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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGGCGTGCTTGGCCTCTGAGAGCTCCTGTGAGAGCGGGGCGTGTGCCATCCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATGgtaagctcaatatctctcgattctctcccaaaagaaaaatgtggacagatgtgtagctatgaatctggacagatgtgtaatgtgtcctggttcatagcta...

Basic information

species Oryza sativa
transcript LOC_Os12g15470.2
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|33793780|gb|CF322774.1|CF322774
EST:     CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATG                         AGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
genomic: CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATGgtaagctcaa ... taaactgcagAGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
EST: gi|117240321|gb|CT842747.1|CT842747
EST:     CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATG                         AGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
genomic: CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATGgtaagctcaa ... taaactgcagAGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
EST: gi|58609188|gb|CK037221.1|CK037221
EST:     GGATCTCGCCCCAGTGGAGTTCCTTGTATG                         AGTGATGAAGTTGCAACAGCATGGCTGAAGAACGATGACGTCAGAGCAGCA
genomic: GGATCTCGCCCCAGTGGAGTTCCTTGTATGgtaagctcaa ... taaactgcagAGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
EST: gi|29638179|gb|CB643188.1|CB643188
EST:     CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATG                         AGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
genomic: CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATGgtaagctcaa ... taaactgcagAGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
EST: gi|33684071|gb|CF312310.1|CF312310
EST:     CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATG                         AGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
genomic: CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATGgtaagctcaa ... taaactgcagAGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
EST: gi|29644492|gb|CB649499.1|CB649499
EST:     CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATG                         AGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
genomic: CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATGgtaagctcaa ... taaactgcagAGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
EST: gi|29668082|gb|CB664357.1|CB664357
EST:     CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATG                         AGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
genomic: CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATGgtaagctcaa ... taaactgcagAGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
EST: gi|29661783|gb|CB658058.1|CB658058
EST:     CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATG                         AGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
genomic: CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATGgtaagctcaa ... taaactgcagAGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
EST: gi|29659837|gb|CB656112.1|CB656112
EST:     AGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTTCCTTGTATG                         AGTGATGAAGTGGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
genomic: AGTTTGCCAGAGGATCTCGCCCCAGTGGAG-TTCCTTGTATGgtaagctcaa ... taaactgcagAGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
EST: gi|29661784|gb|CB658059.1|CB658059
EST:     CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATG                         AGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
genomic: CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATGgtaagctcaa ... taaactgcagAGTGATGAAGTTGCAACAGCATGGCTGAACAACGATGACGTCAGAGCAGCA
EST: gi|86905526|gb|CI285489.1|CI285489
EST:     CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATG                         AGTGATGAAGTTGCAACAGCATGGCTGAACAAC
genomic: CCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATGgtaagctcaa ... taaactgcagAGTGATGAAGTTGCAACAGCATGGCTGAACAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGGGCGTGCTTGGCCTCTGAGAGCTCCTGTGAGAGCGGGGCGTGTGCCATCCTGGCAGGAGTTTGCCAGAGGATCTCGCCCCAGTGGAGTTCCTTGTATGgtaagctcaatatctctcgattctctcccaaaagaaaaatgtggacagatgtgtagctatgaatctggacagatgtgtaatgtgtcctggttcatagcta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG