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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAACATAATGGTGAGTTAAAAGGTGGTGCCAAAGCTTCCTCTGCTGGAAGGCCATGGAATCTCGCATGCCTTATTGAAGGATTTGTCAACAGAAGTGAAGgttattgattgtaaccatcattttccaacagcttcagacttggttgagatgttactagaattgcgtatagccatatagtgctctagcttgtaagtgcaac...

Basic information

species Oryza sativa
transcript LOC_Os12g04934.1
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|88993008|gb|CI035970.1|CI035970
EST:     GCCATGGAATCTCGCATGCCTTATTGAAGGATTTGTCAACAGAAGTGAAG                         CCTGTGAATTTGAATCAAAATGGAAGAACATCTCCCGGAAAATGGCACGCA
genomic: GCCATGGAATCTCGCATGCCTTATTGAAGGATTTGTCAACAGAAGTGAAGgttattgatt ... ttgtgtgcagCCTGTGAATTTGAATCAAAATGGAAGAACATCTCCCGGAAAATGGCACGCA
EST: gi|88482153|gb|CI419424.1|CI419424
EST:     ATCTCGCATGCCTTATTGAAGGATTTGTCAACAGAAGTGAAG                         CCTGTGAATTTGAATCAAAATGGAAGAACATCTCCCGGAAAATGGCACGCA
genomic: ATCTCGCATGCCTTATTGAAGGATTTGTCAACAGAAGTGAAGgttattgatt ... ttgtgtgcagCCTGTGAATTTGAATCAAAATGGAAGAACATCTCCCGGAAAATGGCACGCA
EST: gi|88325141|gb|CI646561.1|CI646561
EST:     GCCATGGAATCTCGCATGCCTTATTGAAGGATTTGTCAACAGAAGTGAAG                         CCTGTGAATTTGAATCAAAATGGAAGAACATCTCCCGGA
genomic: GCCATGGAATCTCGCATGCCTTATTGAAGGATTTGTCAACAGAAGTGAAGgttattgatt ... ttgtgtgcagCCTGTGAATTTGAATCAAAATGGAAGAACATCTCCCGGA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAACATAATGGTGAGTTAAAAGGTGGTGCCAAAGCTTCCTCTGCTGGAAGGCCATGGAATCTCGCATGCCTTATTGAAGGATTTGTCAACAGAAGTGAAGgttattgattgtaaccatcattttccaacagcttcagacttggttgagatgttactagaattgcgtatagccatatagtgctctagcttgtaagtgcaac

- - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT