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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttcgttttcgattgattttgttttttattttgatttgttttttatttttttattttttaaaaatggattgttttgatttaaagATGGGTGATCGAAGTCAACGGAGCTCCGGGAACTCTGTACGCCAACGAATCGTACCAGCTTCAAGTGGATTTTCCCGAGAATTACCCCATGGAAGCACCG

Basic information

species Vitis vinifera
transcript Vv18s0001g13180.t01
intron # 2
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|32248401|gb|CD714220.1|CD714220
EST:     GTCAACCCTCCTGCGGGATTCAAGCATAAAGTCACAGATAATCTACAGAG                         ATGGGTGATCGAAGTCAACGGAGCTCCGGGAACTCTGTACGCCAACGAATC
genomic: GTCAACCCTCCTGCGGGATTCAAGCATAAAGTCACAGATAATCTACAGAGgtttcgtttt ... tgatttaaagATGGGTGATCGAAGTCAACGGAGCTCCGGGAACTCTGTACGCCAACGAATC
EST: gi|71874807|gb|DT023862.1|DT023862
EST:     GTCAACCCTCCTGCGGGATTCAAGCATAAAGTCACAGATAATCTACAGAG                         ATGGGTGATCGAAGTCAACGGAGCTCCGGGAACTCTGTACGCCAACGAATC
genomic: GTCAACCCTCCTGCGGGATTCAAGCATAAAGTCACAGATAATCTACAGAGgtttcgtttt ... tgatttaaagATGGGTGATCGAAGTCAACGGAGCTCCGGGAACTCTGTACGCCAACGAATC
EST: gi|32267803|gb|CD716962.1|CD716962
EST:     GTCAACCCTCCTGCGGGATTCAAGCATAAAGTCACAGATAATCTACAGAG                         ATGGGTGATCGAAGTCAACGGAGCTCCGGGAACTCTGTACGCCAACGAATC
genomic: GTCAACCCTCCTGCGGGATTCAAGCATAAAGTCACAGATAATCTACAGAGgtttcgtttt ... tgatttaaagATGGGTGATCGAAGTCAACGGAGCTCCGGGAACTCTGTACGCCAACGAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgatttgttttttatttttttattttttaaaaatggattgttttgatttaaagATGGGTGATCGAAGTCAACGGAGCTCCGGGAACTCTGTACGCCAACGAATCGTACCAGCTTCAAGTGGATTTTCCCGAGAATTACCCCATGGAAGCACCG
                                          ttttgat  putative branch site (score: 4)
                                       ttgtttt  CT-rich tract
     tttgttttttattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttcgttttcgattgattttgttttttattttgatttgttttttatttttttattttttaaaaatggattgttttgatttaaagATGGGTGATCGAAGTCAACGGAGCTCCGGGAACTCTGTACGCCAACGAATCGTACCAGCTTCAAGTGGATTTTCCCGAGAATTACCCCATGGAAGCACCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG