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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaaatctatgtagcagaaagaatttgggaatttgcatatgacagtgtaaatgatgtcaagagaaactgcatggttataatatatctgttttttttacagAGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCCAAG

Basic information

species Vitis vinifera
transcript Vv09s0018g01940.t01
intron # 5
splice site 3'
intron type U2

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|110419226|gb|EC985437.1|EC985437
EST:     TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAG                         AGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
genomic: TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAGgtattttatc ... ttttttacagAGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
EST: gi|110697825|gb|EE075244.1|EE075244
EST:     TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAG                         AGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
genomic: TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAGgtattttatc ... ttttttacagAGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
EST: gi|110361744|gb|EC925240.1|EC925240
EST:     TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAG                         AGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
genomic: TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAGgtattttatc ... ttttttacagAGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
EST: gi|29783684|gb|CB350018.2|CB350018
EST:     TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAG                         AGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
genomic: TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAGgtattttatc ... ttttttacagAGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
EST: gi|110424729|gb|EC991099.1|EC991099
EST:     TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAG                         AGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
genomic: TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAGgtattttatc ... ttttttacagAGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
EST: gi|71888581|gb|DT037636.1|DT037636
EST:     TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAG                         AGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
genomic: TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAGgtattttatc ... ttttttacagAGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
EST: gi|161719074|gb|FC065701.1|FC065701
EST:     TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAG                         AGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC
genomic: TAAGAAAGCTGATCTTATCTCATGAGCTGTCTACTGAAGCGGAACTAAAGgtattttatc ... ttttttacagAGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtaaatgatgtcaagagaaactgcatggttataatatatctgttttttttacagAGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCCAAG
                                     tatctgtttttttt  CT-rich tract
                         atggttataatatatc  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaaaatctatgtagcagaaagaatttgggaatttgcatatgacagtgtaaatgatgtcaagagaaactgcatggttataatatatctgttttttttacagAGTATTGAGAAGGAAATCAGAGGTCAAGTAGATGACGCTATTGCACGAGCCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
gaaaatc
- - - - -tgtagca
- - - - - - - - gaaagaa
- - - - - - - - - - - - - - - - - gcatatg
- - - - - - - - - - - - - - - - - - - - - - - - - -tgatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatggt