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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGCAAGTTCTACGATACGTTCACCGTCTCTGGCCTCCGCGTCGACGCCATCCAGCCCGGCCGCGTCCTCTGCTCCTTCACCGTCCCTCCTCGCCTCACGgtacgctactagtagctactacgtccgtctcattttaaatacagttttggttttttcgcgtccaattttaaccgtccgttttatttaaaaaacttttaaa...

Basic information

species Oryza sativa
transcript LOC_Os01g65950.1
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|88542894|gb|CI472252.1|CI472252
EST:     TCACCGTCCCTCCTCGCCTCACG                         AATGCAAGGAGCAAACGCATGCATGGGGGCGCGGTGGCGTCTCTGGTGGAC
genomic: TCACCGTCCCTCCTCGCCTCACGgtacgctact ... atgagtgaagAATGCAAGGAGCAAACGCATGCATGGGGGCGCGGTGGCGTCTCTGGTGGAC
EST: gi|117232032|gb|CT842043.1|CT842043
EST:     TCCAGCCCGGCCGCGTCCTCTGCTCCTTCACCGTCCCTCCTCGCCTCACG                         AATGCAAGGAGCAAACGCATGCATGGGGGCGCGGTGGCGTCTCTGGTGGAC
genomic: TCCAGCCCGGCCGCGTCCTCTGCTCCTTCACCGTCCCTCCTCGCCTCACGgtacgctact ... atgagtgaagAATGCAAGGAGCAAACGCATGCATGGGGGCGCGGTGGCGTCTCTGGTGGAC
EST: gi|88549110|gb|CI478968.1|CI478968
EST:     CTCCTTCACCGTCCCTCCTCGCCTCACG                         AATGCAAGGAGCAAACGCATGCATGGGGGCGC-GTNGGCGTCTCTGGTGGA
genomic: CTCCTTCACCGTCCCTCCTCGCCTCACGgtacgctact ... atgagtgaagAATGCAAGGAGCAAACGCATGCATGGGGGCGCGGT-GGCGTCTCTGGTGGA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGCAAGTTCTACGATACGTTCACCGTCTCTGGCCTCCGCGTCGACGCCATCCAGCCCGGCCGCGTCCTCTGCTCCTTCACCGTCCCTCCTCGCCTCACGgtacgctactagtagctactacgtccgtctcattttaaatacagttttggttttttcgcgtccaattttaaccgtccgttttatttaaaaaacttttaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaaaaa