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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actccttgaataaaaggtcatgttcgggtttcgtgatataaatttaactcactcttctcaagcacaagcccctacttacagaatgtttatttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACTGGAAATTGCCCGATTGCCAAGTCTTACAGAGCAGTGAGCCATGTGCTTC

Basic information

species Vitis vinifera
transcript Vv02s0033g01160.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|110713215|gb|EE088951.1|EE088951
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|37183440|gb|CF602794.1|CF602794
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|161718564|gb|FC069317.1|FC069317
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|71868835|gb|DT017890.1|DT017890
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|352791235|gb|FQ477520.1|FQ477520
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|349827297|gb|FQ421570.1|FQ421570
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|351025022|gb|FQ433439.1|FQ433439
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|110726338|gb|EE102030.1|EE102030
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|351038309|gb|FQ461001.1|FQ461001
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|352795000|gb|FQ477110.1|FQ477110
EST:     ACCAGAAAAGGAAATCTGAATCATCTAAAAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|110713285|gb|EE089070.1|EE089070
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAGACAATCCTCTTCTAAG                         GGAGGAGACTCACCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|71860480|gb|DT009535.1|DT009535
EST:     ACCAGAGAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATC
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATC
EST: gi|110698939|gb|EE077013.1|EE077013
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|110378504|gb|EC943641.1|EC943641
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|110712750|gb|EE088067.1|EE088067
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|351017064|gb|FQ424491.1|FQ424491
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|30125180|gb|CB910519.1|CB910519
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|110727083|gb|EE103459.1|EE103459
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|110407178|gb|EC972775.1|EC972775
EST:     AACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: AACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|110712841|gb|EE088241.1|EE088241
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|110733060|gb|EE108901.1|EE108901
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|110711968|gb|EE089049.1|EE089049
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|110711233|gb|EE087512.1|EE087512
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|110711111|gb|EE087284.1|EE087284
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGGAAATGAGTGGTTGAAGAC
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGG-AAATGAGTGGTTGAAGAC
EST: gi|110711472|gb|EE087993.1|EE087993
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
EST: gi|294966579|gb|GW837714.1|GW837714
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGGCATGGGAAATGAGT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGT
EST: gi|351026203|gb|FQ428215.1|FQ428215
EST:     ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAG                         GGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT
genomic: ACCAGAAAAGGAAATCTGAATCATCTAACAAGAAACAATCCTCTTCTAAGgtacataacc ... ttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aactcactcttctcaagcacaagcccctacttacagaatgtttatttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACTGGAAATTGCCCGATTGCCAAGTCTTACAGAGCAGTGAGCCATGTGCTTC
                           tacttac  putative branch site (score: 1)
                                      tgtttatttcctttc  putative PPT
                                    aatgtttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
actccttgaataaaaggtcatgttcgggtttcgtgatataaatttaactcactcttctcaagcacaagcccctacttacagaatgtttatttcctttcagGGAGGAGACTCATCCAAACATGAAGCCATGGGAAATGAGTGGTTGAAGACTGGAAATTGCCCGATTGCCAAGTCTTACAGAGCAGTGAGCCATGTGCTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
-ctccttg
- - - - aataaaa
- - - - - - - - - catgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cccctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cagaatg