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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cattttctccacaaagcatatgaatgattccatatatatgggaattttttattttttatggttacaatatctgaaacagtgaatgactatgtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCAGGCCTCACAGTTCGTGGCCAAGCATGGATGTGCCTACTACAAGCAGCTG

Basic information

species Vitis vinifera
transcript Vv04s0008g00810.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|71868224|gb|DT017279.1|DT017279
EST:     CAACTACTGAGAAACTTCAG                         GTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
genomic: CAACTACTGAGAAACTTCAGgtattaaatc ... gtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
EST: gi|351023086|gb|FQ430961.1|FQ430961
EST:     ATCAACTACTGAGAAACTTCAG                         GTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
genomic: ATCAACTACTGAGAAACTTCAGgtattaaatc ... gtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
EST: gi|110694685|gb|EE072007.1|EE072007
EST:     ATCAACTACTGAGAAACTTCAG                         GTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
genomic: ATCAACTACTGAGAAACTTCAGgtattaaatc ... gtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
EST: gi|71865761|gb|DT014816.1|DT014816
EST:     ATCAACTACTGAGAAACTTCAG                         GTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
genomic: ATCAACTACTGAGAAACTTCAGgtattaaatc ... gtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
EST: gi|110386902|gb|EC951535.1|EC951535
EST:     CCTCCCTCCCTCATCAACTACTGAGAAACTTCAG                         GTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
genomic: CCTCCCTCCCTCATCAACTACTGAGAAACTTCAGgtattaaatc ... gtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
EST: gi|110397153|gb|EC962876.1|EC962876
EST:     ATCAACTACTGAGAAACTTCAG                         GTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
genomic: ATCAACTACTGAGAAACTTCAGgtattaaatc ... gtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
EST: gi|110412872|gb|EC978635.1|EC978635
EST:     GAGAAACTTCAG                         GTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
genomic: GAGAAACTTCAGgtattaaatc ... gtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
EST: gi|110379111|gb|EC944287.1|EC944287
EST:     GAGAAACTTCAG                         GTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
genomic: GAGAAACTTCAGgtattaaatc ... gtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
EST: gi|110687563|gb|EE065115.1|EE065115
EST:     CTCCCTCATCAACTACTGAGAAACTTCAG                         GTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
genomic: CTCCCTCATCAACTACTGAGAAACTTCAGgtattaaatc ... gtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
EST: gi|110722171|gb|EE098170.1|EE098170
EST:     ATCAACTACTGAGAAACTTCAG                         GTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA
genomic: ATCAACTACTGAGAAACTTCAGgtattaaatc ... gtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttattttttatggttacaatatctgaaacagtgaatgactatgtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCAGGCCTCACAGTTCGTGGCCAAGCATGGATGTGCCTACTACAAGCAGCTG
                                            tgtcttctt  CT-rich tract
     attttttatggtta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cattttctccacaaagcatatgaatgattccatatatatgggaattttttattttttatggttacaatatctgaaacagtgaatgactatgtcttcttagGTGGGAATTCATGGCTTCCAAACTGGTTCAACTGCAATCCAAGGCTTCCCAGGCCTCACAGTTCGTGGCCAAGCATGGATGTGCCTACTACAAGCAGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - ccacaaa
- - - - - - - -gcatatg
- - - - - - - - - - - - - - -ccatata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaacag