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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attggtttatttaaaatttatcacattgaataggtaaagagattttgtgtatcttgcagcttatttagctgagatttctaattttatttgatcttagcagGTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCTGAAATTTTTTTTAAGGGATGGCTTCAGTGGGCATAGCACCTACCTCTGGTTTGAGAGAAC

Basic information

species Vitis vinifera
transcript Vv14s0060g00600.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|71858122|gb|DT007177.1|DT007177
EST:     TTTCTCTCCCAATTTACATGGTGGATGTCTTCTTCTCCCGGGTTCGATCG                         GTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCTGAAANNNNNNN
genomic: TTTCTCTCCCAATTTACATGGTGGATGTCTTCTTCTCCCGGGTTCGATCGgtagggttcg ... atcttagcagGTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCTGAAATTTTTTT
EST: gi|110689423|gb|EE065633.1|EE065633
EST:     TTTCTCTCCCAATTTACATGGTGGATGTCTTCTTCTCCCGGGTTCGATCG                         GTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCGATCGGGAAANN
genomic: TTTCTCTCCCAATTTACATGGTGGATGTCTTCTTCTCCCGGGTTCGATCGgtagggttcg ... atcttagcagGTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGC--T---GAAATT
EST: gi|161713248|gb|FC063076.1|FC063076
EST:     TTTCTCTCCCAATTTACATGGTGGATGTCTTCTTCTCCCGGGTTCGATCG                         GTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCTGAAANNNNNNN
genomic: TTTCTCTCCCAATTTACATGGTGGATGTCTTCTTCTCCCGGGTTCGATCGgtagggttcg ... atcttagcagGTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCTGAAATTTTTTT
EST: gi|161718839|gb|FC065074.1|FC065074
EST:     TTTCTCTCCCAATTTACATGGTGGATGTCTTCTTCTCCCGGGTTCGATCG                         GTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCTGAAANNNNNNN
genomic: TTTCTCTCCCAATTTACATGGTGGATGTCTTCTTCTCCCGGGTTCGATCGgtagggttcg ... atcttagcagGTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCTGAAATTTTTTT
EST: gi|33405711|gb|CF211338.1|CF211338
EST:     TCTTCTTCTCCCGGGTTCGATCG                         GTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCTGAAANNNNNNN
genomic: TCTTCTTCTCCCGGGTTCGATCGgtagggttcg ... atcttagcagGTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCTGAAATTTTTTT
EST: gi|37189440|gb|CF608789.1|CF608789
EST:     TTTCTCTCCC-ATTTACATGGTGGATGTCTTCTTCTCCCGGGTTCGATCG                         GTAAATGATTGG
genomic: TTTCTCTCCCAATTTACATGGTGGATGTCTTCTTCTCCCGGGTTCGATCGgtagggttcg ... atcttagcagGTAAATGATTGG
EST: gi|110687881|gb|EE065793.1|EE065793
EST:     TTTCTCTCCCAATTTACATGGTGGATGTCTTCTTCTCCCGGGTTCGATCG                         GTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCGATCGGGAAANN
genomic: TTTCTCTCCCAATTTACATGGTGGATGTCTTCTTCTCCCGGGTTCGATCGgtagggttcg ... atcttagcagGTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGC--T---GAAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgtatcttgcagcttatttagctgagatttctaattttatttgatcttagcagGTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCTGAAATTTTTTTTAAGGGATGGCTTCAGTGGGCATAGCACCTACCTCTGGTTTGAGAGAAC
                            atttctaattttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attggtttatttaaaatttatcacattgaataggtaaagagattttgtgtatcttgcagcttatttagctgagatttctaattttatttgatcttagcagGTAAATGATTGGTTTCACTGAGAGAAAGGAGTAAAAAGCTGAAATTTTTTTTAAGGGATGGCTTCAGTGGGCATAGCACCTACCTCTGGTTTGAGAGAAC

- - - - - - - - - - - - - - - - - -aaagaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - tgcagct