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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatatgcctagtcttatacatatatatattcctcctaaacactactttcattacatgtcaactttaccacttaagttaagatgcatttcaaacac...

Basic information

species Vitis vinifera
transcript Vv10s0003g02070.t01
intron # 6
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|110383648|gb|EC948031.1|EC948031
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGG                         GAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
EST: gi|110712532|gb|EE090261.1|EE090261
EST:     AATGAGCTGTTGTTTGCTGAGATCCAGTATATGCAAAAGAAG                         GAAATAGACTTGCATAATGATAAC-AGTATCTCCGAACAAGG
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
EST: gi|110712239|gb|EE089632.1|EE089632
EST:     NNTGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAA-GAAG                         GAAATAGACTTGCATAATGATAACCAGTA
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTA
EST: gi|110711522|gb|EE088099.1|EE088099
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGGCAAA-GAAG                         AAAATANACTTGCNTAATGATAACCAGTATCTCCGAGCAAAG
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATG-CAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
EST: gi|110711652|gb|EE088373.1|EE088373
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGG                         GAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
EST: gi|71882431|gb|DT031486.1|DT031486
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGG                         GAAATAGACTTGCATAATGATAACCAGTATCTC
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTC
EST: gi|110713092|gb|EE088709.1|EE088709
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAAG                         GAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGGATA
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGGATA
EST: gi|110711884|gb|EE088869.1|EE088869
EST:     AATGAGCTGTTGTTTGCTGAAATCGAGTA-ATGCAAAAGAGG                         GAAATAAA-TTGCCTAATGATAACCAGTATCTCC
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCC
EST: gi|110713523|gb|EE089518.1|EE089518
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAAG                         GAAATAGACTTGGC-TAATGATAACCAGTATCTCCGAACAAGG
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTG-CATAATGATAACCAGTATCTCCGAGCAAGG
EST: gi|110711970|gb|EE089059.1|EE089059
EST:     AATGAGCTGTTGTTTGCTGAGATCCAGTATATGCAAAAGAGG                         GAAATAAACTTGC-TAATGATAACC-GTATCTCCGACCAAGG
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
EST: gi|110712904|gb|EE088360.1|EE088360
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGG                         GAAATAGACTTGCATAATGATAACCAGTATCTCCGAAGCAAG-ATAGCCGA
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGA-GCAAGGATAGCCGA
EST: gi|110712651|gb|EE087883.1|EE087883
EST:     AATGACCTGTTGTTTGCTGAAATCGAGTATATGCAAAAAAGG                         GGAATAAACTTGGC-TAATGATAAC
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTG-CATAATGATAAC
EST: gi|110408486|gb|EC974122.1|EC974122
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGG                         GAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
EST: gi|110723223|gb|EE100293.1|EE100293
EST:     AATGAGCTGTTGTTTGCCGAGATCGAGTATATGCAAAAGAAG                         GAAATAGACTTGCATAATGATAACCAGTATCTCCGAGC
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGAGC
EST: gi|110692821|gb|EE068512.1|EE068512
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGG                         GAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
EST: gi|110710861|gb|EE087398.1|EE087398
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGG                         GGAATAGACTTGCATAATGATAACCAGT
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGT
EST: gi|110394353|gb|EC959175.1|EC959175
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGG                         GAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGG
EST: gi|71882673|gb|DT031728.1|DT031728
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGG                         GAAATAGACTTGCATAATGATAACCAGTATCTCCGA
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGA
EST: gi|110713543|gb|EE089566.1|EE089566
EST:     AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAAG                         GAAATAGACTTG
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTG
EST: gi|110719625|gb|EE094917.1|EE094917
EST:     AATGAACTGTTGTTTGCTGAGATCGACTATATGCAAAAGAGG                         GAAAAA-ACTTGCATAATGATAACCAGTATCTCCCAACAAG-ATAGCC
genomic: AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatat ... tgtgttgcagGAAATAGACTTGCATAATGATAACCAGTATCTCCGAGCAAGGATAGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATGAGCTGTTGTTTGCTGAGATCGAGTATATGCAAAAGAGGgtaactatatgcctagtcttatacatatatatattcctcctaaacactactttcattacatgtcaactttaccacttaagttaagatgcatttcaaacac

- -  GCTGTT
- - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcctcc