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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggtggatattcttagttcaatattataatatctgttcttttaaatttccatattgggtatttcgataatggagaattgtcgttgtttgtcttatgatagGGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAATG

Basic information

species Vitis vinifera
transcript Vv03s0038g00750.t01
intron # 1
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|110687487|gb|EE064951.1|EE064951
EST:     ATTCATCTTCTTCCTCCAAGCTCG                         GGAACTCC-ACGGCTGATTAATCGGCGGGAATAGAAAAT-
genomic: ATTCATCTTCTTCCTCCAAGCTCGgtattgctat ... cttatgatagGGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAATG
EST: gi|110698550|gb|EE076176.1|EE076176
EST:     GCAATTCATCTTCTTCCTCCAAGCTCG                         GGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAAT-
genomic: GCAATTCATCTTCTTCCTCCAAGCTCGgtattgctat ... cttatgatagGGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAATG
EST: gi|26262376|gb|CA813439.1|CA813439
EST:     GCAATTCATCTTCTTCCTCCAAGCTCG                         GGAACTCC-ACGGCTGATTAATCGGCGGGAATAGAAAAT-
genomic: GCAATTCATCTTCTTCCTCCAAGCTCGgtattgctat ... cttatgatagGGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAATG
EST: gi|26262164|gb|CA813227.1|CA813227
EST:     GCAA-TCATCTTCTTCCTCCAAGCTCG                         GGAACTCC-ACGGCTGATTAATCGGCGGGAATAGAAAAT-
genomic: GCAATTCATCTTCTTCCTCCAAGCTCGgtattgctat ... cttatgatagGGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAATG
EST: gi|71856948|gb|DT006003.1|DT006003
EST:     GCAATTCATCTTCTTCCTCCAAGCTCG                         GGAACTCC-ACGGCTGATTAATCGGCGGGAATAGAAAAT-
genomic: GCAATTCATCTTCTTCCTCCAAGCTCGgtattgctat ... cttatgatagGGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAATG
EST: gi|110724233|gb|EE099882.1|EE099882
EST:     GCAATTCATCTTCTTCCTCCAAGCTCG                         GGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAAT-
genomic: GCAATTCATCTTCTTCCTCCAAGCTCGgtattgctat ... cttatgatagGGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAATG
EST: gi|110723124|gb|EE100074.1|EE100074
EST:     GCAATTCATCTTCTTCCTCCAAGCTCG                         GGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAAT-
genomic: GCAATTCATCTTCTTCCTCCAAGCTCGgtattgctat ... cttatgatagGGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAATG
EST: gi|294966730|gb|GW837749.1|GW837749
EST:     GCAATTCATCTTCTTCCTCCAAGCTCG                         GGAACTCCAACGGCTGATTAATCGGCGGGAATAGAAAAT-
genomic: GCAATTCATCTTCTTCCTCCAAGCTCGgtattgctat ... cttatgatagGGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAATG
EST: gi|71868328|gb|DT017383.1|DT017383
EST:     GCAATTCATCTTCTTCCTCCAAGCTCG                         GGAACTCC-ACGGCTGATTAATCGGCGGGAATAGAAAAT-
genomic: GCAATTCATCTTCTTCCTCCAAGCTCGgtattgctat ... cttatgatagGGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttccatattgggtatttcgataatggagaattgtcgttgtttgtcttatgatagGGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAATG
                                        tttgtctt  CT-rich tract
                                              ttatgata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggtggatattcttagttcaatattataatatctgttcttttaaatttccatattgggtatttcgataatggagaattgtcgttgtttgtcttatgatagGGAACTCCAACGGCTGATTAATCGGTGGGAATAGAAAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
tggtgga