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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagtgcttttgcttattcctttttctggccataatttatcacatgaaaacactttgaccttgtggcctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTCACATTAGCAGGGTTATCTGTGAAGACTTACCGCTATTATGATCCAGCAA

Basic information

species Vitis vinifera
transcript Vv04s0008g03770.t01
intron # 5
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|161712214|gb|FC061588.1|FC061588
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|161714368|gb|FC063209.1|FC063209
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|349822896|gb|FQ398283.1|FQ398283
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGCTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|71860471|gb|DT009526.1|DT009526
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|161716869|gb|FC068115.1|FC068115
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|349825792|gb|FQ423087.1|FQ423087
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|161718975|gb|FC067020.1|FC067020
EST:     CCGGCTCATTGACAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTT-C
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|351029008|gb|FQ435009.1|FQ435009
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|110698493|gb|EE076055.1|EE076055
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|110368860|gb|EC932986.1|EC932986
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|110711178|gb|EE087421.1|EE087421
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|71858885|gb|DT007940.1|DT007940
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|33402572|gb|CF208199.1|CF208199
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|349830105|gb|FQ420365.1|FQ420365
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|29783169|gb|CB349167.2|CB349167
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACTAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
EST: gi|30306042|gb|CB982836.1|CB982836
EST:     CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAA                         CGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC
genomic: CCGGCTCATTGAGAGTTGGAGCTGAGTTTTTGGCGAGACATCATCACCAAgtaaagtgct ... cctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctggccataatttatcacatgaaaacactttgaccttgtggcctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTCACATTAGCAGGGTTATCTGTGAAGACTTACCGCTATTATGATCCAGCAA
                               ctttgac  putative branch site (score: 4)
          ataatttatcacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagtgcttttgcttattcctttttctggccataatttatcacatgaaaacactttgaccttgtggcctattgcagCGAACCATATACATTCCACAACCAACATGGGGAAACCATGGAAAAATTTTCACATTAGCAGGGTTATCTGTGAAGACTTACCGCTATTATGATCCAGCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA