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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttacatggtgcctcattcaattgcctgtatatgccatgccattctatgaatattccttttccttgctcatttgactgcaagtttttctttttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCAAGGTGCGAGAAGAAACTGTGAATTTGCTTGGAAAATCTGATTTGTACTT

Basic information

species Vitis vinifera
transcript Vv16s0022g01840.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|351014739|gb|FQ437939.1|FQ437939
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|352791180|gb|FQ480052.1|FQ480052
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|349815436|gb|FQ400591.1|FQ400591
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|349817464|gb|FQ407254.1|FQ407254
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTCTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|351054833|gb|FQ462863.1|FQ462863
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|351025925|gb|FQ427937.1|FQ427937
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|351016364|gb|FQ446224.1|FQ446224
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|349829904|gb|FQ422217.1|FQ422217
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|110702519|gb|EE081323.1|EE081323
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|349826684|gb|FQ418775.1|FQ418775
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|351023024|gb|FQ430899.1|FQ430899
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|351014737|gb|FQ437937.1|FQ437937
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTCGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|351015407|gb|FQ447236.1|FQ447236
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|30305768|gb|CB982562.1|CB982562
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAA
EST: gi|110375678|gb|EC940688.1|EC940688
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|351017746|gb|FQ436099.1|FQ436099
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACCTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|110698596|gb|EE076278.1|EE076278
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|349832857|gb|FQ422979.1|FQ422979
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|351028263|gb|FQ426164.1|FQ426164
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|351019029|gb|FQ426528.1|FQ426528
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|349830894|gb|FQ418178.1|FQ418178
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|351040197|gb|FQ425283.1|FQ425283
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|351029272|gb|FQ436666.1|FQ436666
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|71857934|gb|DT006989.1|DT006989
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|71867433|gb|DT016488.1|DT016488
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
EST: gi|351031438|gb|FQ446641.1|FQ446641
EST:     GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGG                         GTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA
genomic: GTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATCTTGGTTGAGGgttagtaatt ... tttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgaatattccttttccttgctcatttgactgcaagtttttctttttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCAAGGTGCGAGAAGAAACTGTGAATTTGCTTGGAAAATCTGATTTGTACTT
                        atttgac  putative branch site (score: 4)
                                     tttttctttttcttgc  putative PPT
                                  aagtttttcttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttacatggtgcctcattcaattgcctgtatatgccatgccattctatgaatattccttttccttgctcatttgactgcaagtttttctttttcttgcagGTACTAGCCTAGCTGCAAAATTTTTGAGGGCAAATGGAATCACACTTTTCAAGGTGCGAGAAGAAACTGTGAATTTGCTTGGAAAATCTGATTTGTACTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- tacatgg
- - - - -tgcctca
- - - - - - - - - - - tgcctgt
- - - - - - - - - - - - - - - - - ccatgcc
- - - - - - - - - - - - - - - - - - - - - - ctatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gactgca