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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgcagaaatttcatgcaaccttttcactttcagtctatatgcatctatatgccaccatttttgtttgcaacacattctctaaatatcagtttgatttagGAAGGATTAAGCGAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGTAGAGCATTATGCCATGAACCTG

Basic information

species Vitis vinifera
transcript Vv19s0027g00380.t01
intron # 3
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|110708780|gb|EE086709.1|EE086709
EST:     ATTTTGCGTCTTTTGATTGTATCTCCAGGAAATTCATTGACTTTGAAAAG                         GAAGGATTAAGCAAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGT
genomic: ATTTTGCGTCTTTTGATTGTATCTCCAGGAAATTCATTGACTTTGAAAAGgtttaccctt ... tttgatttagGAAGGATTAAGCGAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGT
EST: gi|110732599|gb|EE108027.1|EE108027
EST:     ATTTTGCGTCTTTTGATTGTATCTCCAGGAAATTCATTGACTTTGAAAAG                         GAGGGATTAAGCAAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGT
genomic: ATTTTGCGTCTTTTGATTGTATCTCCAGGAAATTCATTGACTTTGAAAAGgtttaccctt ... tttgatttagGAAGGATTAAGCGAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGT
EST: gi|30323287|gb|CD006549.1|CD006549
EST:     ATTTTGCGTCTTTTGATTGTATCTCCAGGAAATTCATTGACTTTGAAAAG                         GAAGGATTAAGCAAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGT
genomic: ATTTTGCGTCTTTTGATTGTATCTCCAGGAAATTCATTGACTTTGAAAAGgtttaccctt ... tttgatttagGAAGGATTAAGCGAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGT
EST: gi|27579341|gb|CB002036.1|CB002036
EST:     ATTTTGCGTCTTTTGATTGTATCTCCAGGAAATTCATTGACTTTGAAAAG                         GAAGGATTAAGCAAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGT
genomic: ATTTTGCGTCTTTTGATTGTATCTCCAGGAAATTCATTGACTTTGAAAAGgtttaccctt ... tttgatttagGAAGGATTAAGCGAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGT
EST: gi|294964791|gb|GW838594.1|GW838594
EST:     ATTTTGCGTCTTTTGATTGTATCTCCAGGAAATTCATTGACTTTGAAAAG                         GAAGGATTAAGCGAAAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGT
genomic: ATTTTGCGTCTTTTGATTGTATCTCCAGGAAATTCATTGACTTTGAAAAGgtttaccctt ... tttgatttagGAAGGATTAAGCGAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGT
EST: gi|26257237|gb|CA808300.1|CA808300
EST:     ATTTTGCGTCTTTTGATTGTATCTCCAGGAAATTCATTGACTTTGAAAAG                         GAAGGATTAAGCAAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGT
genomic: ATTTTGCGTCTTTTGATTGTATCTCCAGGAAATTCATTGACTTTGAAAAGgtttaccctt ... tttgatttagGAAGGATTAAGCGAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatatgccaccatttttgtttgcaacacattctctaaatatcagtttgatttagGAAGGATTAAGCGAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGTAGAGCATTATGCCATGAACCTG
            atttttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgcagaaatttcatgcaaccttttcactttcagtctatatgcatctatatgccaccatttttgtttgcaacacattctctaaatatcagtttgatttagGAAGGATTAAGCGAGAAATATGTGGGTGTCCCAGTCATGAATTCTATTTGTAGAGCATTATGCCATGAACCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - agaaatt
- - - - - -tcatgca
- - - - - - - - - - - - - - - - - - - - -gcatcta
- - - - - - - - - - - - - - - - - - - - - - - - - -gccacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caacaca