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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatcagatcacggacgaacaccttgcaccattaacactttttactcaactcaacttctcttgagccagAAACTCATCGACGGCGGCGCGAGGACGGTGTTCGTGTCGGGAATCACGCCGATGGGGTGCTCGTCAGCGAACCTCGTGCTGTTCGCGGGCTCAAGCGAAG

Basic information

species Oryza sativa
transcript LOC_Os01g11700.2
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|29687593|gb|CB683868.1|CB683868
EST:     CGAGGTCTCTCACACCCCGAGTCGTCGGAACCATCCGCGCGGCCACACAG                         AAACTCATCGACGGCGGCGCGAGGACGGTGTTCGTGTCGGGAATCACGCCG
genomic: CGAGGTCTCTCACACCCCGAGTCGTCGGAACCATCCGCGCGGCCACACAGgtgatcagat ... cttgagccagAAACTCATCGACGGCGGCGCGAGGACGGTGTTCGTGTCGGGAATCACGCCG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acgaacaccttgcaccattaacactttttactcaactcaacttctcttgagccagAAACTCATCGACGGCGGCGCGAGGACGGTGTTCGTGTCGGGAATCACGCCGATGGGGTGCTCGTCAGCGAACCTCGTGCTGTTCGCGGGCTCAAGCGAAG
               cattaac  putative branch site (score: 2)
                                        cttctctt  putative PPT
                attaacacttttta  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgatcagatcacggacgaacaccttgcaccattaacactttttactcaactcaacttctcttgagccagAAACTCATCGACGGCGGCGCGAGGACGGTGTTCGTGTCGGGAATCACGCCGATGGGGTGCTCGTCAGCGAACCTCGTGCTGTTCGCGGGCTCAAGCGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT