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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaatcattttgcacctgcttgatattcctggagatgatagattattggagtggttaccaattaaccgaagccactgatgtgttcattttgtaatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTTTGCACTTGAGGGAGAAAATGGTACATCAGAATCTGGAAGTGCAAACCCT

Basic information

species Vitis vinifera
transcript Vv18s0001g05480.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|351042370|gb|FQ442837.1|FQ442837
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|71871397|gb|DT020452.1|DT020452
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351055304|gb|FQ441902.1|FQ441902
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351025084|gb|FQ433501.1|FQ433501
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|349808206|gb|FQ403393.1|FQ403393
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|161715954|gb|FC065517.1|FC065517
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351052161|gb|FQ450731.1|FQ450731
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351033213|gb|FQ461985.1|FQ461985
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|352795622|gb|FQ480210.1|FQ480210
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351034181|gb|FQ463115.1|FQ463115
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351016411|gb|FQ423838.1|FQ423838
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|161717140|gb|FC066563.1|FC066563
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTCTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351056465|gb|FQ454326.1|FQ454326
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|110703051|gb|EE079558.1|EE079558
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|161706465|gb|FC057590.1|FC057590
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGT
EST: gi|110429233|gb|EC995723.1|EC995723
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351022504|gb|FQ447026.1|FQ447026
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|349824984|gb|FQ406556.1|FQ406556
EST:     GTGTTTGGAGGACCGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351022653|gb|FQ428562.1|FQ428562
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAGACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|110700659|gb|EE077505.1|EE077505
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351055621|gb|FQ452086.1|FQ452086
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|71867999|gb|DT017054.1|DT017054
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351038942|gb|FQ457617.1|FQ457617
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351034791|gb|FQ458148.1|FQ458148
EST:     GTGTTTGGAGGACAGGTGGCTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351036728|gb|FQ457441.1|FQ457441
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
EST: gi|351052900|gb|FQ453887.1|FQ453887
EST:     GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAG                         GAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT
genomic: GTGTTTGGAGGACAGGTGACTGATGAAGAGGCGGAGGCTTTGTCGAAAAGgtgagatcta ... taatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggagtggttaccaattaaccgaagccactgatgtgttcattttgtaatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTTTGCACTTGAGGGAGAAAATGGTACATCAGAATCTGGAAGTGCAAACCCT
                                       attttgtaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaatcattttgcacctgcttgatattcctggagatgatagattattggagtggttaccaattaaccgaagccactgatgtgttcattttgtaatgttcagGAAACCTTGTTCAGGGTATAAATTAAAGGAGATTACTGGTAGTGGTATTTTTGCACTTGAGGGAGAAAATGGTACATCAGAATCTGGAAGTGCAAACCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - ttttgca
- - - - - - -cctgctt
- - - - - - - - - - - - ttcctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaccgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gccactg