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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcccaattcctttggattacaacttaaataatagcattgttaatggtagattttcctgaaaaagatcatagtatcatgtagtgatatttactgtggcagGAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGATCAATGGATTCCGGTTTATGCATGGTTAGAGTTATTGGACAAAGATGAGG

Basic information

species Vitis vinifera
transcript Vv17s0000g01390.t01
intron # 13
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|71890592|gb|DT039647.1|DT039647
EST:     CTCCATCACAGCTCTACGAAATCCTTACTCAGAACTCTATGCCAACTCAG                         GAAAAAGATACTAATCCGGGCGATAATCCTGCCCGATTTCAACGTACTGAT
genomic: CTCCATCACAGCTCTATGAAATCCTTACTCAGAACTCTATGCCAACTCAGgtttcccctt ... actgtggcagGAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGAT
EST: gi|110693305|gb|EE069430.1|EE069430
EST:     CTCCATCACAGCTCTACGAAATCCTTACTCAGAACTCTATGCCAACTCAG                         GAAAAAGATACTAATCCGGGCGATAATCCTGCCCGATTTCAACGTACTGAT
genomic: CTCCATCACAGCTCTATGAAATCCTTACTCAGAACTCTATGCCAACTCAGgtttcccctt ... actgtggcagGAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGAT
EST: gi|110715877|gb|EE094430.1|EE094430
EST:     CTCCATCACAGCTCTATGAAATCCTTACTCAGAACTCTATGCCAACTCAG                         GAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGAT
genomic: CTCCATCACAGCTCTATGAAATCCTTACTCAGAACTCTATGCCAACTCAGgtttcccctt ... actgtggcagGAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGAT
EST: gi|110386523|gb|EC951123.1|EC951123
EST:     CTCCATCACAGCTCTACGAAATCCTTACTCAGAACTCTATGCCAACTCAG                         GAAAAAGATACTAATCCGGGCGATAATCCTGCCCGATTTCAACGTACTGAT
genomic: CTCCATCACAGCTCTATGAAATCCTTACTCAGAACTCTATGCCAACTCAGgtttcccctt ... actgtggcagGAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGAT
EST: gi|351027836|gb|FQ448406.1|FQ448406
EST:     CTCCATCACAGCTCTACGAAATCCTTACTCAGAACTCTATGCCAACTCAG                         GAAAAAGATACTAATCCGGGCGATAATCCTGCCCGATTTCAACGTACTGAT
genomic: CTCCATCACAGCTCTATGAAATCCTTACTCAGAACTCTATGCCAACTCAGgtttcccctt ... actgtggcagGAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGAT
EST: gi|37187323|gb|CF606676.1|CF606676
EST:     CTCCATCACAGCTCTATGAAATCCTTACTCAGAACTCTATGCCAACTCAG                         GAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGAT
genomic: CTCCATCACAGCTCTATGAAATCCTTACTCAGAACTCTATGCCAACTCAGgtttcccctt ... actgtggcagGAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGAT
EST: gi|26261768|gb|CA812831.1|CA812831
EST:     CTCCATCACAGCTCTACGAAATCCTTACTCAGAACTCTATGCCAACTCAG                         GAAAAAGATACTAATCCGGGTGATAATCCTGCCCGATTTCAACGTACTGAT
genomic: CTCCATCACAGCTCTATGAAATCCTTACTCAGAACTCTATGCCAACTCAGgtttcccctt ... actgtggcagGAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGAT
EST: gi|110701577|gb|EE079309.1|EE079309
EST:     CTCCATCACAGCTCTACGAAATCCTTACTCAGAACTCTATGCCAACTCAG                         GAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGAT
genomic: CTCCATCACAGCTCTATGAAATCCTTACTCAGAACTCTATGCCAACTCAGgtttcccctt ... actgtggcagGAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtagattttcctgaaaaagatcatagtatcatgtagtgatatttactgtggcagGAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGATCAATGGATTCCGGTTTATGCATGGTTAGAGTTATTGGACAAAGATGAGG
                                     tgatattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atcccaattcctttggattacaacttaaataatagcattgttaatggtagattttcctgaaaaagatcatagtatcatgtagtgatatttactgtggcagGAAAAAGATACTAATCCAGGCGATAATCCTGCCCGATTTCAACGTACTGATCAATGGATTCCGGTTTATGCATGGTTAGAGTTATTGGACAAAGATGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
atcccaa
- - - - - - - - - - - - - aaataat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgta