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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGTgtaagctccagaccgcgctagatacagtatacactaaccttgtgctaaacaccatgccataatttgtatgtcag

Basic information

species Oryza sativa
transcript LOC_Os03g61670.1
intron # 12
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|86498981|gb|CI141614.1|CI141614
EST:     GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGT                         GATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
genomic: GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGTgtaagctcca ... tgtatgtcagGATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
EST: gi|86433374|gb|CI093717.1|CI093717
EST:     GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGT                         GATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
genomic: GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGTgtaagctcca ... tgtatgtcagGATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
EST: gi|58666692|gb|CK055378.1|CK055378
EST:     GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGT                         GATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
genomic: GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGTgtaagctcca ... tgtatgtcagGATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
EST: gi|86484126|gb|CI126759.1|CI126759
EST:     GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGT                         GATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
genomic: GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGTgtaagctcca ... tgtatgtcagGATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
EST: gi|88996487|gb|CI259991.1|CI259991
EST:     GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGT                         GATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
genomic: GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGTgtaagctcca ... tgtatgtcagGATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
EST: gi|88968007|gb|CI098249.1|CI098249
EST:     GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGT                         GATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
genomic: GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGTgtaagctcca ... tgtatgtcagGATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
EST: gi|86484442|gb|CI127075.1|CI127075
EST:     GGAGGAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGT                         GATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
genomic: GGAGGAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGTgtaagctcca ... tgtatgtcagGATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
EST: gi|86484726|gb|CI127359.1|CI127359
EST:     GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGT                         GATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
genomic: GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGTgtaagctcca ... tgtatgtcagGATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
EST: gi|58664711|gb|CK053397.1|CK053397
EST:     GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGT                         GATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG
genomic: GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGTgtaagctcca ... tgtatgtcagGATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 72 (upstream exon), 60 (downstream exon)
Score: 12

GAATCTGCAAACTCTAAAATCGACGACAGCGACGACGACGCTAGTgtaagctcca ... tgtatgtcagGATGATGAGGATGAGGCGGACGATGACAAGGCTGATGTCGTTGCTGAGCAGACCAAGGACAAGGGTGATGAGAAACCGCAGGACATCAAGGTCTCTGCTG




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