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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctttttgccacaagttaggttttttattatttatatctctttgctatacaccttatatatgtttaaccatgcttctctattgatttttatttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGATCAGCAACGCCGAGCTTCAGAATTTTGGGAAAAGAATTGG

Basic information

species Vitis vinifera
transcript Vv01s0011g01080.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|349826229|gb|FQ416034.1|FQ416034
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|349830971|gb|FQ418255.1|FQ418255
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|351025692|gb|FQ426706.1|FQ426706
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|30327285|gb|CD010547.1|CD010547
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|30325264|gb|CD008526.1|CD008526
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|349824034|gb|FQ417421.1|FQ417421
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|351019251|gb|FQ429411.1|FQ429411
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|349832506|gb|FQ421067.1|FQ421067
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|351048408|gb|FQ448682.1|FQ448682
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|349821313|gb|FQ404445.1|FQ404445
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|351053396|gb|FQ455732.1|FQ455732
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|32248332|gb|CD714151.1|CD714151
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|351028541|gb|FQ444822.1|FQ444822
EST:     ATTTTTTACCTAGTGAAGGAGGGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|351053071|gb|FQ456678.1|FQ456678
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|351016333|gb|FQ446193.1|FQ446193
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTAGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|30328160|gb|CD011422.1|CD011422
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|32247267|gb|CD713086.1|CD713086
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|351013379|gb|FQ425410.1|FQ425410
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|351015737|gb|FQ431692.1|FQ431692
EST:     ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAG                         GAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGAT
EST: gi|351034855|gb|FQ458212.1|FQ458212
EST:     ATTTTTTACCTAGTGAAGGAGAATGCACTAGCTTGCTTCTAGCTAAAGAG                         GAAGACCTTTTGGAAG-TGCAG-ATCCGAA
genomic: ATTTTTTACCTAGTGAAGGAGAGTGCACTAGCTTGCTTCTAGCTAAAGAGgtttgtctac ... tttgttatagGAGGACCTTTTGGA-GCTGCAGGATCCGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatacaccttatatatgtttaaccatgcttctctattgatttttatttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGATCAGCAACGCCGAGCTTCAGAATTTTGGGAAAAGAATTGG
                                 tattgat  putative branch site (score: 3)
                                       tttttattt  CT-rich tract
                               tctattgatttttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctttttgccacaagttaggttttttattatttatatctctttgctatacaccttatatatgtttaaccatgcttctctattgatttttatttgttatagGAGGACCTTTTGGAGCTGCAGGATCCGAAATTGGCTTCAACTATGAGAGATCAGCAACGCCGAGCTTCAGAATTTTGGGAAAAGAATTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - -gccacaa
- - - - - - - - - - - - - - - - - - - - - - - - acacctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaccatg