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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCCACCACCGCCACCGGAGGAGGAGCTCTATTTATGCCCTCGCGGCGGCGCCTCCTCTCCCCGCACCCCCCCGCCTCGCCGCTCGCCACCGCGCCCCAGgttagcccacccccacccccaccccccgaagaacaccccccccccccccccccgcgccgcgctctcgccttctcgtttgatggattgattgcttttttttgtgggattttttatttatttatttttggggtgtag

Basic information

species Oryza sativa
transcript LOC_Os02g15550.2
intron # 1
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|13165585|gb|AU174382.1|AU174382
EST:     CCCCGCCTCGCCGCTNGCCACCGCGCCCCAG                         AGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
genomic: CCCCGCCTCGCCGCTCGCCACCGCGCCCCAGgttagcccac ... tggggtgtagAGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
EST: gi|29642051|gb|CB647058.1|CB647058
EST:     GCCTCCTCTCCCCGCANNNNNNNGCCTCGCCGCTCGCCACCGCGCCCCAG                         AGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
genomic: GCCTCCTCTCCCCGCACCCCCCCGCCTCGCCGCTCGCCACCGCGCCCCAGgttagcccac ... tggggtgtagAGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
EST: gi|29672898|gb|CB669173.1|CB669173
EST:     GCCTCCTCTCCCCGCANNNNNNNGCCTCGCCGCTCGCCACCGCGCCCCAG                         AGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
genomic: GCCTCCTCTCCCCGCACCCCCCCGCCTCGCCGCTCGCCACCGCGCCCCAGgttagcccac ... tggggtgtagAGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
EST: gi|88306532|gb|CI671284.1|CI671284
EST:     GCCTCCTCTCCCCGCANNNNNNNGCCTCGCCGCTCGCCACCGCGCCCCAG                         AGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
genomic: GCCTCCTCTCCCCGCACCCCCCCGCCTCGCCGCTCGCCACCGCGCCCCAGgttagcccac ... tggggtgtagAGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
EST: gi|29664250|gb|CB660525.1|CB660525
EST:     GCCTCCTCTCCCCGCANNNNNNNGCCTCGCCGCTCGCCACCGCGCCCCAG                         AGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
genomic: GCCTCCTCTCCCCGCACCCCCCCGCCTCGCCGCTCGCCACCGCGCCCCAGgttagcccac ... tggggtgtagAGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
EST: gi|88442871|gb|CI694277.1|CI694277
EST:     GCCTCCTCTCCCCGCANNNNNNNGCCTCGCCGCTCGCCACCGCGCCCCAG                         AGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
genomic: GCCTCCTCTCCCCGCACCCCCCCGCCTCGCCGCTCGCCACCGCGCCCCAGgttagcccac ... tggggtgtagAGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
EST: gi|88352695|gb|CI678715.1|CI678715
EST:     GCCTCCTCTCCCCGCANNNNNNNGCCTCGCCGCTCGCCACCGCGCCCCAG                         AGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
genomic: GCCTCCTCTCCCCGCACCCCCCCGCCTCGCCGCTCGCCACCGCGCCCCAGgttagcccac ... tggggtgtagAGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
EST: gi|88371982|gb|CI681499.1|CI681499
EST:     GCCTCCTCTCCCCGCANNNNNNNGCCTCGCCGCTCGCCACCGCGCCCCAG                         AGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG
genomic: GCCTCCTCTCCCCGCACCCCCCCGCCTCGCCGCTCGCCACCGCGCCCCAGgttagcccac ... tggggtgtagAGGCTGGGAACTTCGAGGAGGAGCAGGATCCATGGAGGGTGGAGGCGCAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCCACCACCGCCACCGGAGGAGGAGCTCTATTTATGCCCTCGCGGCGGCGCCTCCTCTCCCCGCACCCCCCCGCCTCGCCGCTCGCCACCGCGCCCCAGgttagcccacccccacccccaccccccgaagaacaccccccccccccccccccgcgccgcgctctcgccttctcgtttgatggattgattgcttttttttgtgggattttttatttatttatttttggggtgtag

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