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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcaatcttcacatctcataaacatttcctattatttcatgtatttgatacaactccactggatcttatagcctttggttttttcttgtggtttgacacagGACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG

Basic information

species Vitis vinifera
transcript Vv16s0050g00750.t01
intron # 16
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|34547375|gb|CF515607.1|CF515607
EST:     CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTG                         GACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
genomic: CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTGgtaaccactt ... tttgacacagGACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
EST: gi|34546937|gb|CF515169.1|CF515169
EST:     CCCAGGAGCAATTGCCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTG                         GACTGGTTAATACGGTTGACAAACTTGTGCTTAAAAATGTTCAGCAG
genomic: CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTGgtaaccactt ... tttgacacagGACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
EST: gi|26258088|gb|CA809151.1|CA809151
EST:     CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTG                         GACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
genomic: CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTGgtaaccactt ... tttgacacagGACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
EST: gi|110696458|gb|EE072592.1|EE072592
EST:     CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTG                         GACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
genomic: CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTGgtaaccactt ... tttgacacagGACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
EST: gi|26257025|gb|CA808088.1|CA808088
EST:     CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTG                         GACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAAATGTTCAGCAG
genomic: CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTGgtaaccactt ... tttgacacagGACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAA-TGTTCAGCAG
EST: gi|32247927|gb|CD713746.1|CD713746
EST:     CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTG                         GACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
genomic: CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTGgtaaccactt ... tttgacacagGACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
EST: gi|32269922|gb|CD719081.1|CD719081
EST:     CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTG                         GACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
genomic: CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTGgtaaccactt ... tttgacacagGACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
EST: gi|34547026|gb|CF515258.1|CF515258
EST:     CCCAGGAGCAATTGCCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTG                         GACTGGTTAATACGGTTGACAAACTTGTGCTTAAAAATGTTCAGCAG
genomic: CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTGgtaaccactt ... tttgacacagGACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
EST: gi|110378993|gb|EC944159.1|EC944159
EST:     CCCAGGAGCAATTGCCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTG                         GACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
genomic: CCCAGGAGCAATTGTCACCAATCTTTTCCGTTGTAGCAGCATTGTTTCTGgtaaccactt ... tttgacacagGACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatacaactccactggatcttatagcctttggttttttcttgtggtttgacacagGACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG
                                            gtttgac  putative branch site (score: 4)
                                ttttttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcaatcttcacatctcataaacatttcctattatttcatgtatttgatacaactccactggatcttatagcctttggttttttcttgtggtttgacacagGACTGGTTAATACGGTTGGCAAACTTGTGCTTAAAAATGTTCAGCAG

- - -cttcaca
- - - - - - - -cataaac
- - - - - - - - - - - - - - - - - -tcatgta
- - - - - - - - - - - - - - - - - - - - - - - - -caactcc