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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTGGTTATGTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaaagattcttttatatagattcaggatatttgtaaattttgaaactctttgaggggcatcatgagaaacgctaatgtgaatagtttgatggaatatgcag

Basic information

species Vitis vinifera
transcript Vv06s0004g00060.t01
intron # 7
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|32269728|gb|CD718887.1|CD718887
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|71878566|gb|DT027621.1|DT027621
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|45771052|gb|CN006904.1|CN006904
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|56409217|gb|CX017469.1|CX017469
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|110688296|gb|EE066688.1|EE066688
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCCACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAACAGTCGGGGACA
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACA
EST: gi|110711311|gb|EE087659.1|EE087659
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAAAACTTGAC-AACGTCTTGAAA                         GTGAAGTGTTCTCTGAACCTATCAGTTCTTTGGAGCAGTCGGGGACAAAA-
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|110702984|gb|EE079435.1|EE079435
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|110713034|gb|EE088602.1|EE088602
EST:     TTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGAC-AACGTCTTTGAA-                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGAACAAA
genomic: TTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTT-GAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGA-CAAA
EST: gi|27586580|gb|CB009275.1|CB009275
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|110692596|gb|EE072018.1|EE072018
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCCACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|110402787|gb|EC963454.1|EC963454
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|294966527|gb|GW837662.1|GW837662
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTGGGAGCAGTCGGGGACAAAAT
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|71879747|gb|DT028802.1|DT028802
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|110693463|gb|EE069714.1|EE069714
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCA-CGTCTTGAAA                         GTGAAATGTTCTCTGAGCTT
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTT
EST: gi|32269126|gb|CD718285.1|CD718285
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|161711815|gb|FC058742.1|FC058742
EST:     GAAGAATTTGACCAACGTCTTGAAA                         GTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
genomic: GAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGACAAAAT
EST: gi|110688262|gb|EE066614.1|EE066614
EST:     GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGAC-AACGTCTTGAAA                         GTGA-GTGGTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGGGACAAA-
genomic: GTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaa ... gaatatgcagGTGAAGTGTTCTCTGAGCTTATCAGTTCTTTGGAGCAGTCGGGG-ACAAAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTGGTTTCAAGGAGGAAAATGAGGCCAGTGGGTCCCACAGATTTGGTTATGTTCTGCCATGGTGGCTCTCATTTGGAAGAACTTGACCAACGTCTTGAAAgtatgttgaaagattcttttatatagattcaggatatttgtaaattttgaaactctttgaggggcatcatgagaaacgctaatgtgaatagtttgatggaatatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC