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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttcctgaataaccttgagttttgttttcggaaatttggactaggcggtggggtgtttcgtctgatttattcttagactgtctaagcgtgtcaaggattgcttgaggttgatcattctaaatttcgctaacaattttagattttttttcattgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGCT

Basic information

species Vitis vinifera
transcript Vv11s0016g03200.t01
intron # 3
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|71860593|gb|DT009648.1|DT009648
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAG                         ATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
EST: gi|71862772|gb|DT011827.1|DT011827
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAG                         ATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
EST: gi|71861743|gb|DT010798.1|DT010798
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAG                         ATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
EST: gi|71862499|gb|DT011554.1|DT011554
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAG                         ATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
EST: gi|71861630|gb|DT010685.1|DT010685
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAG                         ATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
EST: gi|71864491|gb|DT013546.1|DT013546
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAG                         ATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
EST: gi|71864483|gb|DT013538.1|DT013538
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAA                         ATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
EST: gi|71863373|gb|DT012428.1|DT012428
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAG                         ATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
EST: gi|294965788|gb|GW839243.1|GW839243
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCCGCTGCAG                         ATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
EST: gi|71865183|gb|DT014238.1|DT014238
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAG                         ATCGCTTGCCAGAATGGAGGCAGACTAT
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTAT
EST: gi|110690968|gb|EE068534.1|EE068534
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAG                         ATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
EST: gi|110404543|gb|EC969762.1|EC969762
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAG                         ATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
EST: gi|71863525|gb|DT012580.1|DT012580
EST:     TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAG                         ATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC
genomic: TCCAAAATCAGAAAAGCCTTTTTACGGGCCAAATGTCTGGCCTGCTGCAGgtaatttcct ... tgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgatcattctaaatttcgctaacaattttagattttttttcattgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGCT
                  cgctaac  putative branch site (score: 2)
                                  ttttttttcattgtc  putative PPT
                     taacaattttagattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatttcctgaataaccttgagttttgttttcggaaatttggactaggcggtggggtgtttcgtctgatttattcttagactgtctaagcgtgtcaaggattgcttgaggttgatcattctaaatttcgctaacaattttagattttttttcattgtcgagtagATCGCTTGCCAGAATGGAGGCAGACTATGGAGAAATTCCATCAAGAGGCGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG