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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATTCTAGTTCAGTGGATCTCTCCAGTCAGAGTTCTAATTCTTCATCACGGGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatttatatactttctaaatgtcatatttctcattatctctaagagttgtgtattgcaaattgcag

Basic information

species Vitis vinifera
transcript Vv08s0040g02160.t01
intron # 2
splice site 5'
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|110386709|gb|EC951326.1|EC951326
EST:     GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGG                         ACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
genomic: GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatt ... caaattgcagACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
EST: gi|71890758|gb|DT039813.1|DT039813
EST:     GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGG                         ACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
genomic: GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatt ... caaattgcagACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
EST: gi|349811119|gb|FQ406131.1|FQ406131
EST:     GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGG                         ACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
genomic: GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatt ... caaattgcagACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
EST: gi|110357206|gb|EC920580.1|EC920580
EST:     GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGG                         ACACCAGTGGTTTTAAGTCATGAAACAAATCACTTCCCCTTTAGGTAGCTG
genomic: GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatt ... caaattgcagACACCAGTGGTTT-AAGTCATGAAACAAATCACTTCCC-TTTAGGTAGCTG
EST: gi|110359144|gb|EC920158.1|EC920158
EST:     GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGG                         ACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
genomic: GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatt ... caaattgcagACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
EST: gi|349819238|gb|FQ412132.1|FQ412132
EST:     GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGG                         ACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
genomic: GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatt ... caaattgcagACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
EST: gi|110359202|gb|EC920316.1|EC920316
EST:     GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGG                         ACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
genomic: GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatt ... caaattgcagACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
EST: gi|349821118|gb|FQ408705.1|FQ408705
EST:     GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGG                         ACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
genomic: GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatt ... caaattgcagACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
EST: gi|161714446|gb|FC064439.1|FC064439
EST:     GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGG                         ACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
genomic: GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatt ... caaattgcagACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
EST: gi|349819477|gb|FQ413361.1|FQ413361
EST:     GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGG                         ACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
genomic: GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatt ... caaattgcagACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
EST: gi|77586284|gb|DV222241.1|DV222241
EST:     GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGG                         ACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
genomic: GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatt ... caaattgcagACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA
EST: gi|110731672|gb|EE106288.1|EE106288
EST:     GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGG                         ACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTANGTAGCTGTA
genomic: GGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatt ... caaattgcagACACCAGTGGTTTAAGTCATGAAACAAATCACTTCCCTTTAGGTAGCTGTA

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATTCTAGTTCAGTGGATCTCTCCAGTCAGAGTTCTAATTCTTCATCACGGGAGTGGAACCATATCTTGTCTCCTGCACATGGAAGAACTCCAGTTTCGGgttagttatttatatactttctaaatgtcatatttctcattatctctaagagttgtgtattgcaaattgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC