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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGTTCTTTTTGAAGGATGGATGCTTGGATTCAAACCTCTTCCAAATGAAGTTGTAAAAGCAGTGGACCCTCAGgcgggtttccgatattaccacattatctgatttctttgtttctcttttacttaatatgacttgccttttttcatcttcag

Basic information

species Oryza sativa
transcript LOC_Os01g48990.1
intron # 9
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|703010|gb|D49301.1|D49301
EST:     TTGGATTCAAACCTCTTCCAAATGAAGTTGTAAAAGCAGTGGACCCTCAG                         CTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
genomic: TTGGATTCAAACCTCTTCCAAATGAAGTTGTAAAAGCAGTGGACCCTCAGgcgggtttcc ... tcatcttcagCTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
EST: gi|29687191|gb|CB683466.1|CB683466
EST:     TTGGATTCAAACCTCTTCCAAATGAAGTTGTAAAAGCAGTGGACCCTCAG                         CTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
genomic: TTGGATTCAAACCTCTTCCAAATGAAGTTGTAAAAGCAGTGGACCCTCAGgcgggtttcc ... tcatcttcagCTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
EST: gi|89181456|gb|CI112962.1|CI112962
EST:     CAAATGAAGTTGTAAAAGCAGTGGACCCTCAG                         CTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
genomic: CAAATGAAGTTGTAAAAGCAGTGGACCCTCAGgcgggtttcc ... tcatcttcagCTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
EST: gi|88995282|gb|CI036857.1|CI036857
EST:     TGGACCCTCAG                         CTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
genomic: TGGACCCTCAGgcgggtttcc ... tcatcttcagCTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
EST: gi|29626889|gb|CB631900.1|CB631900
EST:     TTGGATTCAAACCTCTTCCAAATGAAGTCGTAAAAGCAGTGGACCCTCAG                         CTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
genomic: TTGGATTCAAACCTCTTCCAAATGAAGTTGTAAAAGCAGTGGACCCTCAGgcgggtttcc ... tcatcttcagCTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
EST: gi|86496003|gb|CI138636.1|CI138636
EST:     TTGGATTCAAACCTCTTCCAAATGAAGTTGTAAAAGCAGTGGACCCTCAG                         CTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
genomic: TTGGATTCAAACCTCTTCCAAATGAAGTTGTAAAAGCAGTGGACCCTCAGgcgggtttcc ... tcatcttcagCTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
EST: gi|88975066|gb|CI023317.1|CI023317
EST:     TTGGATTCAAACCTCTTCCAAATGAAGTTGTAAAAGCAGTGGACCCTCAG                         CTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG
genomic: TTGGATTCAAACCTCTTCCAAATGAAGTTGTAAAAGCAGTGGACCCTCAGgcgggtttcc ... tcatcttcagCTTGAGGTGGTTAATAAGAACCTTGAGGCATACTACGATGCATGGGACAGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGTTCTTTTTGAAGGATGGATGCTTGGATTCAAACCTCTTCCAAATGAAGTTGTAAAAGCAGTGGACCCTCAGgcgggtttccgatattaccacattatctgatttctttgtttctcttttacttaatatgacttgccttttttcatcttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA