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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccctccctttctctgtttattctattctatctaatcatttcacaaaccctagacttctttgttatgatttatatcttttctatgaatttgatgatgatgacgatgattgtatgattggcagCACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAATACCCTATCAAATACGAAGCCGAGCGTCTCCCTCCTCCCCTTGTCGCCG

Basic information

species Vitis vinifera
transcript Vv04s0023g02750.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|352768257|gb|FQ469432.1|FQ469432
EST:     ATTTGGCAATTCTCATGCTCTCAGCTTTCGCCATCTTCTTCTCTCTTCAG                         CACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAA
genomic: ATTTGGCAATTCTCATGCTCTCAGCTTTCGCCATCTTCTTCTCTCTTCAGgtccctccct ... tgattggcagCACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAA
EST: gi|161719161|gb|FC069357.1|FC069357
EST:     ATTTGGCAATTCTCATGCTCTCAGCTTTCGCCATCTTCTTCTCTCTTCAG                         CACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAA
genomic: ATTTGGCAATTCTCATGCTCTCAGCTTTCGCCATCTTCTTCTCTCTTCAGgtccctccct ... tgattggcagCACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAA
EST: gi|352769223|gb|FQ471372.1|FQ471372
EST:     ATTTGGCAATTCTCATGCTCTCAGCTTTCGCCATCTTCTTCTCTCTTCAG                         CACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAA
genomic: ATTTGGCAATTCTCATGCTCTCAGCTTTCGCCATCTTCTTCTCTCTTCAGgtccctccct ... tgattggcagCACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAA
EST: gi|161712184|gb|FC061556.1|FC061556
EST:     ATTTGGCAATTCTCATGCTCTCAGCTTTCGCCATCTTCTTCTCTCTTCAG                         CACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAA
genomic: ATTTGGCAATTCTCATGCTCTCAGCTTTCGCCATCTTCTTCTCTCTTCAGgtccctccct ... tgattggcagCACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAA
EST: gi|352773091|gb|FQ470706.1|FQ470706
EST:     ATTTGGCAATTCTCATGCTCTCAGCTTTCGCCATCTTCTTCTCTCTTCAG                         CACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAA
genomic: ATTTGGCAATTCTCATGCTCTCAGCTTTCGCCATCTTCTTCTCTCTTCAGgtccctccct ... tgattggcagCACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAA
EST: gi|352767961|gb|FQ466170.1|FQ466170
EST:     GGCAATTCTCATGCTCTCAGCTTTCGCCATCTTCTTCTCTCTTCAG                         CACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAA
genomic: GGCAATTCTCATGCTCTCAGCTTTCGCCATCTTCTTCTCTCTTCAGgtccctccct ... tgattggcagCACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttatatcttttctatgaatttgatgatgatgacgatgattgtatgattggcagCACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAATACCCTATCAAATACGAAGCCGAGCGTCTCCCTCCTCCCCTTGTCGCCG
                   atttgat  putative branch site (score: 5)
         ttttctatgaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtccctccctttctctgtttattctattctatctaatcatttcacaaaccctagacttctttgttatgatttatatcttttctatgaatttgatgatgatgacgatgattgtatgattggcagCACGAGGGTGACTTTTCCTTTAAAGAGGCGTGGTTCCATCTTTCCGACGAATACCCTATCAAATACGAAGCCGAGCGTCTCCCTCCTCCCCTTGTCGCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC