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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctctctctcctctctttctgcctggcttttctgctagggttagggtttgggtgtcctactttcttggttgtttttgcacagcaactgacattgaattaggggtttcgttttgaatcagATGTGTAGTTGAAGAGTTCAGTTACTTCCAAAAATGAGTGCTTCAAGGTTCATTAAGTGCGTCACTGTCGGTGACGGCGCCGTCGGCAAGACTTGCATGC

Basic information

species Vitis vinifera
transcript Vv03s0038g02380.t01
intron # 1
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|27581311|gb|CB004006.1|CB004006
EST:     GGTCAGTACCAAACGCCTCTACTGCTTGCCTTTCCTCTTCCCAG                         ATGTGTAGTTGAAGAGTTCAGTTACTTCCAAAAATGAGTGCTTCAAGGTTC
genomic: GGTCAGTACCAAACGCCTCTACTGCTTGCCTTTCCTCTTCCCAGgtctctctct ... tttgaatcagATGTGTAGTTGAAGAGTTCAGTTACTTCCAAAAATGAGTGCTTCAAGGTTC
EST: gi|77585106|gb|DV221640.1|DV221640
EST:     GTACCAAACGCCTCTACTGCTTGCCTTTCCTCTTCCCAG                         ATGTGTAGTTGAAGAGTTCAGTTACTTCCAAAAATGAGTGCTTCAAGGTTC
genomic: GTACCAAACGCCTCTACTGCTTGCCTTTCCTCTTCCCAGgtctctctct ... tttgaatcagATGTGTAGTTGAAGAGTTCAGTTACTTCCAAAAATGAGTGCTTCAAGGTTC
EST: gi|161720989|gb|FC070698.1|FC070698
EST:     GGTCAGTACCAAACGCCTCTACTGCTTGCCTTTCCTCTTCCCAG                         ATGTGTAGTTAAAGAGTTCAGTTACTTCCAAAAATGAGTGCTTCAAGGTTC
genomic: GGTCAGTACCAAACGCCTCTACTGCTTGCCTTTCCTCTTCCCAGgtctctctct ... tttgaatcagATGTGTAGTTGAAGAGTTCAGTTACTTCCAAAAATGAGTGCTTCAAGGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttggttgtttttgcacagcaactgacattgaattaggggtttcgttttgaatcagATGTGTAGTTGAAGAGTTCAGTTACTTCCAAAAATGAGTGCTTCAAGGTTCATTAAGTGCGTCACTGTCGGTGACGGCGCCGTCGGCAAGACTTGCATGC
                   aactgac  putative branch site (score: 2)
                                       tttcgtttt  putative PPT
                          attgaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtctctctctcctctctttctgcctggcttttctgctagggttagggtttgggtgtcctactttcttggttgtttttgcacagcaactgacattgaattaggggtttcgttttgaatcagATGTGTAGTTGAAGAGTTCAGTTACTTCCAAAAATGAGTGCTTCAAGGTTCATTAAGTGCGTCACTGTCGGTGACGGCGCCGTCGGCAAGACTTGCATGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA