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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaggcaatcttaactcagatagttattagcatagattacatacttccaaactgatgattccatggtttcaatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAAATGAAGCCAATTCCATATAAGCCTGGAAGCCGAGGTCCATCTGAAGCAG

Basic information

species Vitis vinifera
transcript Vv14s0171g00490.t01
intron # 15
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|352763752|gb|FQ473455.1|FQ473455
EST:     GACACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110716825|gb|EE092144.1|EE092144
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|351015046|gb|FQ444335.1|FQ444335
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352773448|gb|FQ472230.1|FQ472230
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110365367|gb|EC928242.1|EC928242
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110715492|gb|EE093605.1|EE093605
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|33405782|gb|CF211409.1|CF211409
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110361886|gb|EC925389.1|EC925389
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352777103|gb|FQ474410.1|FQ474410
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|30329436|gb|CD012698.1|CD012698
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110364587|gb|EC927954.1|EC927954
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110384476|gb|EC948916.1|EC948916
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110696408|gb|EE072500.1|EE072500
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGNGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352763934|gb|FQ465384.1|FQ465384
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352777620|gb|FQ466673.1|FQ466673
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352781379|gb|FQ468223.1|FQ468223
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|71890077|gb|DT039132.1|DT039132
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352781474|gb|FQ468318.1|FQ468318
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110416304|gb|EC982275.1|EC982275
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110367670|gb|EC931616.1|EC931616
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|352778466|gb|FQ465776.1|FQ465776
EST:     CGATACGAGGTGATCAGCTGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACNNNNNNNGCACAGAATTGACAATGGAGAA
genomic: CGATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
EST: gi|110373098|gb|EC937308.1|EC937308
EST:     GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAG                         GCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA
genomic: GATACGAGGTGATCAGCAGCATTTTGTTCGCAGAGATGAGTTGAAGgtagaggcaa ... caatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattagcatagattacatacttccaaactgatgattccatggtttcaatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAAATGAAGCCAATTCCATATAAGCCTGGAAGCCGAGGTCCATCTGAAGCAG
                         aactgat  putative branch site (score: 3)
       atagatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagaggcaatcttaactcagatagttattagcatagattacatacttccaaactgatgattccatggtttcaatgatcagGCGGCCTGGGAGATTTTCACACCTCTTCTGCACAGAATTGACAATGGAGAAATGAAGCCAATTCCATATAAGCCTGGAAGCCGAGGTCCATCTGAAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC