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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaccataagttctgtagcgtataatggattgttatctttcttctttagaaaaaacaaagaagaaaattttgtattttgatcgacttttttgacttgtagAGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCATAGAGGAGAGCAAGAGGATGAAAATATTAAGCATCATAAAGGCAATGG

Basic information

species Vitis vinifera
transcript Vv01s0011g02070.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|110730534|gb|EE107722.1|EE107722
EST:     ACATAGGAGACTACAAATATGTCAG                         AGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCAT
genomic: ACATAGGAGACTACAAATATGTCAGgttggtattc ... tgacttgtagAGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCAT
EST: gi|294965477|gb|GW839048.1|GW839048
EST:     ACATAGGAGACTACAAATATGTCAG                         AGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCAT
genomic: ACATAGGAGACTACAAATATGTCAGgttggtattc ... tgacttgtagAGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCAT
EST: gi|110415762|gb|EC981694.1|EC981694
EST:     ACATAGGAGACTACAAATATGTCAG                         AGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCAT
genomic: ACATAGGAGACTACAAATATGTCAGgttggtattc ... tgacttgtagAGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCAT
EST: gi|37190640|gb|CF609989.1|CF609989
EST:     ACATAGGAGACTACAAATATGTCAG                         AGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCAT
genomic: ACATAGGAGACTACAAATATGTCAGgttggtattc ... tgacttgtagAGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCAT
EST: gi|161706694|gb|FC055885.1|FC055885
EST:     ACATAGGAGACTACAAATATGTCAG                         AGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCAT
genomic: ACATAGGAGACTACAAATATGTCAGgttggtattc ... tgacttgtagAGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagaaaaaacaaagaagaaaattttgtattttgatcgacttttttgacttgtagAGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCATAGAGGAGAGCAAGAGGATGAAAATATTAAGCATCATAAAGGCAATGG
                                          ttttgac  putative branch site (score: 3)
                                       ctttttt  CT-rich tract
     aaaaacaaagaagaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaccataagttctgtagcgtataatggattgttatctttcttctttagaaaaaacaaagaagaaaattttgtattttgatcgacttttttgacttgtagAGATCCATCTGAGGAGAAAATTGTTGAGAACTTTCTTGAGGAGGAAGGCATAGAGGAGAGCAAGAGGATGAAAATATTAAGCATCATAAAGGCAATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
aaaccat
- - - - - - ctgtagc
- - - - - - - - - - - - -tggattg
- - - - - - - - - - - - - - - - - - - - - - - - gaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa