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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtactatgttatctcttcttatcacaacattttgtagctctcccttttgattgggttgttctgttttaagatttgaaagtatggttctaaacttttccttagctattataatcattcttcaagtgtatgatattatcatgcttcactgggccatgccagtaatcaacttcaaatttgttatttcagTGTGCATCGGCTATTGATAATTTGTGTACATTTTATTTCAATTGCATTACATTGGGAGAGTCACCCAATTCTCCGGCTGCTCTGAATCTTGCTCGACACA

Basic information

species Vitis vinifera
transcript Vv08s0040g00230.t01
intron # 23
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|71889756|gb|DT038811.1|DT038811
EST:     GATCTCTTGAGGTGGGTCTTAAAGCTCTAGACACAAATATTGTATCACAG                         TGTGCATCGGCTATTGATAATTTGTGTACATTTTATTTCAATTGCATTACA
genomic: GATCTCTTGAGGTGGGTCTTAAAGCTCTGGACACAAATATTGTATCACAGgtttgtacta ... gttatttcagTGTGCATCGGCTATTGATAATTTGTGTACATTTTATTTCAATTGCATTACA
EST: gi|71886241|gb|DT035296.1|DT035296
EST:     GATCTCTTGAGGTGGGTCTTAAAGCTCTAGACACAAATATTGTATCACAG                         TGTGCATCGGCTATTGATAATTTGTGTACATTTTATTTCAATTGCATTACA
genomic: GATCTCTTGAGGTGGGTCTTAAAGCTCTGGACACAAATATTGTATCACAGgtttgtacta ... gttatttcagTGTGCATCGGCTATTGATAATTTGTGTACATTTTATTTCAATTGCATTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attatcatgcttcactgggccatgccagtaatcaacttcaaatttgttatttcagTGTGCATCGGCTATTGATAATTTGTGTACATTTTATTTCAATTGCATTACATTGGGAGAGTCACCCAATTCTCCGGCTGCTCTGAATCTTGCTCGACACA
                                              ttatttc  CT-rich tract
                                    ttcaaatttgttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtactatgttatctcttcttatcacaacattttgtagctctcccttttgattgggttgttctgttttaagatttgaaagtatggttctaaacttttccttagctattataatcattcttcaagtgtatgatattatcatgcttcactgggccatgccagtaatcaacttcaaatttgttatttcagTGTGCATCGGCTATTGATAATTTGTGTACATTTTATTTCAATTGCATTACATTGGGAGAGTCACCCAATTCTCCGGCTGCTCTGAATCTTGCTCGACACA

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