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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcgcttctttagtgcctcttttgcaatatacattttttcttactgataaaaaaaaaataaaaaatgaactgttctttgacattctttaacctgtctgtagGTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGTAATTCATGGTTTTGTACTGGCTCTGCAGATCGCACAATTAAG

Basic information

species Vitis vinifera
transcript Vv05s0077g02310.t01
intron # 6
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|77578499|gb|DV218043.1|DV218043
EST:     CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGG                         GTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
genomic: CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGGgtaagagttt ... ctgtctgtagGTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
EST: gi|71863616|gb|DT012671.1|DT012671
EST:     CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGG                         GTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
genomic: CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGGgtaagagttt ... ctgtctgtagGTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
EST: gi|30125771|gb|CB911110.1|CB911110
EST:     CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGG                         GTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
genomic: CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGGgtaagagttt ... ctgtctgtagGTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
EST: gi|352785394|gb|FQ477608.1|FQ477608
EST:     CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGG                         GTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
genomic: CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGGgtaagagttt ... ctgtctgtagGTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
EST: gi|110688178|gb|EE066434.1|EE066434
EST:     CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGG                         GTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
genomic: CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGGgtaagagttt ... ctgtctgtagGTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
EST: gi|22010813|gb|BQ795847.1|BQ795847
EST:     CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGG                         GTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
genomic: CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGGgtaagagttt ... ctgtctgtagGTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
EST: gi|71858909|gb|DT007964.1|DT007964
EST:     CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGG                         GTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
genomic: CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGGgtaagagttt ... ctgtctgtagGTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
EST: gi|110728878|gb|EE104832.1|EE104832
EST:     CAAGCAAATGGCCACGTCCTGTATGGCATCCTCCATGGAGAAATTACAGG                         GTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
genomic: CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGGgtaagagttt ... ctgtctgtagGTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT
EST: gi|110711785|gb|EE088658.1|EE088658
EST:     CAAGCAAATGGCCACGTCCTGTATGGCATCCTCCATGGAGAAATTACAGG                         GTCATTAGTGGCCATTTANGATGGGTGAGATCTATTGCATTCGATCCAAGT
genomic: CAAGCAAATGGCCACGTCCTGTATGGCGTCCTCCATGGAGAAATTACAGGgtaagagttt ... ctgtctgtagGTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaaaaaaaaataaaaaatgaactgttctttgacattctttaacctgtctgtagGTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGTAATTCATGGTTTTGTACTGGCTCTGCAGATCGCACAATTAAG
                                            cctgtct  CT-rich tract
     aaaaaaataaaaaatg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcgcttctttagtgcctcttttgcaatatacattttttcttactgataaaaaaaaaataaaaaatgaactgttctttgacattctttaacctgtctgtagGTCATTAGTGGCCATTTAGGATGGGTGAGATCTATTGCATTCGATCCAAGTAATTCATGGTTTTGTACTGGCTCTGCAGATCGCACAATTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - tgcctct
- - - - - - - - - - - - - - - - - - - cttactg
- - - - - - - - - - - - - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gacattc