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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaaatttatttcatgttaatgctcttatttaaaatttatttcatgttaatgctcttatttaataagattttctgataaacttattgttaaacctttgttctgaattctgtagAAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGAGGCTGATTACATTAGAATAGACTGGCCTGCTCGTCAGCATCCATGGTCT

Basic information

species Vitis vinifera
transcript Vv17s0000g09280.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|110727900|gb|EE105187.1|EE105187
EST:     GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGT                         AAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
genomic: GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGTgtaagaaatt ... aattctgtagAAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
EST: gi|110376807|gb|EC941885.1|EC941885
EST:     GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGT                         AAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
genomic: GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGTgtaagaaatt ... aattctgtagAAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
EST: gi|110699168|gb|EE075929.1|EE075929
EST:     GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGT                         AAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
genomic: GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGTgtaagaaatt ... aattctgtagAAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
EST: gi|110377542|gb|EC942615.1|EC942615
EST:     GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGT                         AAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
genomic: GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGTgtaagaaatt ... aattctgtagAAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
EST: gi|110724176|gb|EE099776.1|EE099776
EST:     GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGT                         AAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
genomic: GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGTgtaagaaatt ... aattctgtagAAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
EST: gi|161720484|gb|FC070596.1|FC070596
EST:     GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGT                         AAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
genomic: GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGTgtaagaaatt ... aattctgtagAAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
EST: gi|110382256|gb|EC938988.1|EC938988
EST:     GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGT                         AAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
genomic: GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGTgtaagaaatt ... aattctgtagAAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
EST: gi|30125971|gb|CB911310.1|CB911310
EST:     GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGT                         AAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
genomic: GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGTgtaagaaatt ... aattctgtagAAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
EST: gi|110702298|gb|EE080854.1|EE080854
EST:     GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGT                         AAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA
genomic: GATGGTTGTGGGGTTCATCCAATAACTGGACCTCGGTTCAAGTCGAAAGTgtaagaaatt ... aattctgtagAAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaataagattttctgataaacttattgttaaacctttgttctgaattctgtagAAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGAGGCTGATTACATTAGAATAGACTGGCCTGCTCGTCAGCATCCATGGTCT
            ttctgat  putative branch site (score: 3)
                 ataaacttattgttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaaatttatttcatgttaatgctcttatttaaaatttatttcatgttaatgctcttatttaataagattttctgataaacttattgttaaacctttgttctgaattctgtagAAAAGAAGATTATGACCTTTGCAGCATCTGCTTCTCTGATATGGGTAATGAGGCTGATTACATTAGAATAGACTGGCCTGCTCGTCAGCATCCATGGTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT