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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgttttacattttttttactacttcatttctggaattctaatcttcactacttgtaatattcttctgacatttggtttaaacattctggtttgtatcagAAAAAAAAATTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGGGTAAAATTTTGGAAAACAACAAGACAGTTGGCCAGTGTAGGGTACCATT

Basic information

species Vitis vinifera
transcript Vv14s0068g01590.t01
intron # 2
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|349824017|gb|FQ417404.1|FQ417404
EST:     CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAG                         NNNNNNNNNTTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGG
genomic: CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAGgttagatgtt ... tttgtatcagAAAAAAAAATTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGG
EST: gi|351019132|gb|FQ429292.1|FQ429292
EST:     CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAG                         NNNNNNNNNTTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGG
genomic: CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAGgttagatgtt ... tttgtatcagAAAAAAAAATTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGG
EST: gi|349825492|gb|FQ419409.1|FQ419409
EST:     CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAG                         N
genomic: CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAGgttagatgtt ... tttgtatcag-
EST: gi|349825492|gb|FQ419409.1|FQ419409
EST:     CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAG                         N
genomic: CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAGgttagatgtt ... tttgtatcag-
EST: gi|351022173|gb|FQ438758.1|FQ438758
EST:     CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAG                         -NNNNNNNNTTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGG
genomic: CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAGgttagatgtt ... tttgtatcagAAAAAAAAATTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGG
EST: gi|349832921|gb|FQ423043.1|FQ423043
EST:     CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAG                         NNNNNNNNNTTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGG
genomic: CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAGgttagatgtt ... tttgtatcagAAAAAAAAATTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGG
EST: gi|22012147|gb|BQ797181.1|BQ797181
EST:     CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAG                         NNNNNNNNNTTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGG
genomic: CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAGgttagatgtt ... tttgtatcagAAAAAAAAATTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGG
EST: gi|351021618|gb|FQ430505.1|FQ430505
EST:     CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAG                         NNNNNNNNNTTGCACCTAAAGCAGCAAATGATGTCAAGCTGATAAGTGCGG
genomic: CTCTACGGTTGCCATGCTCAAGGAGAGAATTGTTACCGAGTGGCCAAAAGgttagatgtt ... tttgtatcagAAAAAAAAATTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcactacttgtaatattcttctgacatttggtttaaacattctggtttgtatcagAAAAAAAAATTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGGGTAAAATTTTGGAAAACAACAAGACAGTTGGCCAGTGTAGGGTACCATT
                  ttctgac  putative branch site (score: 2)
       ttgtaatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgttttacattttttttactacttcatttctggaattctaatcttcactacttgtaatattcttctgacatttggtttaaacattctggtttgtatcagAAAAAAAAATTGCACCTAAAGCAGCAAATGATGTCAAACTGATAAGTGCGGGTAAAATTTTGGAAAACAACAAGACAGTTGGCCAGTGTAGGGTACCATT

- - - - - - - - - -ctacttc
- - - - - - - - - - - - - -tttctgg
- - - - - - - - - - - - - - - - - - - - - tcttcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cattctg