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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtttatcatatttttattctttctttgtactttttcttggaatcaaacatagcagtgatgtttttagcattttgtaatatctctttttctcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTGCTATCTAAACCTGCAAAGGGTGTTGAGAAATCCTTTTCTCTTCTCTCCC

Basic information

species Vitis vinifera
transcript Vv08s0056g01570.t01
intron # 3
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|161708807|gb|FC060892.1|FC060892
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|71863484|gb|DT012539.1|DT012539
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|33407379|gb|CF213006.1|CF213006
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|71862555|gb|DT011610.1|DT011610
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTT
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTT
EST: gi|352768554|gb|FQ467510.1|FQ467510
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTACACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|71863867|gb|DT012922.1|DT012922
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|352773395|gb|FQ472177.1|FQ472177
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTAG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|37184183|gb|CF603537.1|CF603537
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|33408747|gb|CF214374.1|CF214374
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|71858630|gb|DT007685.1|DT007685
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|110719521|gb|EE094722.1|EE094722
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|352773499|gb|FQ472281.1|FQ472281
EST:     AATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
genomic: AATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|352794891|gb|FQ477001.1|FQ477001
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|33410520|gb|CF216147.1|CF216147
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|33410263|gb|CF215890.1|CF215890
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|110723015|gb|EE099845.1|EE099845
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|110702737|gb|EE078971.1|EE078971
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAAGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|161714928|gb|FC062706.1|FC062706
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|161716722|gb|FC069156.1|FC069156
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|161715510|gb|FC069060.1|FC069060
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|71861007|gb|DT010062.1|DT010062
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTC
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTC
EST: gi|110687789|gb|EE065597.1|EE065597
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|33406771|gb|CF212398.1|CF212398
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|156735832|gb|EV239953.1|EV239953
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|110688260|gb|EE066612.1|EE066612
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|71860329|gb|DT009384.1|DT009384
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTC
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTC
EST: gi|71855557|gb|DT004612.1|DT004612
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|71863574|gb|DT012629.1|DT012629
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG
EST: gi|33409880|gb|CF215507.1|CF215507
EST:     TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCG                         CTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCTTACTTGTTG
genomic: TTAGCTATGCCTCTCACAAGGCAGTGAAAGAATACCAGGAGGCTAAGGCGgtatgtgctc ... tcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacatagcagtgatgtttttagcattttgtaatatctctttttctcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTGCTATCTAAACCTGCAAAGGGTGTTGAGAAATCCTTTTCTCTTCTCTCCC
                                 tatctctttttctccc  CT-rich tract
                        attttgtaatatct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtttatcatatttttattctttctttgtactttttcttggaatcaaacatagcagtgatgtttttagcattttgtaatatctctttttctcccatgcagCTTGGAGTAGACACAGTTCCGGTTTTTGTTGGTCCTGTCTCCTACTTGTTGCTATCTAAACCTGCAAAGGGTGTTGAGAAATCCTTTTCTCTTCTCTCCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - ttcttgg
- - - - - - - - - - - - - - - - - - - - -aatcaaa
- - - - - - - - - - - - - - - - - - - - - - - - catagca