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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtagaggaccaatcatatttgaaatttgtagattaatgcatatggctagttgtggaggtgctaaattaagatgcaaggctttgatttcttggccttgcctggtttattgtgaaataagtagctagcattcttggcatttgttatgaagtttcccatcttcattctcagGCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTACCACACATACTGCGCAG

Basic information

species Vitis vinifera
transcript Vv08s0007g03250.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|30253288|gb|CB970839.1|CB970839
EST:     ATCCCCCGTCAAAGCTACCACCCAAACCCCTTGAACTATGGGCATATGAG                         GCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
genomic: ATACACCGTCAAAGCTACCACCCAAACCACTTGAACTATGGGCATATGAGgttagtagag ... tcattctcagGCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
EST: gi|27755146|gb|CB035901.1|CB035901
EST:     ATACACCGTCAAAGCTACCACCCAAACCACTTGAACTATGGGCATATGAG                         GCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
genomic: ATACACCGTCAAAGCTACCACCCAAACCACTTGAACTATGGGCATATGAGgttagtagag ... tcattctcagGCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
EST: gi|30253209|gb|CB970760.1|CB970760
EST:     ATACACCGTCAAAGCTACCAGANAAACCACTTGAACTATGGGCATATGAG                         NCGANTCCATTCTGCAAAGTTGTACG
genomic: ATACACCGTCAAAGCTACCACCCAAACCACTTGAACTATGGGCATATGAGgttagtagag ... tcattctcagGCTTCTCCATTCTGCAAAGTTGTACG
EST: gi|110370952|gb|EC934597.1|EC934597
EST:     ATACACCGTCAAAGCTACCACCCAAACCACTTGAACTATGGGCATATGAG                         GCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
genomic: ATACACCGTCAAAGCTACCACCCAAACCACTTGAACTATGGGCATATGAGgttagtagag ... tcattctcagGCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
EST: gi|32246890|gb|CD712709.1|CD712709
EST:     AACCACTTGAACTATGGGCATATGAG                         GCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
genomic: AACCACTTGAACTATGGGCATATGAGgttagtagag ... tcattctcagGCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
EST: gi|110413628|gb|EC979423.1|EC979423
EST:     ATACACCGTCAAAGCTACCACCCGAACCACTTGAACTATGGGCATATGAG                         GCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
genomic: ATACACCGTCAAAGCTACCACCCAAACCACTTGAACTATGGGCATATGAGgttagtagag ... tcattctcagGCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
EST: gi|27578573|gb|CB001268.1|CB001268
EST:     AACCACTTGAACTATGGGCATATGAG                         GCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
genomic: AACCACTTGAACTATGGGCATATGAGgttagtagag ... tcattctcagGCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
EST: gi|110423056|gb|EC989391.1|EC989391
EST:     ATACACCGTCAAAGCTACCACCCAAACCACTTGAACTATGGGCATATGAG                         GCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
genomic: ATACACCGTCAAAGCTACCACCCAAACCACTTGAACTATGGGCATATGAGgttagtagag ... tcattctcagGCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTA
EST: gi|28959489|gb|CB339745.1|CB339745
EST:     ATACACCGTCAAAGCTACCACCNNNNCCACTTGAACTATGGGCATATGAG                         GCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTA
genomic: ATACACCGTCAAAGCTACCACCCAAACCACTTGAACTATGGGCATATGAGgttagtagag ... tcattctcagGCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataagtagctagcattcttggcatttgttatgaagtttcccatcttcattctcagGCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTACCACACATACTGCGCAG
                                   tttcccatcttcattc  CT-rich tract
                      atttgttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtagaggaccaatcatatttgaaatttgtagattaatgcatatggctagttgtggaggtgctaaattaagatgcaaggctttgatttcttggccttgcctggtttattgtgaaataagtagctagcattcttggcatttgttatgaagtttcccatcttcattctcagGCTTCTCCATTCTGCAAAGTTGTACGAGAAGTGATTGTTGAGCTAGAGTTACCACACATACTGCGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT