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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttttatagttatgtaggttgttggatttcctctgcatgatcatgtaataggagaatggctaaggaatatcactgtaaaagaacttgaatttgtgaatcctggacactgtattgacaacctgagacaactttcaactgtagGATCTATTACCATTCATGGATGGTGGCCCCAAGGATCATCACGTCACTCTATCTCATAAACGTCCAAGAGAAAGCTCTCTGACTCCTCCCCAGAAAATTC

Basic information

species Vitis vinifera
transcript Vv01s0010g02050.t01
intron # 7
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:     AAAAGATGCGCTCATGGTGTGGAATGATTCAACCAGAGCGTTTGCTGGAG                         GATCTATTACCATTCATGGATGGTGGCCCCAAGGATCATCACGTCACTCTA
genomic: AAAAGATGCGCTCATGGTGTGGAATGATTCAACCAGAGCGTTTGCTGGAGgtatgtttta ... tcaactgtagGATCTATTACCATTCATGGATGGTGGCCCCAAGGATCATCACGTCACTCTA
EST: gi|110402814|gb|EC963524.1|EC963524
EST:     AAAAGATGCGCTCATGGTGTGGAATGATTCAACCAGAGCGTTTGCTGGAG                         GATCTATTACCATTCATGGAGGGTGGCCCCAAGGATCATCACGTCACTCTA
genomic: AAAAGATGCGCTCATGGTGTGGAATGATTCAACCAGAGCGTTTGCTGGAGgtatgtttta ... tcaactgtagGATCTATTACCATTCATGGATGGTGGCCCCAAGGATCATCACGTCACTCTA
EST: gi|110374728|gb|EC939652.1|EC939652
EST:     AAAAGATGCGCTCATGGTGTGGAATGATTCAACCAGAGCGTTTGCTGGAG                         GATCTATTACCATTCATGGATGGTGGCCCCAAGGATCATCACGTCACTCTA
genomic: AAAAGATGCGCTCATGGTGTGGAATGATTCAACCAGAGCGTTTGCTGGAGgtatgtttta ... tcaactgtagGATCTATTACCATTCATGGATGGTGGCCCCAAGGATCATCACGTCACTCTA
EST: gi|110689997|gb|EE066711.1|EE066711
EST:     AAAAGATGCGCTCATGGTGTGGAATGATTCAACCAGAGCGTTTGCTGGAG                         GATCTATTACCATTCATGGATGGTGGCCCCAAGGATCATCACGTCACTCTA
genomic: AAAAGATGCGCTCATGGTGTGGAATGATTCAACCAGAGCGTTTGCTGGAGgtatgtttta ... tcaactgtagGATCTATTACCATTCATGGATGGTGGCCCCAAGGATCATCACGTCACTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatttgtgaatcctggacactgtattgacaacctgagacaactttcaactgtagGATCTATTACCATTCATGGATGGTGGCCCCAAGGATCATCACGTCACTCTATCTCATAAACGTCCAAGAGAAAGCTCTCTGACTCCTCCCCAGAAAATTC
                       tattgac  putative branch site (score: 2)
                                          ctttc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttttatagttatgtaggttgttggatttcctctgcatgatcatgtaataggagaatggctaaggaatatcactgtaaaagaacttgaatttgtgaatcctggacactgtattgacaacctgagacaactttcaactgtagGATCTATTACCATTCATGGATGGTGGCCCCAAGGATCATCACGTCACTCTATCTCATAAACGTCCAAGAGAAAGCTCTCTGACTCCTCCCCAGAAAATTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC