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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCTGTCGGTTCTATTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgcttaaatttttaggaaatttgtcaattccatatgccgatgactgagatttcagaagaaattggttgggggaaatgaaaagaatgtgaaatttg...

Basic information

species Vitis vinifera
transcript Vv07s0005g03790.t01
intron # 2
splice site 5'
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|110397988|gb|EC964029.1|EC964029
EST:     TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
genomic: TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
EST: gi|30305880|gb|CB982674.1|CB982674
EST:     TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGATTGGGAACATTC
genomic: TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
EST: gi|110733074|gb|EE108915.1|EE108915
EST:     TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
genomic: TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
EST: gi|71858858|gb|DT007913.1|DT007913
EST:     TTGTAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
genomic: TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
EST: gi|161716900|gb|FC064979.1|FC064979
EST:     TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
genomic: TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
EST: gi|71857444|gb|DT006499.1|DT006499
EST:     TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
genomic: TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
EST: gi|294967254|gb|GW840129.1|GW840129
EST:     TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
genomic: TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
EST: gi|71864238|gb|DT013293.1|DT013293
EST:     TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGATTGGGAACATTC
genomic: TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
EST: gi|30130655|gb|CB915994.1|CB915994
EST:     TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
genomic: TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
EST: gi|71861252|gb|DT010307.1|DT010307
EST:     TTGAAGAAGTTAGGAAGACTATTCAGGATGCGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
genomic: TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
EST: gi|71856468|gb|DT005523.1|DT005523
EST:     TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGATTGGGAACATTC
genomic: TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
EST: gi|37187335|gb|CF606688.1|CF606688
EST:     TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
genomic: TTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
EST: gi|161713591|gb|FC062524.1|FC062524
EST:     GAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAG                         TTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC
genomic: GAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgctt ... tctggtgcagTTGGTGGTAAAAAGCCAAATTCTTGCAGGTGGGCGAGGCTTGGGAACATTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATGAGCAAATATGGAATCAATGTTCCAAAAGGAGTTGCTGTCGGTTCTATTGAAGAAGTTAGGAAGACTATTCAGGATGTGTTTCCTAAGGAAAATGAGgtaactgcttaaatttttaggaaatttgtcaattccatatgccgatgactgagatttcagaagaaattggttgggggaaatgaaaagaatgtgaaatttg

- - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgaaa