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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgcccctaaattaccatgaccgcatattttcactgttttgcatttgtacctatagcctgtggttttctatttacattactttcttttttttacaaatttgcagAACTTGTTAAGCCATAGGCTCTGGTTCCATATGAGAGAAGATCCATATGCTCTTTTGAGATAGTTTGGAAAATGGCATCAAAGAAAGTATAAGTGGGTTA

Basic information

species Oryza sativa
transcript LOC_Os01g27740.1
intron # 2
splice site 3'
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|88377345|gb|CI600500.1|CI600500
EST:     TCCAAATCAAGATTTTGGGGGTTCAAGTAAACCCCCATGCCCAAC--AA-                         --CTTGTTAAGCCATAGGCTCTGGTTCCATATGAGAGAAGATCCATATGCT
genomic: TCCAAATCAAGATTTTGGGGGTTCAAGTAAACCCCCATGCCCAACGTAAGgtccgcccct ... aaatttgcagAACTTGTTAAGCCATAGGCTCTGGTTCCATATGAGAGAAGATCCATATGCT
EST: gi|88722329|gb|CI745839.1|CI745839
EST:     TCCAAATCAAGATTTTGGGGGTTCAAGTAAACCCCCATGCCCAACGTAAG                         AACTTGTTAAGCCCATAGGCTCTGGTTCCATATGAGAGAAGATCCATATGC
genomic: TCCAAATCAAGATTTTGGGGGTTCAAGTAAACCCCCATGCCCAACGTAAGgtccgcccct ... aaatttgcagAACTTGTTAAGCC-ATAGGCTCTGGTTCCATATGAGAGAAGATCCATATGC
EST: gi|88400874|gb|CI616879.1|CI616879
EST:     TCCAAATCAAGATTTTGGGGGTTCAAGTAAACCCCCATGCCCAACGTAAG                         AACTTGTTAAGCCATAGGCTCTGGTTCCATATGAGAGAAGATCCATATGCT
genomic: TCCAAATCAAGATTTTGGGGGTTCAAGTAAACCCCCATGCCCAACGTAAGgtccgcccct ... aaatttgcagAACTTGTTAAGCCATAGGCTCTGGTTCCATATGAGAGAAGATCCATATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctatagcctgtggttttctatttacattactttcttttttttacaaatttgcagAACTTGTTAAGCCATAGGCTCTGGTTCCATATGAGAGAAGATCCATATGCTCTTTTGAGATAGTTTGGAAAATGGCATCAAAGAAAGTATAAGTGGGTTA
                              ctttcttttttttaca  CT-rich tract
              ttttctatttacatta  TA-rich tract
















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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtccgcccctaaattaccatgaccgcatattttcactgttttgcatttgtacctatagcctgtggttttctatttacattactttcttttttttacaaatttgcagAACTTGTTAAGCCATAGGCTCTGGTTCCATATGAGAGAAGATCCATATGCTCTTTTGAGATAGTTTGGAAAATGGCATCAAAGAAAGTATAAGTGGGTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA