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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaataaaccattcaactccaacattccttcttggaatccctccctcacgaattttcttttattgattgaggattggttgttgagatgatttcagGCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATTCTTGAAGGGCTATGTGACAGCACAAACAG

Basic information

species Vitis vinifera
transcript Vv14s0068g01280.t01
intron # 9
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|83276100|gb|DV940108.1|DV940108
EST:     GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTG                         GCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCAATCAATT
genomic: GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTGgtaaataaac ... atgatttcagGCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATT
EST: gi|110364030|gb|EC927670.1|EC927670
EST:     GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTG                         GCATGTGTGTTAGCTCCCTCCGTTAAAAGTGAGAAGAAAGTGCGATCAATT
genomic: GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTGgtaaataaac ... atgatttcagGCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATT
EST: gi|45770351|gb|CN006203.1|CN006203
EST:     GTGT-TTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTG                         GCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCAATCAATT
genomic: GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTGgtaaataaac ... atgatttcagGCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATT
EST: gi|349827680|gb|FQ422548.1|FQ422548
EST:     GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTG                         GCATGTGTGTTAGCTCCATCCATTAAAAGTGAGAAGAAAGTGCGATCAATT
genomic: GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTGgtaaataaac ... atgatttcagGCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATT
EST: gi|110688297|gb|EE066689.1|EE066689
EST:     GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTG                         GCATGTATGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATT
genomic: GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTGgtaaataaac ... atgatttcagGCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATT
EST: gi|351022393|gb|FQ445168.1|FQ445168
EST:     GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTG                         GCATGTGTGTTAGCTCCATCCATTAAAAGTGAGAAGAAAGTGTGATCAATT
genomic: GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTGgtaaataaac ... atgatttcagGCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATT
EST: gi|34362548|gb|CF404133.1|CF404133
EST:     CATCCTTCTTG                         GCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCAATCAATT
genomic: CATCCTTCTTGgtaaataaac ... atgatttcagGCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATT
EST: gi|351013608|gb|FQ429749.1|FQ429749
EST:     GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTG                         GCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATT
genomic: GTGTCTTTGCAGAGAGTATCCTTAGATATGGCTTGCCACCATCCTTCTTGgtaaataaac ... atgatttcagGCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctccctcacgaattttcttttattgattgaggattggttgttgagatgatttcagGCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATTCTTGAAGGGCTATGTGACAGCACAAACAG
                    tattgat  putative branch site (score: 3)
          aattttcttttattga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaataaaccattcaactccaacattccttcttggaatccctccctcacgaattttcttttattgattgaggattggttgttgagatgatttcagGCATGTGTGTTAGCTCCATCCGTTAAAAGTGAGAAGAAAGTGCGATCAATTCTTGAAGGGCTATGTGACAGCACAAACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG