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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtataatggtttctcactatctgattgatgaactttatttcacagacctttgattgtttcttggattaaatgattcatctcttatgcagCATTATACTGAATTGCCCGATATCAAACGTGTCATTGTGAACACACATGCCATTGAGCCACAG

Basic information

species Vitis vinifera
transcript Vv06s0004g06860.t01
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 17
gtataatggtttctcactatctgattgatgaactttatttcacagacctttgattgtttcttggattaaatgattcatctcttatgcagCATTATACTGAATTGCCCGATATCAAACGTGTCATTGTGAACACACATGCCATTGAGCCACAG
        ||  ||   | |    ||| |  ||||| |||       |||||  ||| | ||  |||||   |||    | | ||||||||||| || ||||| || |||||||| |||||||| ||||| || ||||||||||||||||||
----gtcagtacctttttgttgttttggtttactttttttttt----ctttgcctgtctgtttaattaac--attatattgtgatgcagCATTACACAGAATTACCAGATATCAAGCGTGTCATGGTGAATACCCATGCCATTGAGCCACAG

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 17
gtataatggtttctcactatctgattgatgaactttatttcacagacctttgattgtttcttggattaaatgattcatctcttatgcagCATTATACTGAATTGCCCGATATCAAACGTGTCATTGTGAACACACATGCCATTGAGCCACAG
        ||  ||   | |    ||| |  ||||| |||       |||||  ||| | ||  |||||   |||    | | ||||||||||| || ||||| || |||||||| |||||||| ||||| || ||||||||||||||||||
----gtcagtacctttttgttgttttggtttactttttttt-----tctttgcctgtctgtttaattaac--attatattgtgatgcagCATTACACAGAATTACCAGATATCAAGCGTGTCATGGTGAATACCCATGCCATTGAGCCACAG

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 15
gtataatggtttctcactatctgattgatgaactttatttcacagacctttgattgtt-tcttggattaaatgattcatctcttatgcagCATTATACTGAATTGCCCGATATCAAACGTGTCATTGTGAACACACATGCCATTGAGCCACAG
        ||   | ||  |   |||| |     | || ||      |||| ||   | | ||  |  ||     |  | ||| |||||||||||| | || ||||| |||||||| ||||||||||| || || |||||||||||||| |||
--------gtcggtaacctttgcattgttttggctgatctcttc--tctttaatctctgtgttaaaccaatatcgtattttctgatgcagCATTATTCAGAGTTGCCTGATATCAAGCGTGTCATTGTAAATACTCATGCCATTGAGCCCCAG

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 17
gtataatggtttctcactatctgattgatgaactttatttcacagacctttgattgtttcttggattaaatgattcatctcttatgcagCATTATACTGAATTGCCCGATATCAAACGTGTCATTGTGAACACACATGCCATTGAGCCACAG
|| |  | | |||| |   ||||||   || |   | ||         || || | ||||||| |     |  |   | | || |||||||||||||||| ||||| || |||||||||||||||||||| |||||||||||||||||||||
gt-tctttgcttcttaagttctgatgactgtataatgttctct---ttttagaatatttcttgaacc---ttgtctgtgtattgtgcagCATTATACTGAGTTGCCTGACATCAAACGTGTCATTGTGAATACACATGCCATTGAGCCACAG

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 17
gtataatggtttctcactatctgattgatgaactttatttcacagacctttgattgtttcttggattaaatg-attcatctcttatgcagCATTATACTGAATTGCCCGATATCAAACGTGTCATTGTGAACACACATGCCATTGAGCCACAG
        |||  |  ||   | | |  |||      | | |    |  ||| | |  | ||   | ||  |  |   | | || |||||||||||||||| ||||| || |||||||||||||||||||| |||||||||||||||||||||
--------gttctttgcttcttaagttctgatgacagtataatgatctcttgttagaatatttcttgaaccgtgtctgtatattgtgcagCATTATACTGAGTTGCCTGACATCAAACGTGTCATTGTGAATACACATGCCATTGAGCCACAG

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 17
gtataatggtttctcactatctgattgatgaactttatttcacagacctttgattgtttcttggattaaatgattcatctcttatgcagCATTATACTGAATTGCCCGATATCAAACGTGTCATTGTGAACACACATGCCATTGAGCCACAG
      |  |||     |||     |||   ||| || ||    | |     ||  ||||||| |     |  |   |  ||||||||||||||| | |||||||| || |||||||||||||||||||| ||||||||||| || ||||||
-----gttctttgcttttattcttatgactgactgtaatttcttgtcag--aataatttcttgaaccttcttgtgtgttgcttatgcagCATTATTCCGAATTGCCTGACATCAAACGTGTCATTGTGAATACACATGCCATCGAACCACAG

upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 15
gtataatggtttctcactat-ctgattgatgaactttatttcacagacctttgattgtttcttggattaaatgattcatctcttatgcagCATTATACTGAATTGCCCGATATCAAACGTGTCATTGTGAACACACATGCCATTGAGCCACAG
      |  |||    |||| || ||   |||   |||||||           ||  ||||||| |     |  |   |  ||| ||||||||||| | || ||||| || |||||||||||||||||||| ||||||||||| || || |||
-----gttctttgcttctattcttatgactgactgttatttcttg---tcagaataatttcttgaaccttcttgtgtgttgcttgtgcagCATTATTCCGAGTTGCCTGACATCAAACGTGTCATTGTGAATACACATGCCATCGAACCGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttcacagacctttgattgtttcttggattaaatgattcatctcttatgcagCATTATACTGAATTGCCCGATATCAAACGTGTCATTGTGAACACACATGCCATTGAGCCACAG
             ctttgat  putative branch site (score: 5)
                                       ttcatctctt  putative PPT
                              attaaatgattcat  TA-rich tract