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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgcccccttgcttcttaccttatacgttctcataaattgtggtttactttctggagaattggccttttatattttctttttcattgttatcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTGTACCAAAAAGGACTGGCACTGGCAGAGATTGAATCTTTGAAA

Basic information

species Vitis vinifera
transcript Vv16s0050g00490.t01
intron # 31
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|349809590|gb|FQ414480.1|FQ414480
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349817461|gb|FQ407251.1|FQ407251
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|351039026|gb|FQ457701.1|FQ457701
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|351056447|gb|FQ454308.1|FQ454308
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAAGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349811562|gb|FQ409558.1|FQ409558
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|351044162|gb|FQ452835.1|FQ452835
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349811041|gb|FQ406029.1|FQ406029
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349818352|gb|FQ409127.1|FQ409127
EST:     TAGCAAAATATTTT-CACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|351042671|gb|FQ451086.1|FQ451086
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349824505|gb|FQ413172.1|FQ413172
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349824556|gb|FQ413223.1|FQ413223
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349814862|gb|FQ410085.1|FQ410085
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349813697|gb|FQ413931.1|FQ413931
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGGG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|351034908|gb|FQ458265.1|FQ458265
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGAAGGAGAC
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGAC
EST: gi|349811081|gb|FQ406069.1|FQ406069
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|351035476|gb|FQ463321.1|FQ463321
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAAGAAGCAGAG                         AAAATGAAAAAG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAG
EST: gi|351045622|gb|FQ440807.1|FQ440807
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349822506|gb|FQ412770.1|FQ412770
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349810172|gb|FQ401618.1|FQ401618
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|351038517|gb|FQ464383.1|FQ464383
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCCGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349814599|gb|FQ399239.1|FQ399239
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349819862|gb|FQ404534.1|FQ404534
EST:     TAGCAAAATATTTT-CACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349807376|gb|FQ401368.1|FQ401368
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349814881|gb|FQ410104.1|FQ410104
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|352795665|gb|FQ480253.1|FQ480253
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349812607|gb|FQ407226.1|FQ407226
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGGG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|351056626|gb|FQ442454.1|FQ442454
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349815086|gb|FQ410309.1|FQ410309
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|351047462|gb|FQ454954.1|FQ454954
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|351026108|gb|FQ428120.1|FQ428120
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|110359847|gb|EC922069.1|EC922069
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|71875416|gb|DT024471.1|DT024471
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|351051717|gb|FQ449531.1|FQ449531
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGGCCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|349816321|gb|FQ399431.1|FQ399431
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGACGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
EST: gi|351053468|gb|FQ459215.1|FQ459215
EST:     TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAG                         AAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG
genomic: TAGCAAAATATTTTTCACTCAAAAGTGATCCAGAAGATGAGGAGGCAGAGgtgcgttttg ... tcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactttctggagaattggccttttatattttctttttcattgttatcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTGTACCAAAAAGGACTGGCACTGGCAGAGATTGAATCTTTGAAA
                    ttttatattttctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgcccccttgcttcttaccttatacgttctcataaattgtggtttactttctggagaattggccttttatattttctttttcattgttatcattaatagAAAATGAAAAAGAAGATGGAGACGACTCGGGACCAGTTAGCTGAGGCACTGTACCAAAAAGGACTGGCACTGGCAGAGATTGAATCTTTGAAA

- -ccccctt
- - - - - - - - - - - - - - - - - - -ttgtggt
- - - - - - - - - - - - - - - - - - - - - - - - tttctgg