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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACATAGTTCTAAAAGTTACTATGCTTGTGTTGGAGAGAGTACTCATGCTTATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAGgtatgcgtatttccttgtattattaacctctgaaatatgaaggaactctcttatttgtgctaaattactcacttgtttgttatgtttgcctctcacag

Basic information

species Vitis vinifera
transcript Vv04s0008g02780.t01
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA04G36700.2 (Glycine max), 5'ss of exon 17
CACATAGTTCTAAAAGTTACTATGCTTGTGTTGGAGAGAGTACTCATGCTTATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAGgtatgcgtatttccttgtattattaacctctgaaatatgaaggaactctcttatttgtgctaaattactcacttgtttgt-tatgtttgcctctcacag
|||| || || ||||| || ||||| |||||||| ||||| |||||||| ||||||||||| ||||||||||| || ||||| |||||||| |||||| ||||||| | | ||| ||  |||  ||| | |||| | | |   |  |   | |   |||  ||    ||   || || || | || || | | |   ||
CACACAGCTCAAAAAGCTATTATGCATGTGTTGGGGAGAGCACTCATGCATATCAGAGCCCGTCAAAAGACCTGACCGCCATCAATAACCGTTTGAATGGgtatgcttttctccatgcctta--aacatttgaa-tctcatttatattattgaaaggtgacaac---cttgtttattcgtgtttgattccatgttttag

upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA15G36890.1 (Glycine max), 5'ss of exon 17
CACATAGTTCTAAAAGTTACTATGCTTGTGTTGGAGAGAGTACTCATGCTTATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAGgtatgcgtatttccttgtattattaac-ctctgaaatatg---aaggaactctcttatttgtgctaaattactcacttgtttgttatgtttgcctctcacag
|||| || || ||||| || ||||| |||||||| || || |||||||| ||||||||||||||||||||||| || ||||| |||||||| || ||| ||||||  | |||| |  |    | |||  | ||||| ||    |   |  ||  | |   |||  |  ||| | | |||| | | || | |   | |   ||
CACACAGCTCAAAAAGCTATTATGCATGTGTTGGGGAAAGCACTCATGCATATCAGAGCCCTTCAAAAGACCTGACAGCCATCAATAACCGTTTAAATGGgtatg-atttttcttcatgccttaaacattgtgaaacatatttatttacatcattgaaaagtgacaccttatttatttgtgtctgat-tctatgttttttag

upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: AT3G12280.2 (Arabidopsis thaliana), 5'ss of exon 17
CACATAGTTCTAAAAGTTACTATGCTTGTGTTGGAGAGAGTACTCATGCTTATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAGgtatgcgta---tttccttgtattattaacctctgaaatatgaaggaactctcttatttgtgctaaattactcacttgtttgttatgtttgcctctcacag
|||| ||| | || ||||||||||||||||||||||||||||| |||||||| |||||||||||||| |||||| ||||||| || ||||| ||||| | ||| |   |    |  | | | | || | | |||   |||  ||   | || || |      | || ||   ||  || | || |     |          
CACACAGTACAAAGAGTTACTATGCTTGTGTTGGAGAGAGTACACATGCTTACCAGAGCCCTTCAAAGGACCTATCTGCCATCAACAACCGCTTGAACAAgtaagtagaaaaatcacgtctctcatcagcttcttccata--aaaccaatcactgacccaatccaattt---catctggt-gtcacagcag----------

upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: AT3G12280.1 (Arabidopsis thaliana), 5'ss of exon 17
CACATAGTTCTAAAAGTTACTATGCTTGTGTTGGAGAGAGTACTCATGCTTATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAGgtatgcgtat---ttccttgtattattaacctctgaaatatgaaggaactctcttatttgtgctaaattactcacttgtttgttatgtttgcctctcacag
|||| ||| | || ||||||||||||||||||||||||||||| |||||||| |||||||||||||| |||||| ||||||| || ||||| ||||| | ||| |   |    |  | | | | || | | |||   |||  ||   | || || |      | || ||   ||  || | || |                
CACACAGTACAAAGAGTTACTATGCTTGTGTTGGAGAGAGTACACATGCTTACCAGAGCCCTTCAAAGGACCTATCTGCCATCAACAACCGCTTGAACAAgtaagtagaaaaatcacgtctctcatcagcttcttccata--aaaccaatcactgacccaatccaattt---catctggt-gtcacag-------------

upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: EFJ23894 (Selaginella moellendorffii), 5'ss of exon 14
CACATAGTTCTAAAAGTTACTATGCTTGTGTTGGAGAGAGTACTCATGCTTATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAGgtatgcgtatttccttgtattattaacctctgaaatatgaaggaactctcttatttgtgctaaattactcacttgtttgttatgtttgcctctcacag
         | |||||||  |||||||||||||| || |||||||| || || || |||||||| ||||| || ||||| |||||    || || |||  ||        ||  ||||  |   ||  |    |  ||   ||   |   || | | |||                                      
---------CAAAAAGTTTGTATGCTTGTGTTGGCGAAAGTACTCACGCATACCAAAGCCCTTCGAAAGATCTTACTGCAATTAACTGTCGCTTAAATTCGTCAAACGGgttagttgt--tcacaaggttcacaccatct-ggtttttaattgtatttgcag------------------------------------

upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: EFJ10031 (Selaginella moellendorffii), 5'ss of exon 14
CACATAGTTCTAAAAGTTACTATGCTTGTGTTGGAGAGAGTACTCATGCTTATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAGgtatgcgtatttccttgtattattaacctctgaaatatgaaggaactctcttatttgtgctaaattactcacttgtttgttatgtttgcctctcacag
         | |||||||  |||||||||||||| || |||||||| || || || |||||||| |||||||| ||||| |||||    || || |||  ||        |   ||||  |   ||  |    |  ||   |    |   || | | |||                                      
---------CAAAAAGTTTGTATGCTTGTGTTGGCGAAAGTACTCACGCATACCAAAGCCCTTCGAAAGACCTTACTGCAATTAACTGTCGCTTAAATTCGTCAAACGGgtcagttgt--tcacaaggttcacaccatctggtttttaaattgtatttgcag------------------------------------

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|37187431|gb|CF606784.1|CF606784
EST:     TATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGTTTGAATAG                         TACCCGGAAGCTCAGAGGCGCACTCAACTTCGACGATGTCGAGGGTTTAGT
genomic: TATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAGgtatgcgtat ... cctctcacagTACCCGGAAGCTCAGAGGCGCACTCAACTTCGACGATGTCGAGGGTTTAGT
EST: gi|51050310|gb|CO818484.1|CO818484
EST:     TATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAG                         TACCCGGAAGCTCAGAGGCGCACTCAACTTCGACGATGTCGAGGGTTTAGT
genomic: TATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAGgtatgcgtat ... cctctcacagTACCCGGAAGCTCAGAGGCGCACTCAACTTCGACGATGTCGAGGGTTTAGT
EST: gi|110394125|gb|EC958654.1|EC958654
EST:     TATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAG                         TACCCGGAAGCTCAGAGGCGCACTCAACTTCGACGATGTCGAGGGTTTAGT
genomic: TATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAGgtatgcgtat ... cctctcacagTACCCGGAAGCTCAGAGGCGCACTCAACTTCGACGATGTCGAGGGTTTAGT
EST: gi|110413902|gb|EC979718.1|EC979718
EST:     TATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGTTTGAATAG                         TACCCGGAAGCTCAGAGGCGCACTCAACTTCGATGATGTCGAGGGTTTAGT
genomic: TATCAGAGCCCTTCAAAAGACCTAACTGCCATTAATAACCGATTGAATAGgtatgcgtat ... cctctcacagTACCCGGAAGCTCAGAGGCGCACTCAACTTCGACGATGTCGAGGGTTTAGT