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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttgttcttattctaacctaactggcaaaattctccaatcagcctggcaaaagaataaacattttccttgatttattccagctattttgttttactgaattttgttatatggatactagGCGGGCCTAAAGGATTCGGTAAAGTTGCTTGGAGAGTGAGTAAATATGAGAAAGGCGGTCATTCTCCTTACATCATGTTCAGCTATCACAGCTTAGATGG

Basic information

species Vitis vinifera
transcript Vv14s0108g00270.t01
intron # 3
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|110698658|gb|EE076404.1|EE076404
EST:     TGGAACCCACTATAAGCTAGTTGCTAATGACGGGAAAAACATGCTTCATG                         GCGGGCCTAAAGGATTCGGTAAAGTTGCTTGGAGAGTGAGTAAATATGAGA
genomic: CGGAACCCACTATAAGCTAGTTGCTAATGACGGGAAAAACATGCTTCATGgtactttgtt ... tggatactagGCGGGCCTAAAGGATTCGGTAAAGTTGCTTGGAGAGTGAGTAAATATGAGA
EST: gi|161709120|gb|FC058392.1|FC058392
EST:     CGGAACCCACTATAAGCTAGTTGCTAATGACGGGAAAAACATGCTTCATG                         GCGGGCCTAAAGGATTCGGTAAAGTTGCT
genomic: CGGAACCCACTATAAGCTAGTTGCTAATGACGGGAAAAACATGCTTCATGgtactttgtt ... tggatactagGCGGGCCTAAAGGATTCGGTAAAGTTGCT
EST: gi|110693694|gb|EE070148.1|EE070148
EST:     CGGAACCCACTATAAGCTAGTTGCTAATGACGGGAAAAACATGCTTCATG                         GCGGGCCTAAAGGATTCGGTAAAGTTGCTTGGAGAGTGAGTAAATATGAGA
genomic: CGGAACCCACTATAAGCTAGTTGCTAATGACGGGAAAAACATGCTTCATGgtactttgtt ... tggatactagGCGGGCCTAAAGGATTCGGTAAAGTTGCTTGGAGAGTGAGTAAATATGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccttgatttattccagctattttgttttactgaattttgttatatggatactagGCGGGCCTAAAGGATTCGGTAAAGTTGCTTGGAGAGTGAGTAAATATGAGAAAGGCGGTCATTCTCCTTACATCATGTTCAGCTATCACAGCTTAGATGG
 ccttgat  putative branch site (score: 5)
                  tattttgttttactga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactttgttcttattctaacctaactggcaaaattctccaatcagcctggcaaaagaataaacattttccttgatttattccagctattttgttttactgaattttgttatatggatactagGCGGGCCTAAAGGATTCGGTAAAGTTGCTTGGAGAGTGAGTAAATATGAGAAAGGCGGTCATTCTCCTTACATCATGTTCAGCTATCACAGCTTAGATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT