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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTGGCCGTATGCCAGCCCACTTTCTCTAGAAATTCTTCCACAGCCTCCGTCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccacattcctctttcttctacttgtccatcatcgtctttttctttaacttgtactagttttccttgtacactggtgtgattccgaggacttctt...

Basic information

species Vitis vinifera
transcript Vv00s0391g00040.t01
intron # 1
splice site 5'
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|349820731|gb|FQ408560.1|FQ408560
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCCAGAAAACCCAGAA-C-                         C-GTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|34543483|gb|CF511715.1|CF511715
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCG                         CAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|349811333|gb|FQ407559.1|FQ407559
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCCAGAAGACCCAGAACCG                         CAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|351014771|gb|FQ437971.1|FQ437971
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAA-C-                         C-GTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|71858047|gb|DT007102.1|DT007102
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAA-C-                         C-GTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|110713229|gb|EE088965.1|EE088965
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCG                         CAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|110377975|gb|EC943081.1|EC943081
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCG                         CAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|352790143|gb|FQ481342.1|FQ481342
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCG                         CAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|349808639|gb|FQ405783.1|FQ405783
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAA-C-                         C-GTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|349816475|gb|FQ403850.1|FQ403850
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAA-C-                         C-GTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|349820579|gb|FQ404074.1|FQ404074
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCG                         CAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|351048281|gb|FQ442251.1|FQ442251
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAA-C-                         C-GTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|349819347|gb|FQ412241.1|FQ412241
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAA-C-                         C-GTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
EST: gi|351037757|gb|FQ464198.1|FQ464198
EST:     TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAA-C-                         C-GTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG
genomic: TCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccac ... tctgttatagCAGTAAAGAAGGAAGATTAGATGGAGGAAGGATGCGAGTTCCGGAGCTGGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGTGGCCGTATGCCAGCCCACTTTCTCTAGAAATTCTTCCACAGCCTCCGTCTCAGCTGGATTCACCGGATATTTGCAGATCCAAGAAGACCCAGAACCGgtattcccacattcctctttcttctacttgtccatcatcgtctttttctttaacttgtactagttttccttgtacactggtgtgattccgaggacttctt

- - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG