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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaaggaaaatttttgttgatttcttgtctatgttcaaatttgacatatcttttctaaactaacgtataatttatatttcatgcatcaaatctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGGAGGAACCCCAGGAGGCTATTCATAAGATCAGGATCACCTTGTCCTCCAA

Basic information

species Vitis vinifera
transcript Vv16s0022g01460.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|110398120|gb|EC964251.1|EC964251
EST:     CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110691949|gb|EE070635.1|EE070635
EST:     GAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110415757|gb|EC981689.1|EC981689
EST:     TCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: TCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110695117|gb|EE072766.1|EE072766
EST:     CCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110426812|gb|EC993235.1|EC993235
EST:     CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110696080|gb|EE074833.1|EE074833
EST:     GAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110383786|gb|EC948186.1|EC948186
EST:     CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110426763|gb|EC993183.1|EC993183
EST:     GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|37189652|gb|CF609001.1|CF609001
EST:     TAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: TAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110373898|gb|EC938333.1|EC938333
EST:     AGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: AGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|87586841|gb|DY474952.1|DY474952
EST:     GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110385247|gb|EC949753.1|EC949753
EST:     GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110702767|gb|EE079036.1|EE079036
EST:     GAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110696474|gb|EE072622.1|EE072622
EST:     CTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110402824|gb|EC963553.1|EC963553
EST:     GCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGCAG                       
genomic: GCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGG-C--CAGgtgattgcct ... tctaaagc
EST: gi|22012555|gb|BQ797589.1|BQ797589
EST:     GAAGCCG-CTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|51989929|gb|CV179384.1|CV179384
EST:     CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110394498|gb|EC959597.1|EC959597
EST:     GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|30330069|gb|CD013331.1|CD013331
EST:     CAGCTCCAGAGCTTCAGGCCAGCAG                       
genomic: CAGCTCCAGAGCTTCAGG-C--CAGgtgattgcct ... tctaaagc
EST: gi|71869410|gb|DT018465.1|DT018465
EST:     CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGAGCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110705996|gb|EE083482.1|EE083482
EST:     GAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110379252|gb|EC944435.1|EC944435
EST:     GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110408507|gb|EC974143.1|EC974143
EST:     GAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110692469|gb|EE071747.1|EE071747
EST:     CCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|351026582|gb|FQ432480.1|FQ432480
EST:     CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110422793|gb|EC989124.1|EC989124
EST:     CGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110378294|gb|EC943418.1|EC943418
EST:     AGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: AGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|352795335|gb|FQ476450.1|FQ476450
EST:     CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110695591|gb|EE073784.1|EE073784
EST:     CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|30329082|gb|CD012344.1|CD012344
EST:     GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGCAG                       
genomic: GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGG-C--CAGgtgattgcct ... tctaaagc
EST: gi|27582618|gb|CB005313.1|CB005313
EST:     GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGCAG                       
genomic: GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGG-C--CAGgtgattgcct ... tctaaagc
EST: gi|110728891|gb|EE104866.1|EE104866
EST:     CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110695114|gb|EE072763.1|EE072763
EST:     GAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110706667|gb|EE082393.1|EE082393
EST:     GAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110395097|gb|EC960649.1|EC960649
EST:     GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: GTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110399255|gb|EC965752.1|EC965752
EST:     AGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: AGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110696051|gb|EE074772.1|EE074772
EST:     AGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: AGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110387552|gb|EC952230.1|EC952230
EST:     CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
EST: gi|110688054|gb|EE066166.1|EE066166
EST:     CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAG                         ACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG
genomic: CAGAGTAGAAGCCGCCTTCTCTCCTCAGCTCCAGAGCTTCAGGCCAGgtgattgcct ... tctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatcttttctaaactaacgtataatttatatttcatgcatcaaatctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGGAGGAACCCCAGGAGGCTATTCATAAGATCAGGATCACCTTGTCCTCCAA
     ttttctaaactaacgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaaaggaaaatttttgttgatttcttgtctatgttcaaatttgacatatcttttctaaactaacgtataatttatatttcatgcatcaaatctaaagcagACAAAGGGACCATGGCGTATGCAGCAATGAAACCAACAAAGCCTGGGTTGGAGGAACCCCAGGAGGCTATTCATAAGATCAGGATCACCTTGTCCTCCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - ggaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aaactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgca