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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tacttcttcttattttgttgttatttctatgataaatcttgtgtgtcattatgtcatgtggatgtatttcagcttttcatgactcctaattcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTGAATGAAAAACCTTTCAACCCTGAAATGGTTGCAACCTTAATCCAGTTTA

Basic information

species Vitis vinifera
transcript Vv10s0071g01010.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|349812519|gb|FQ407138.1|FQ407138
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|349820205|gb|FQ406881.1|FQ406881
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|122691664|gb|EC981912.1|EC981912
EST:     AGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: AGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351032690|gb|FQ462404.1|FQ462404
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351032891|gb|FQ461780.1|FQ461780
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351054350|gb|FQ450433.1|FQ450433
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351039559|gb|FQ461426.1|FQ461426
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351057261|gb|FQ450968.1|FQ450968
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351032201|gb|FQ460458.1|FQ460458
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|349828246|gb|FQ416199.1|FQ416199
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351016102|gb|FQ432057.1|FQ432057
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351037007|gb|FQ459529.1|FQ459529
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|349817008|gb|FQ399755.1|FQ399755
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCCGGGAGGAAATTTTCCCCCAGTATATTC
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTC
EST: gi|351043992|gb|FQ431423.1|FQ431423
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351054450|gb|FQ450533.1|FQ450533
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351032987|gb|FQ461876.1|FQ461876
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351052517|gb|FQ456365.1|FQ456365
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351042636|gb|FQ451051.1|FQ451051
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351054188|gb|FQ450270.1|FQ450270
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|349813226|gb|FQ411466.1|FQ411466
EST:     ATGGAAGAGATGAAGAACTGCCATCCGCTCTTAATGGACTTATGCCAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATAT
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATAT
EST: gi|352798379|gb|FQ480404.1|FQ480404
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTCCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351047688|gb|FQ455085.1|FQ455085
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|351054230|gb|FQ450312.1|FQ450312
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
EST: gi|349819032|gb|FQ411727.1|FQ411727
EST:     ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAG                         ACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG
genomic: ATGGAAGAGATGAAGAACTGCAATCAGCTCTTAATGGACTTATGCAAAAGgtgaggcaca ... tcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattatgtcatgtggatgtatttcagcttttcatgactcctaattcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTGAATGAAAAACCTTTCAACCCTGAAATGGTTGCAACCTTAATCCAGTTTA
                                      tcctaat  putative branch site (score: 2)
                                         taattcatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tacttcttcttattttgttgttatttctatgataaatcttgtgtgtcattatgtcatgtggatgtatttcagcttttcatgactcctaattcatatccagACAGGTTTCTCCAGGGAGGAAATTTTCCGCAAGTATATTCGATATGCATTGAATGAAAAACCTTTCAACCCTGAAATGGTTGCAACCTTAATCCAGTTTA

- cttcttc
- - - - - - - - - - - - - - - - - - - -tgtgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - catgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcctaa