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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTAgtaagtgagcctagattcgttctaattagttaaatggaaatgtgtaattttgttgtatttccgagggtaaagtcattattttatcctgaagttatttaatggaattatggctcatattttcagtcagtgtgtttgttattatttagtgatcatgaagaggaatgttctctattgactgatattatgctcaattcag

Basic information

species Vitis vinifera
transcript Vv13s0156g00180.t01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0156g00180.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: LOC_Os11g33240.2 (Oryza sativa), 5'ss of exon 13
TGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTAgtaagtgagcctagattcgttctaattagttaaatggaaatgtgtaattttgttgtatttccgagggtaaagtcattattttatcctgaagttatttaatggaattatggctcatattttcagtcagtgtgtttgttattatttagtgatcatgaagaggaatgttctctattgactgatattatgctcaattcag
|||||||||||| || |||||||||||||| ||||| ||||| |||| |     | | ||| || |  | |           ||||  | |||| ||||  |   |  | |||   |||| ||||| ||||        | |  |     ||   |||  |                                                                              
TGATCATGAAGGTGGAAATGTCAGTGCTCATACTGGACATCTGgtaatta----ttgtttctttgttttca-----------atgttgatttttcttgt--tagtgttgctaa---cattgttttaacctgccaccggatcactgctggctgctgcatcatcc----------------------------------------------------------------------------

upper sequence: Vv13s0156g00180.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GRMZM2G063851_T04 (Zea mays), 5'ss of exon 13
TGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTAgtaagtgagcctagattcgttctaattagttaaatggaaatgtgtaattttgttgtatttccgagggtaaagtcattattttatcctgaagttatttaatggaattatggctcatattttcagtcagtgtgtttgttattatttagtgatcatgaagaggaatgttctctattgactgatattatgctcaattcag
|||||||||||||||||||||||||||||| ||||||||||| |||| |     |    | ||| ||||   ||| ||     ||| || | ||  |  |    | | | ||| | ||   | |   | |||     | |  || |                                                                                             
TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaa-tatttgttctcttgttgtaatct-ttatattttt-tgt-tagtgtttcttaacgatccaagataatgacagc-tgtcggcgtgataccctattttgtacc-------------------------------------------------------------------------------------------

upper sequence: Vv13s0156g00180.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GRMZM2G064023_T01 (Zea mays), 5'ss of exon 14
TGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTAgtaagtgagcctagattcgttctaattagttaaatggaaatgtgtaattttgttgtatttccgagggtaaagtcattattttatcctgaagttatttaatggaattatggctcatattttcagtcagtgtgtttgttattatttagtgatcatgaagaggaatgttctctattgactgatattatgctcaattcag
|||||||||||||||||||||||||||||| ||||||||||| ||||       ||  ||  ||||  || ||    | |   | |  |   ||  ||| | |    | |  ||| || |      |    | || ||         ||||   | ||||                                                                               
TGATCATGAAGGCGGGAATGTCAGTGCTCATACTGGTCATCTGgtaa-------tattttatttcttgtt-gtggtcttggttttttca---ttagtgtttcttaacgcgccaagacaatgacagttgtcaatgtgatacc------ttatctttaatat-------------------------------------------------------------------------------

upper sequence: Vv13s0156g00180.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GRMZM2G063909_T03 (Zea mays), 5'ss of exon 12
TGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTAgtaagtgagcctagattcgttctaattagttaaatggaaatgtgtaattttgttgtatttccgagggtaaagtcattattttatcctgaagttatttaatggaattatggctcatattttcagtcagtgtgtttgttattatttagtgatcatgaagaggaatgttctctattgactgatattatgctcaattcag
||||||||||||||||||| ||||| |||| ||||||||||| ||||          ||| ||| |   | |||            || || ||| | | |||            |||||| | | || | | |  |   ||   ||  |  |||          |||| |||| |  ||  | |||| |                                                 
TGATCATGAAGGCGGGAATATCAGTTCTCATACTGGTCATCTGgtaat---------atttgtttt--cttgtt------------gttatcttgattttttt------------tcattagtgtttcttaacgcgac--aagacaacgacagct----------gtcaatgtgatactttatctttaat-------------------------------------------------

upper sequence: Vv13s0156g00180.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: AT2G44350.2 (Arabidopsis thaliana), 5'ss of exon 13
TGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTAgtaagtgagcctagattcgttctaattagttaaatggaaatgtgtaattttgttgta-tttccgagggtaaagtcattattttatcctgaagttatttaatggaattatggctcatattttcagtcagtgtgtttgttattatttagtgatcatgaagaggaatgttctctattgactgatattatgctcaattcag
|||||||||||| || ||||| ||||||||||||||||| || ||| ||     || | ||      ||  || || |  ||| |  | |  |   || | ||||  | |||    |   ||     || ||   | || ||                                                                                                  
TGATCATGAAGGTGGAAATGTTAGTGCTCACACTGGTCACCTGgtatgta----tatactctcc---atgtgtcaattttaaaggattgacctacctgaagtttctaatggttcttttgctaaaaattcttgt--tcatgtag-------------------------------------------------------------------------------------------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|110361418|gb|EC924886.1|EC924886
EST:     AATGTCAGTGCTCACACTGGTCATCTA                         GTTGCTAGTGCATTGGCAGATCCTTACCTTTCATTTGCAGCTGCATTAAAT
genomic: AATGTCAGTGCTCACACTGGTCATCTAgtaagtgagc ... ctcaattcagGTTGCTAGTGCATTGGCAGATCCTTACCTTTCATTTGCAGCTGCATTAAAT
EST: gi|29785895|gb|CB343236.2|CB343236
EST:     TGATCATGAAGGCGGGAATGTCAGTCGCTCACACTGGTCATCTA                         GTTGCTAGTGCATTGGCAGATCCTTACCTTTCTTTTGCAGCTGCATTAAAT
genomic: TGATCATGAAGGCGGGAATGTCAGT-GCTCACACTGGTCATCTAgtaagtgagc ... ctcaattcagGTTGCTAGTGCATTGGCAGATCCTTACCTTTCATTTGCAGCTGCATTAAAT
EST: gi|110372355|gb|EC936513.1|EC936513
EST:     TGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTA                         GTTGCTAGTGCATTGGCAGATCCTTACCTTTCATTTGCAGCTGCATTAAAT
genomic: TGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTAgtaagtgagc ... ctcaattcagGTTGCTAGTGCATTGGCAGATCCTTACCTTTCATTTGCAGCTGCATTAAAT
EST: gi|110362967|gb|EC926531.1|EC926531
EST:     TCCATAGTGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTA                         GTTGCTAGTGCATTGGCAGATCCTTACCTTTCATTTGCAGCTGCATTAAAT
genomic: TCCATAGTGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTAgtaagtgagc ... ctcaattcagGTTGCTAGTGCATTGGCAGATCCTTACCTTTCATTTGCAGCTGCATTAAAT
EST: gi|77577886|gb|DV217693.1|DV217693
EST:     TGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTA                         GTTGCTAGTGCATTGGCAGATCCTTACCTTTCATTTGCAGCTGCATTAAAT
genomic: TGATCATGAAGGCGGGAATGTCAGTGCTCACACTGGTCATCTAgtaagtgagc ... ctcaattcagGTTGCTAGTGCATTGGCAGATCCTTACCTTTCATTTGCAGCTGCATTAAAT