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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatgctaactaagacgtagtaggggagttatcccaactgcaacccccatattcttaaccactaccgatatctaagtttcttggtttcccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACGGCACTTGAGGCGTTTTTGCAAGTCATGGAAGAGGACCGAGAACTTGAGA

Basic information

species Vitis vinifera
transcript Vv14s0068g00870.t01
intron # 4
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|33402883|gb|CF208510.1|CF208510
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTAGG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
EST: gi|83274830|gb|DV938926.1|DV938926
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACCGTGCCGCTATGAATGGATGCGTAGG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
EST: gi|254915183|gb|GR904614.1|GR904614
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTAGG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
EST: gi|32265358|gb|CD716211.1|CD716211
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
EST: gi|30296756|gb|CB973550.1|CB973550
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTAGG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
EST: gi|30296688|gb|CB973482.1|CB973482
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTAGG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
EST: gi|110412202|gb|EC977942.1|EC977942
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTAGG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
EST: gi|32272355|gb|CD721514.1|CD721514
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
EST: gi|110389979|gb|EC954859.1|EC954859
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTAGG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
EST: gi|110417324|gb|EC983371.1|EC983371
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
EST: gi|46911174|gb|CN546549.1|CN546549
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTAGG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
EST: gi|33402870|gb|CF208497.1|CF208497
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTAGG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG
EST: gi|77587339|gb|DV222811.1|DV222811
EST:     CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGG                         CTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTAGG
genomic: CTGAGGAGCTTGAGACCTGGCCAGAGAAGGAAAACCATGATAGGAAATGGgtaagtatgc ... cccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acccccatattcttaaccactaccgatatctaagtttcttggtttcccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACGGCACTTGAGGCGTTTTTGCAAGTCATGGAAGAGGACCGAGAACTTGAGA
          tcttaac  putative branch site (score: 2)
                                  tttcttggtttccctt  putative PPT
      atattcttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtatgctaactaagacgtagtaggggagttatcccaactgcaacccccatattcttaaccactaccgatatctaagtttcttggtttcccttaacagCTAAGCATAAATGAGGCATTTGAACTGTGCCGCTATGAATGGATGCGTACGGCACTTGAGGCGTTTTTGCAAGTCATGGAAGAGGACCGAGAACTTGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA