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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgattctagctatggaattatgcatctttctctttattttgctttctgattttccccctttcttactttgtgaatgttgtagATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCCAGAATG

Basic information

species Vitis vinifera
transcript Vv18s0001g00480.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|352769329|gb|FQ471478.1|FQ471478
EST:     TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCG                         ATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
genomic: TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCGgtatgttgat ... aatgttgtagATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
EST: gi|71880141|gb|DT029196.1|DT029196
EST:     TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCG                         ATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
genomic: TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCGgtatgttgat ... aatgttgtagATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
EST: gi|352782455|gb|FQ470358.1|FQ470358
EST:     TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCG                         ATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
genomic: TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCGgtatgttgat ... aatgttgtagATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
EST: gi|161714038|gb|FC064113.1|FC064113
EST:     TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCG                         ATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
genomic: TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCGgtatgttgat ... aatgttgtagATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
EST: gi|352765070|gb|FQ473718.1|FQ473718
EST:     TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCG                         ATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
genomic: TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCGgtatgttgat ... aatgttgtagATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
EST: gi|352773730|gb|FQ472512.1|FQ472512
EST:     TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCG                         ATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
genomic: TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCGgtatgttgat ... aatgttgtagATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
EST: gi|352777695|gb|FQ466748.1|FQ466748
EST:     TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCG                         ATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
genomic: TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCGgtatgttgat ... aatgttgtagATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
EST: gi|352781730|gb|FQ469028.1|FQ469028
EST:     TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCG                         ATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
genomic: TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCGgtatgttgat ... aatgttgtagATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
EST: gi|352777783|gb|FQ466836.1|FQ466836
EST:     TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCG                         ATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC
genomic: TTTGAGCATCTAGGTTCCAGCGAACTTCACTTTCATTCTCTCTCATGGCGgtatgttgat ... aatgttgtagATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctctttattttgctttctgattttccccctttcttactttgtgaatgttgtagATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCCAGAATG
                                ttcttac  putative branch site (score: 2)
     tttatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttgattctagctatggaattatgcatctttctctttattttgctttctgattttccccctttcttactttgtgaatgttgtagATCGACAATCTTTTTAAAGATGATGCGACTGAAGAAAAGGGGGAGAGAGCCAGAATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA