctttgaatgattgactctaggaaattaatgttagtcttcattcagATTGTGAAGCAGCTATGGGCATATATCAGGCAGAACAATCTTCAAGATCCTGATGACAAAAGGAAGATCATTTGCAATGACGAACTTCGTGTGGTTTTTG

upper sequence: Vv00s0187g00190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G332809_T01 (Zea mays), 3'ss of exon 8
gttcttattctcatagaaatgaactttctctttatcaggctcacttatcaggttttgtgaagtagttatagaatatcttgaagtaacccttgaactccaccttgcttggttcagATTGTGAAGCAGCTTTGGGCATACATTAGGAAAAACAACCTCCAAGATCCTAGTAACAAGCGAAAGATAATTTGTGATGATGCCCTCCGCTTGGTGTTTG
                            ||||| |    |    || | | |  ||||  |   |||     | ||| ||     |  | ||| | | | |    |   | |||||||| ||||||||||||||||||||| | |  |||||  | || |||||||  || ||| ||||||| || ||  ||||||  ||||| || || ||||
----------------------gtccagtctttctagcacatctttctaatgccttgtctatatgttt----acatcatggcaggaaacctga-cactatc--aatcaatgcagATTGTTAAGCAGCTTTGGGCATACATTCGCAGGAACAATTTGCAGGATCCTAACAATAAGAGAAAGATTATATGCAATGATGAGCTCCGATTAGTTTTTG

upper sequence: Vv00s0187g00190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G01230.1 (Glycine max), 3'ss of exon 2
------gttcttattctcatagaaatgaactttctctttatc----aggctcacttatcaggttttgtgaagtagttatagaata----tcttgaagtaa---cccttga---actccaccttgcttggttcagATTGTGAAGCAGCTTTGGGCATACATTAGGAAAAACAACCTCCAAGATCCTAGTAACAAGCGAAAGATAATTTGTGATGATGCCCTCCGCTTGGTGTTTG
       |  ||   || |   |  |  |   |||||| ||     ||    |   || |  |||| |  |   |  ||| |  |    |   |||  ||   |  |||    |||  |   ||||   |||||||||||| |||||| ||||||||||| | |||||||||||||||||||||| |||||||  ||||||||||||||||||||||||| || ||||| ||||
gtagttttcttttccctaactaacttagatactctcttaatttcatagtaaaaaacatgaatttttatttatctgaaataaaccactgattaagaaacaaattcttttggaacactataatatgctcaattcagATTGTGAGGCAGCTGTGGGCATACATAAAGAAAAACAACCTCCAAGATCCTGGTAACAAAAGAAAGATAATTTGTGATGATGCCCTGCGTTTGGTATTTG

upper sequence: Vv00s0187g00190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G39530.1 (Glycine max), 3'ss of exon 2
--gttcttattctc----atagaaatgaactttctctttatc---------aggctcacttatcaggttttgtgaagt-agttatagaatatcttgaagtaacccttga---actccaccttgcttggttcagATTGTGAAGCAGCTTTGGGCATACATTAGGAAAAACAACCTCCAAGATCCTAGTAACAAGCGAAAGATAATTTGTGATGATGCCCTCCGCTTGGTGTTTG
    | ||||| ||    |   |  |  |   |||||| ||          | ||     | |    |||| |||| | |   |  || ||      |    |  |||    |||      ||||   |||||||||||| |||||| ||||||||||| | |||||||||||||||||||||| |||||||  |||||||||||||||||||||| || || ||||| ||||
gtagttttattttccctaactaacttagatcctctcttaatttcattgtaaaagcatgaattttcatttttctgaaatgaaccactgattaagaaacaaattcttttggaacacttttatatgctcaattcagATTGTGAGGCAGCTGTGGGCATACATAAAGAAAAACAACCTCCAAGATCCTGGTAACAAAAGAAAGATAATTTGTGATGATGCACTGCGTTTGGTATTTG

upper sequence: Vv00s0187g00190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G22360.1 (Arabidopsis thaliana), 3'ss of exon 2
gttcttattctcatagaaatgaactttctctttatcaggctcacttatcaggttttgtgaagtagttatagaatatcttgaagtaacccttgaactccaccttgcttggttcagATTGTGAAGCAGCTTTGGGCATACATTAGGAAAAACAACCTCCAAGATCCTAGTAACAAGCGAAAGATAATTTGTGATGATGCCCTCCGCTTGGTGTTTG
                   | | | || |||||  ||       |||| | || |    ||| | || | |    | || | ||    || |   |   | ||  | | || ||||||||| |||  | ||||| || || ||||| || ||||| ||||| || ||||||||||| ||||| || |||||||||||  | ||  |||| ||||
------------------gttatcattgtcttt--catttatgattataatgtgtat--aagcaattgtggttgttatttatgtgttgct-gtgtttggcttt--tggttttagATTGTGAGGCAATTGTGGGCTTATATAAGGAAGAATAACCTTCAAGACCCGAGTAACAAGCGGAAGATCATCTGTGATGATGCGTTGCGTGTGGTTTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtagttatagaatatcttgaagtaacccttgaactccaccttgcttggttcagATTGTGAAGCAGCTTTGGGCATACATTAGGAAAAACAACCTCCAAGATCCTAGTAACAAGCGAAAGATAATTTGTGATGATGCCCTCCGCTTGGTGTTTG
                     aagtaac  putative branch site (score: 2)
                                        ccttgctt  putative PPT
      ttatagaatatctt  TA-rich tract