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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGACGTCTCGCTGGACAGCCTCCGCCCTAGCCCCGTCCTCAAATGTCGCCGCCGTCCGTCAGGCTGCCTCATCCAAGAAATGCCCAATGGCTACTCCAAGgtgaccatcatcagctcatcatcatcatcatcacaaatcaaatctgaaattctgaattcaagatatattgctgttcagaaatcatggaaaactgatgaaattgttgtatgatcag

Basic information

species Oryza sativa
transcript LOC_Os04g53540.3
intron # 8
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|58673531|gb|CK062217.1|CK062217
EST:     GCCGGCCGTCAGGCTGCCTCATCCAAGAAATGCCCAATGGCTACTCCAAG                         GTGACGTGGGTGGAGCATGTGGAGGTGGACGACAGGTCGGTGCACAACATC
genomic: GCCGTCCGTCAGGCTGCCTCATCCAAGAAATGCCCAATGGCTACTCCAAGgtgaccatca ... gtatgatcagGTGACGTGGGTGGAGCATGTGGAGGTGGACGACAGGTCGGTGCACAACATC
EST: gi|58660464|gb|CK049144.1|CK049144
EST:     GCCG-GCGTCAGGCTGCCTCATCCAAGAAATGCCCAATGGCGAGTCCAAG                         GTGACGTGGGTGGAGCATGTGGAGGTGGACGACAGGTCGGTGCACAACATC
genomic: GCCGTCCGTCAGGCTGCCTCATCCAAGAAATGCCCAATGGCTACTCCAAGgtgaccatca ... gtatgatcagGTGACGTGGGTGGAGCATGTGGAGGTGGACGACAGGTCGGTGCACAACATC
EST: gi|29620266|gb|CB625278.1|CB625278
EST:     GCCGGCCGTCAGGCTGCCTCATCCAAGAAATGCCCAATGGCTACTCCAAG                         GTGACGTGGGTGGAGCATGTGGAGGTGGACGACAGGTCGGTGCACAACATC
genomic: GCCGTCCGTCAGGCTGCCTCATCCAAGAAATGCCCAATGGCTACTCCAAGgtgaccatca ... gtatgatcagGTGACGTGGGTGGAGCATGTGGAGGTGGACGACAGGTCGGTGCACAACATC

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGACGTCTCGCTGGACAGCCTCCGCCCTAGCCCCGTCCTCAAATGTCGCCGCCGTCCGTCAGGCTGCCTCATCCAAGAAATGCCCAATGGCTACTCCAAGgtgaccatcatcagctcatcatcatcatcatcacaaatcaaatctgaaattctgaattcaagatatattgctgttcagaaatcatggaaaactgatgaaattgttgtatgatcag

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