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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttatttataaaagtacaaaaataaaaaataaaaaacccctttttgagttattacagatggctttgtatggtaacccaaatgtgtaaaatatgtttgtagATGGGAAGGGTTGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGAGATAATTTCTACGACAATGGATTGTCGGGCATCCACGACACAGCATTCG

Basic information

species Vitis vinifera
transcript Vv01s0011g06290.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|71858448|gb|DT007503.1|DT007503
EST:     GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAG                         ATGGGAAGGGTAGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGA
genomic: GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAGgttcacgcct ... atgtttgtagATGGGAAGGGTTGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGA
EST: gi|161715966|gb|FC068755.1|FC068755
EST:     GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAG                         ATGGGAAGGGTAGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGA
genomic: GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAGgttcacgcct ... atgtttgtagATGGGAAGGGTTGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGA
EST: gi|294966718|gb|GW837737.1|GW837737
EST:     GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAG                         ATGGGAAGGGTGGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGA
genomic: GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAGgttcacgcct ... atgtttgtagATGGGAAGGGTTGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGA
EST: gi|161710975|gb|FC060330.1|FC060330
EST:     GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAG                         ATGGGAAGGGTAGGAGAG
genomic: GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAGgttcacgcct ... atgtttgtagATGGGAAGGGTTGGAGAG
EST: gi|349811174|gb|FQ406162.1|FQ406162
EST:     GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAG                         ATGGGAAGGGTAGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACCGGA
genomic: GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAGgttcacgcct ... atgtttgtagATGGGAAGGGTTGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGA
EST: gi|161717827|gb|FC064740.1|FC064740
EST:     GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAG                         ATGGGAAGGGTAGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGA
genomic: GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAGgttcacgcct ... atgtttgtagATGGGAAGGGTTGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGA
EST: gi|161719167|gb|FC065431.1|FC065431
EST:     GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAG                         ATGGGAAGGGTAGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGA
genomic: GTGACTGGGGAAGAAGAGGATCTTTCAACCAATCTCGAGTTGCACTTCAGgttcacgcct ... atgtttgtagATGGGAAGGGTTGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagttattacagatggctttgtatggtaacccaaatgtgtaaaatatgtttgtagATGGGAAGGGTTGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGAGATAATTTCTACGACAATGGATTGTCGGGCATCCACGACACAGCATTCG
                       tggtaac  putative branch site (score: 2)
                                aaatgtgtaaaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttatttataaaagtacaaaaataaaaaataaaaaacccctttttgagttattacagatggctttgtatggtaacccaaatgtgtaaaatatgtttgtagATGGGAAGGGTTGGAGAGGAGTTGGACATAGATTTTGTAGTATCGACTGGAGATAATTTCTACGACAATGGATTGTCGGGCATCCACGACACAGCATTCG

- - - -ataaaag
- - - - - - - -acaaaaa
- - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - aaaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gatggct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaccca