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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggaaccaaacatcttgaaaacagatatatgcttaattaacagccttcatttaatgcattttggtactaactggactattacttatcaccttattccatagGTCTTGCAACTAGCAGAAGGAAATATTTTGTCAACACGTCTTCTCATCGATGCTATGGGGAATTTTTCCCCTGTGGTAAAGCAG

Basic information

species Vitis vinifera
transcript Vv12s0059g01150.t01
intron # 6
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|30327614|gb|CD010876.1|CD010876
EST:     TCTTTGAGGGTTACAGCGTGTCTAATATATGCATATATGAGGATGCAGCG                         GTCTTGCAACTAGCAGAAGGAAATATTTTGTCAACACGTCTTCTCATCGAT
genomic: TCTTTGAGGGTTACAGCGTGTCTAATATATGCATATATGAGGATGCAGCGgtgagcttac ... tattccatagGTCTTGCAACTAGCAGAAGGAAATATTTTGTCAACACGTCTTCTCATCGAT
EST: gi|26258630|gb|CA809693.1|CA809693
EST:     TCTTTGAGGGTTACAGCGTGTCTAATATATGCATATATGAGGATGCAGCG                         GTCTTGCAACTAGCAGAAGGAAATATTTTGTCAACACGTCTTCTCATCGAT
genomic: TCTTTGAGGGTTACAGCGTGTCTAATATATGCATATATGAGGATGCAGCGgtgagcttac ... tattccatagGTCTTGCAACTAGCAGAAGGAAATATTTTGTCAACACGTCTTCTCATCGAT
EST: gi|110712999|gb|EE088546.1|EE088546
EST:     TCTTTGAGGGTTACAGCGTGTCTAATATATGCATATATGAGGATGCAGCG                         GTCTTGCAACTAGCA
genomic: TCTTTGAGGGTTACAGCGTGTCTAATATATGCATATATGAGGATGCAGCGgtgagcttac ... tattccatagGTCTTGCAACTAGCA
EST: gi|32271134|gb|CD720293.1|CD720293
EST:     TCTTTGAGGGTTACAGCGTGTCTAATATATGCATATATGAGGATGCAGCG                         GTCTTGCAACTAGCAGAAGGAAATATTTTGTCAACACGTCTTCTCATCGAT
genomic: TCTTTGAGGGTTACAGCGTGTCTAATATATGCATATATGAGGATGCAGCGgtgagcttac ... tattccatagGTCTTGCAACTAGCAGAAGGAAATATTTTGTCAACACGTCTTCTCATCGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatttaatgcattttggtactaactggactattacttatcaccttattccatagGTCTTGCAACTAGCAGAAGGAAATATTTTGTCAACACGTCTTCTCATCGATGCTATGGGGAATTTTTCCCCTGTGGTAAAGCAG
                  tactaac  putative branch site (score: 0)
                                          ccttattcc  putative PPT
                              tattacttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggaaccaaacatcttgaaaacagatatatgcttaattaacagccttcatttaatgcattttggtactaactggactattacttatcaccttattccatagGTCTTGCAACTAGCAGAAGGAAATATTTTGTCAACACGTCTTCTCATCGATGCTATGGGGAATTTTTCCCCTGTGGTAAAGCAG

- - ccaaaca
- - - - - - - -gaaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - -aatgcat