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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttcttctcttagaattacaaaaatgatggctatatcatatggtgacgtcttaaagtttatactagatattccacttaactaatactctatgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAACACCGGGTCCGTTTCTGAAGCCAATGCTCAG

Basic information

species Vitis vinifera
transcript Vv10s0003g02070.t01
intron # 2
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|110383648|gb|EC948031.1|EC948031
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|71865167|gb|DT014222.1|DT014222
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110712532|gb|EE090261.1|EE090261
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110712239|gb|EE089632.1|EE089632
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110711522|gb|EE088099.1|EE088099
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110711652|gb|EE088373.1|EE088373
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|71882431|gb|DT031486.1|DT031486
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110713092|gb|EE088709.1|EE088709
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110711884|gb|EE088869.1|EE088869
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAAGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110713523|gb|EE089518.1|EE089518
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110711970|gb|EE089059.1|EE089059
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110712904|gb|EE088360.1|EE088360
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|71860788|gb|DT009843.1|DT009843
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|71865131|gb|DT014186.1|DT014186
EST:     CTCATCGTCTTCTCCAGCCGCGGTCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110712651|gb|EE087883.1|EE087883
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|38516653|gb|CF983828.1|CF983828
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110408486|gb|EC974122.1|EC974122
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110723223|gb|EE100293.1|EE100293
EST:     CTCATCGTCTTCTCCAGCCGCGGTCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110692821|gb|EE068512.1|EE068512
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110710861|gb|EE087398.1|EE087398
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|33404091|gb|CF209718.1|CF209718
EST:     CTCATCGTCTTCTCCAGCCGCGGGCGCCTCTACGAATATGCCAACAACAG                         GGGTAAATCAACAATTGGGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110394353|gb|EC959175.1|EC959175
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|71882673|gb|DT031728.1|DT031728
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|71865157|gb|DT014212.1|DT014212
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110713543|gb|EE089566.1|EE089566
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA
EST: gi|110719625|gb|EE094917.1|EE094917
EST:     CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAG                         TGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCAGATTCCTCCAA
genomic: CTCATCGTCTTCTCCAGCCGCGGCCGCCTCTACGAATATGCCAACAACAGgtattgtatt ... atgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacgtcttaaagtttatactagatattccacttaactaatactctatgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAACACCGGGTCCGTTTCTGAAGCCAATGCTCAG
                                 aactaat  putative branch site (score: 2)
      ttaaagtttatactag  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atttcttctcttagaattacaaaaatgatggctatatcatatggtgacgtcttaaagtttatactagatattccacttaactaatactctatgacagcagTGTTAAATCAACAATTGAGAGGTATAAGAAGGCAAGCGCTGATTCCTCCAACACCGGGTCCGTTTCTGAAGCCAATGCTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - acaaaaa
- - - - - - - - - - - - - gatggct
- - - - - - - - - - - - - - - - - - - - -tggtgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aactaat