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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttttagtcttttgttttatgtcttggaagttcaatttatgctgaattattaacttcatgggcatggcattttaaccccacaaaccctctttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGGATCAACAGAGTGGTAGCAGAATTATTATGGCTCGAGCTTGTGTGGCTTA

Basic information

species Vitis vinifera
transcript Vv08s0007g08110.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|110685332|gb|EE063631.1|EE063631
EST:     CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAG                         GCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
genomic: CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAGgtgctttttg ... tttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
EST: gi|30252575|gb|CB970126.1|CB970126
EST:     CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAG                         GCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
genomic: CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAGgtgctttttg ... tttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
EST: gi|71864165|gb|DT013220.1|DT013220
EST:     CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAG                         GCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
genomic: CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAGgtgctttttg ... tttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
EST: gi|161706024|gb|FC056715.1|FC056715
EST:     CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAG                         GCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
genomic: CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAGgtgctttttg ... tttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
EST: gi|71866396|gb|DT015451.1|DT015451
EST:     CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAG                         GCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
genomic: CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAGgtgctttttg ... tttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
EST: gi|71874295|gb|DT023350.1|DT023350
EST:     CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAG                         GCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
genomic: CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAGgtgctttttg ... tttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
EST: gi|161717359|gb|FC065274.1|FC065274
EST:     CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAG                         GCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
genomic: CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAGgtgctttttg ... tttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
EST: gi|33405255|gb|CF210882.1|CF210882
EST:     CGCCGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAG                         GCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
genomic: CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAGgtgctttttg ... tttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
EST: gi|110696361|gb|EE072411.1|EE072411
EST:     CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAG                         GCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
genomic: CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAGgtgctttttg ... tttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
EST: gi|161715416|gb|FC068047.1|FC068047
EST:     CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAG                         GCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
genomic: CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAGgtgctttttg ... tttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
EST: gi|77578022|gb|DV217773.1|DV217773
EST:     CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAG                         GCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG
genomic: CGCTGGGTCTTCTCTTCCTCACCTCCGGCCTTGTAGTTAATCTCATTCAGgtgctttttg ... tttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattattaacttcatgggcatggcattttaaccccacaaaccctctttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGGATCAACAGAGTGGTAGCAGAATTATTATGGCTCGAGCTTGTGTGGCTTA
                                        ccctctttcctgc  CT-rich tract
                        attttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atttttagtcttttgttttatgtcttggaagttcaatttatgctgaattattaacttcatgggcatggcattttaaccccacaaaccctctttcctgcagGCAGTTTGTTTCATCCTTGTTAGGCCTCTGTCAAAAAGTACATACAGAAGGATCAACAGAGTGGTAGCAGAATTATTATGGCTCGAGCTTGTGTGGCTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - tgtcttg
- - - - - - - - - - - - - - - - - - - tatgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgggc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccacaaa