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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaattaaacagatttttgtttaatccaaaaaatcatatttagttagagaacttaatatgacttgtttcagtgcttttactaattcatggtacaaatgcagGCAAAAGTTGCTGCTGCAGGTCAGGATAAATGGCTCCTGGTAAACTTGCAATCCACCACAGAATTCAGCTCACATATG

Basic information

species Vitis vinifera
transcript Vv01s0010g02050.t01
intron # 4
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|30252887|gb|CB970438.1|CB970438
EST:     CGTTATATCGGCCTCCATTTGCTTTAATGCACCATGGACCTTTTGAAAAG                         GCGAAAGTTGCTGCTGCAGGTCAGGATAAATGGCTCCTGGTAAACTTGCAA
genomic: CGTTATATCGGCCTCCATTTGCTTTAATGCACCATGGACCTTTTGAAAAGgtaaacagct ... acaaatgcagGCAAAAGTTGCTGCTGCAGGTCAGGATAAATGGCTCCTGGTAAACTTGCAA
EST: gi|71859632|gb|DT008687.1|DT008687
EST:     CGTTATATCGGCCTCCATTTGCTTTAATGCACCATGGACCTTTTGAAAAG                         GCAAAAGTTGCTGCTGCAGGTCAGGATAAATGGCTCCTGGTAAACTTGCAA
genomic: CGTTATATCGGCCTCCATTTGCTTTAATGCACCATGGACCTTTTGAAAAGgtaaacagct ... acaaatgcagGCAAAAGTTGCTGCTGCAGGTCAGGATAAATGGCTCCTGGTAAACTTGCAA
EST: gi|161719853|gb|FC068673.1|FC068673
EST:     CGTTATATCGGCCTCCATTTGCTTTAATGCACCATGGACCTTTTGAAAAG                         GCAAAAGTTGCTGCTGCAGGTCAGGATAAATGGCTCCTGGTAAACTTGCAA
genomic: CGTTATATCGGCCTCCATTTGCTTTAATGCACCATGGACCTTTTGAAAAGgtaaacagct ... acaaatgcagGCAAAAGTTGCTGCTGCAGGTCAGGATAAATGGCTCCTGGTAAACTTGCAA
EST: gi|110732429|gb|EE107710.1|EE107710
EST:     CGTTATATCGGCCTCCATTTGCTTTAATGCACCATGGACCTTTTGAAAAG                         GCAAAAGTTGCTGCTGCAGGTCAGGATAAATGGCTCCTGGTAAACTTGCAA
genomic: CGTTATATCGGCCTCCATTTGCTTTAATGCACCATGGACCTTTTGAAAAGgtaaacagct ... acaaatgcagGCAAAAGTTGCTGCTGCAGGTCAGGATAAATGGCTCCTGGTAAACTTGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagaacttaatatgacttgtttcagtgcttttactaattcatggtacaaatgcagGCAAAAGTTGCTGCTGCAGGTCAGGATAAATGGCTCCTGGTAAACTTGCAATCCACCACAGAATTCAGCTCACATATG
                               tactaat  putative branch site (score: 1)
                            ttttactaattcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaattaaacagatttttgtttaatccaaaaaatcatatttagttagagaacttaatatgacttgtttcagtgcttttactaattcatggtacaaatgcagGCAAAAGTTGCTGCTGCAGGTCAGGATAAATGGCTCCTGGTAAACTTGCAATCCACCACAGAATTCAGCTCACATATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
aaattaa
- - - - - - - - - - - - - aaaaaat
- - - - - - - - - - - - - - - - - - - - - - agagaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcatgg