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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaagttatatttctttggatgtcacctgcttttgacataagattactaaaaaacattgtgcatgagaaggaaaaataagaagttggtggcaatggaatctgagtaacaaattttatttttttgcagGAAAGGGATAACATGCAGAAGTCTGAGTTTCTAAAAGCATTATCGGATATGTGGAAAGATTTTGACTCTCGTGTTTTGCGTTATAAG

Basic information

species Vitis vinifera
transcript Vv18s0089g00030.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g42950.2 (Oryza sativa), 3'ss of exon 6
gtatgaagttatatttctttggatgtcacctgcttttgacataagattactaaaaaacattgtgcatgagaaggaaaaataagaagttggtggcaatggaatctgagtaacaaattttatttttttgcagGAAAGGGATAACATGCAGAAGTCTGAGTTTCTAAAAGCATTATCGGATATGTGGAAAGATTTTGACTCTCGTGTTTTGCGTTATAAG
                ||  |    | | ||||||  |||    | ||    ||| | |      |  |    |  |  ||  ||  ||||     |  |||||   |  | ||| |  | ||    ||||| || || || ||||||||| | |||||||| || |||||||||||||||||||| || || || || || ||| | || ||||| 
---------------actaggagctttatctgctt--gactgttgtttgtctaaacagacaacatactaatttgttacctagaaa--tggt-----tataatcttgat--ccaatatcgtctt----cagGAGAGAGACAATATGCAGAAGACGGAGTTTCTGAAGGCATTATCGGATATGTGGAAGGACTTCGATTCCCGAGTTCTTCGGTATAAA

upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G061681_T02 (Zea mays), 3'ss of exon 6
gtatgaagttatatttctttggatgtcacctgcttttgacataagattactaaaaaacattgtgcatgagaaggaaaaataagaagttggtggc--aatggaatctgagtaacaaattttatttttttgcagGAAAGGGATAACATGCAGAAGTCTGAGTTTCTAAAAGCATTATCGGATATGTGGAAAGATTTTGACTCTCGTGTTTTGCGTTATAAG
                             |  |     |   |||| |  |         |   |  ||||| ||||    | || |||||  |  ||  |   |||| |   ||  |    ||  || ||||| || ||||| ||||||||| | |||||| | || |||||||| ||||||||||| |||||||| || || ||| | || ||||| 
-----------------------------caacacagcaggaaagagtcttgcc---tgcttgactagagaatgaaatggcacaatttggtacctaaaatggtcctgatttttaagataacattcctttcagGAGAGAGATAATATGCAGAAGACAGAGTTTTTGAAGGCATTATCAGATATGTGGAAGGATTTTGATTCCCGAGTTCTTCGATATAAA

upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G00470.1 (Glycine max), 3'ss of exon 6
gtatgaagttatatttctttggatgtcacctgcttttgacataagattactaaaaaacattgtgcatgagaaggaaaaataagaagttggtggcaatggaatctgagtaacaaattttatttttttgcagGAAAGGGATAACATGCAGAAGTCTGAGTTTCTAAAAGCATTATCGGATATGTGGAAAGATTTTGACTCTCGTGTTTTGCGTTATAAG
                        || |  |  ||||    ||   ||     |  |||   || || | | | |||  | ||| ||||  |         |||   | |    |  |  |||  | |||||||| ||||||||||||||||| |||||  |||||||||| || |||||||||||||||||||| || ||||| ||||| || |||
------------------------gtaagatttttttagtttagccttttagcattacaaaatgtataacatgcaaattttaga-gttgaagt--------tcttgatgatgtgtcctcctttccttcagGAAAGAGATAACATGCAGAAGTCAGAGTTCTTAAAAGCATTGTCAGATATGTGGAAAGATTTTGATTCACGTGTATTGCGATACAAG

upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G37070.1 (Glycine max), 3'ss of exon 6
gtatgaagttatatttctttggatgtcacctgcttttgacataagattactaaaaaacattgtgcatgagaaggaaaaataagaagttggtggcaatggaat-ctgagtaacaaattttatttttttgcagGAAAGGGATAACATGCAGAAGTCTGAGTTTCTAAAAGCATTATCGGATATGTGGAAAGATTTTGACTCTCGTGTTTTGCGTTATAAG
                        || |  |  || |    ||   ||       | ||||    | || | |  || ||   || ||  | |   || | | ||   | |    | ||  |||  | |||||||| ||||||||||||||||| |||||  |||||||||| || |||||||||||||||||||| || || || ||||| ||||||
------------------------gtaagatttttctagtttagcctttt-----agcatt----acgaaatgttaacatgcaaattt--tagagttgaagttcttgatgatgtgtcttcctttccttcagGAAAGAGATAACATGCAGAAGTCAGAGTTCTTAAAAGCATTGTCAGATATGTGGAAAGATTTTGATTCGCGCGTATTGCGATATAAG

upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G22870.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatgaagttatatttctttggatgtcacctgcttttgacataagattactaaaaaacattgtgcatgagaaggaaaaataagaagttggtggca-atggaatctgagtaacaaattttatttttttgcagGAAAGGGATAACATGCAGAAGTCTGAGTTTCTAAAAGCATTATCGGATATGTGGAAAGATTTTGACTCTCGTGTTTTGCGTTATAAG
                                 | |  | || | |||  |||  | | ||    |     | |  |  |    ||||||   || ||  || ||  |   ||  ||||  ||| |||||||| || || ||||||||||||||||||||  ||||||||||||| |||||||||||||| ||||| |||||||| || || ||||||
--------------------------------gtatgtatattaaatt-ttaatcatcgtttcagacag--acgtgattttgatagttggaaacatataaaacctttggggcatttttttatttattgcagGAGAGAGACAACATGCAGAAGTCTGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGACTTTGATTCTCGTGTATTACGGTATAAG

upper sequence: Vv18s0089g00030.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G71410.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatgaagttatatttctttggatgtcacctgcttttgacataagattactaaaaaacattgtgcatgagaaggaaaaataagaagttggtggcaatggaatctgagtaacaaattttatttttttgcagGAAAGGGATAACATGCAGAAGTCTGAGTTTCTAAAAGCATTATCGGATATGTGGAAAGATTTTGACTCTCGTGTTTTGCGTTATAAG
||| |    |||  |||     ||      || ||  |||| |   ||  || ||  | | |   |||  ||    |  |    | ||| |  |       | |  | ||||| |||| | ||| | |||||||| ||||||||||| ||||| |||||  ||||||||||||| |||||||||||||||||||| || ||||| || || ||||||
gtacgtgtatatgcttccaataat------tgtttcagacagactgttcttagaagtcttagatgatggaaaatgtatctccacatttgataacc------ttttcggaacaa-ttttctctttatccagGAAAGAGATAACATGCAAAAGTCCGAGTTCTTAAAAGCATTATCAGATATGTGGAAAGATTTTGATTCCCGTGTATTACGGTATAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaataagaagttggtggcaatggaatctgagtaacaaattttatttttttgcagGAAAGGGATAACATGCAGAAGTCTGAGTTTCTAAAAGCATTATCGGATATGTGGAAAGATTTTGACTCTCGTGTTTTGCGTTATAAG
                             gagtaac  putative branch site (score: 2)
                                       ttttatttttttgc  putative PPT
                        aatctgagtaacaaat  TA-rich tract