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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaaaacatttactgcaattgtattgatcacaactgctggatcagtggagttctctcattcatggatgaattaatttgtgttacctccacttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGACTTGGATCACCTTTTGCATGTTCTCGAAAGGAAGGATGGAGAAATGGCA

Basic information

species Vitis vinifera
transcript Vv05s0020g04870.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|30252882|gb|CB970433.1|CB970433
EST:     TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAG                         TCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
genomic: TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAGgtgagttttt ... ttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
EST: gi|110389589|gb|EC954442.1|EC954442
EST:     TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAG                         TCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
genomic: TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAGgtgagttttt ... ttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
EST: gi|161718153|gb|FC065659.1|FC065659
EST:     TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAG                         TCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
genomic: TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAGgtgagttttt ... ttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
EST: gi|161719072|gb|FC065699.1|FC065699
EST:     TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAG                         TCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
genomic: TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAGgtgagttttt ... ttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
EST: gi|37185234|gb|CF604587.1|CF604587
EST:     TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAG                         TCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
genomic: TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAGgtgagttttt ... ttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
EST: gi|30128566|gb|CB913905.1|CB913905
EST:     TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAG                         TCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
genomic: TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAGgtgagttttt ... ttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
EST: gi|161721068|gb|FC069658.1|FC069658
EST:     TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAG                         TCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
genomic: TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAGgtgagttttt ... ttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
EST: gi|161720368|gb|FC070172.1|FC070172
EST:     TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAG                         TCTTGATACTAGACCTGCAGAAATAGAGCAAGATATTGTCACAGAAAATGA
genomic: TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAGgtgagttttt ... ttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
EST: gi|110688125|gb|EE066317.1|EE066317
EST:     TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAG                         TCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
genomic: TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAGgtgagttttt ... ttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
EST: gi|33409206|gb|CF214833.1|CF214833
EST:     TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAG                         TCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA
genomic: TCGCCGGCGGGGACGGCGCGATCGGTGGAGGGAAATGGAGGCGATGTTAGgtgagttttt ... ttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggagttctctcattcatggatgaattaatttgtgttacctccacttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGACTTGGATCACCTTTTGCATGTTCTCGAAAGGAAGGATGGAGAAATGGCA
                       aattaat  putative branch site (score: 3)
                                   ttacctccacttttct  putative PPT
                       aattaatttgtgtta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taaaaacatttactgcaattgtattgatcacaactgctggatcagtggagttctctcattcatggatgaattaatttgtgttacctccacttttctgcagTCTTGATACTAGACCTGCAGAAATAGAGCAGGATATTGTCACAGAAAATGACTTGGATCACCTTTTGCATGTTCTCGAAAGGAAGGATGGAGAAATGGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
-aaaaaca
- - - - - - ctgcaat
- - - - - - - - - - - - - - - caactgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acctcca