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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgttatttactccttttgtgtgtgtagctgcacttttgcatttgaggtttgatgaaaaagtaagaaacatgtgttagttacctaacttccttcaatggctgtgggtggtaacag

Basic information

species Vitis vinifera
transcript Vv14s0006g02010.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0006g02010.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA08G18560.1 (Glycine max), 5'ss of exon 4
GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgttatttactccttttgtgtgtgtagctgcacttttgcatttgaggtttgatgaaaaagtaagaaacatgtgttagttacctaacttccttcaatggctgtgggtggtaacag
|||||||||||||||||||| |||||||| ||||||||||| |||||||||              ||| ||     | | |  |||   || | | |  | || || | ||| |     |||    || ||   ||  | |    ||                    
GACCATGAACGTGCTTACTTCGATTCTGCGGATTGGGCACTTGGAAAGgta--------------cttctg-----gaaaccacacccctgtaatagttgctt-ataataaattttctgacactcttttgtgctctcccatgaaacag-------------------

upper sequence: Vv14s0006g02010.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA15G40390.1 (Glycine max), 5'ss of exon 4
GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgttatttactccttttgtgtgtgtagctgcacttttgcatttgaggtttgatgaaaaagtaagaaacatgtgttagttacctaacttccttcaatggctgtgggtggtaacag
|||||||| |||||||||||||||||||| ||||||||||| |||||||||              ||| ||     | | |  ||| | || | | |  | || ||    || |     |||| | |  ||   || ||||    ||                    
GACCATGAGCGTGCTTACTTTGATTCTGCGGATTGGGCACTTGGAAAGgta--------------cttctg-----gaaaccacacctctgtaatggttgctt-atattgaattttctgacatttttctgtgctctcacttgtaacag-------------------
















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|110391364|gb|EC956333.1|EC956333
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|34416304|gb|CF415058.1|CF415058
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110374310|gb|EC939449.1|EC939449
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110419753|gb|EC986002.1|EC986002
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110727608|gb|EE104559.1|EE104559
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAGCTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|34415263|gb|CF414017.1|CF414017
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110730829|gb|EE108353.1|EE108353
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAGCTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110382977|gb|EC947311.1|EC947311
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110716041|gb|EE090674.1|EE090674
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110377450|gb|EC942515.1|EC942515
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110420660|gb|EC986936.1|EC986936
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110691516|gb|EE069706.1|EE069706
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110687340|gb|EE064675.1|EE064675
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110687110|gb|EE064235.1|EE064235
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110379202|gb|EC944382.1|EC944382
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110416784|gb|EC982789.1|EC982789
EST:     TTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: TTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110426370|gb|EC992776.1|EC992776
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
EST: gi|110378112|gb|EC943228.1|EC943228
EST:     GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAG                         CAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG
genomic: GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgtta ... gtggtaacagCAAGGTGTAGAGAAGCCCAAAGGACCACTTGAGGCCCTTCGACCTAAACTG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACCATGAACGTGCTTACTTTGATTCTGCTGATTGGGCACTGGGAAAGgtatttgttatttactccttttgtgtgtgtagctgcacttttgcatttgaggtttgatgaaaaagtaagaaacatgtgttagttacctaacttccttcaatggctgtgggtggtaacag

- - - - - - - - - - - - -  GCTGAT