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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaatacaataatagaagattcaattagttaaccttttccctctgtattaaagctgggggatttgatgaaacacacccttttgtttatgattttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCGCTCCAGCACCAACACACCCAGACCACAATGCACATGACCAACTCAGGCG

Basic information

species Vitis vinifera
transcript Vv07s0031g01940.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|71875131|gb|DT024186.1|DT024186
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|110687382|gb|EE064745.1|EE064745
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|110421482|gb|EC987779.1|EC987779
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|77586419|gb|DV222334.1|DV222334
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|351048139|gb|FQ442109.1|FQ442109
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|18458484|gb|BM436762.1|BM436762
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|110403773|gb|EC969525.1|EC969525
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|351015120|gb|FQ444409.1|FQ444409
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|30252551|gb|CB970102.1|CB970102
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|349824330|gb|FQ417677.1|FQ417677
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|110688515|gb|EE067155.1|EE067155
EST:     CAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: CAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|352785333|gb|FQ477547.1|FQ477547
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|351034323|gb|FQ448120.1|FQ448120
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|110416599|gb|EC982590.1|EC982590
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|32459121|gb|CD800295.1|CD800295
EST:     GAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: GAAGAGGGATCAAGAGTGACAACCGTAGATA-T-TGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|22012483|gb|BQ797517.1|BQ797517
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|110409573|gb|EC975239.1|EC975239
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|110731365|gb|EE105715.1|EE105715
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|110732708|gb|EE108241.1|EE108241
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|351032338|gb|FQ461591.1|FQ461591
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|110365888|gb|EC929413.1|EC929413
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|32458495|gb|CD799669.1|CD799669
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTTGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|71858872|gb|DT007927.1|DT007927
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|351032189|gb|FQ460446.1|FQ460446
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAACTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|110731616|gb|EE106183.1|EE106183
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|110730557|gb|EE107769.1|EE107769
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|351028249|gb|FQ426150.1|FQ426150
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|349816437|gb|FQ403812.1|FQ403812
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTTGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|110723647|gb|EE101197.1|EE101197
EST:     AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: AGGAAGAGGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|34545905|gb|CF514137.1|CF514137
EST:     CCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: CCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
EST: gi|34544914|gb|CF513146.1|CF513146
EST:     GGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAG                         AATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG
genomic: GGGATCAAGAGTGACAACCGTAGATATTGTGGCATACCTGCAGgtatcttaac ... ttttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattaaagctgggggatttgatgaaacacacccttttgtttatgattttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCGCTCCAGCACCAACACACCCAGACCACAATGCACATGACCAACTCAGGCG
               atttgat  putative branch site (score: 5)
                                             ttttttgt  putative PPT
                                 ttttgtttatgatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaaatacaataatagaagattcaattagttaaccttttccctctgtattaaagctgggggatttgatgaaacacacccttttgtttatgattttttgtagAATGAGCTCGAGTACGGTGTGGAGGATGCGCCAGTGTCCCCCCGGCTGCCGCTCCAGCACCAACACACCCAGACCACAATGCACATGACCAACTCAGGCG

gaaatac
- - - - - aatagaa
- - - - - - - - - - - - - - - - - - ttccctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gggggat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacac