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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaacatcctttgtgaaattggcttggaacttttaatataaattttgttcagcacatttaaaaattaaatactttttctccatttgttttttattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGTACCTCATGAAGACCAAAGGGATTGTTCCTTAATTAGAGAGTTATGTCTT

Basic information

species Vitis vinifera
transcript Vv01s0011g04970.t01
intron # 9
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|45771618|gb|CN007470.1|CN007470
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|26263024|gb|CA814087.1|CA814087
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|110402864|gb|EC963654.1|EC963654
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|30328488|gb|CD011750.1|CD011750
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|110377427|gb|EC942492.1|EC942492
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTAT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTAT
EST: gi|110360943|gb|EC924388.1|EC924388
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|71876936|gb|DT025991.1|DT025991
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|33402110|gb|CF207737.1|CF207737
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|110404868|gb|EC970393.1|EC970393
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTACGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|30322175|gb|CD005437.1|CD005437
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|352774046|gb|FQ474569.1|FQ474569
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|110700562|gb|EE078742.1|EE078742
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCTT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|46918806|gb|CN548135.1|CN548135
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|30328811|gb|CD012073.1|CD012073
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
EST: gi|27579805|gb|CB002500.1|CB002500
EST:     CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATG                         GATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT
genomic: CATGGATTCCAGTGCAAGGGTGACAGTAATCAAGGAGATGAAGAAAAATGgtatgtgact ... tattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcagcacatttaaaaattaaatactttttctccatttgttttttattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGTACCTCATGAAGACCAAAGGGATTGTTCCTTAATTAGAGAGTTATGTCTT
                       tactttttctccattt  CT-rich tract
         atttaaaaattaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaacatcctttgtgaaattggcttggaacttttaatataaattttgttcagcacatttaaaaattaaatactttttctccatttgttttttattttgcagGATTTAGCTTATGGATCATTATCTTCATCATCATAGTTGCAATTGCTGCGTACCTCATGAAGACCAAAGGGATTGTTCCTTAATTAGAGAGTTATGTCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- -catcctt
- - - - - - - - - tggcttg
- - - - - - - - - - - - - - - - -aatataaa
- - - - - - - - - - - - - - - - - - - - - - - ttcagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaattaa