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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgtggtcttgatatgtgaagattgtaagcatttgtattacttgaatgcagtatagctatttatctcactgctcagtttttgtcattctcatctttctagGATGGCAGTTCTGGAGAAGTTAACAAAGTTTCGATTGAACGTGAAGAAAGGCGCCTAACTGAACTTGGTCAGAAGATAATTGAAACATTTGCACTATCCC

Basic information

species Oryza sativa
transcript LOC_Os01g56800.3
intron # 8
splice site 3'
intron type U2

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: 62 (upstream exon), 66 (downstream exon)
Score: 14

TGGTGATGTCATAGCTTTGCTTGAGAGGGCAGCTTTAGAACCCTTGCCTTGTCAGCCTGTGTCTCCAAAGGATGACAAATGTTCCCAGAGCCGCACTAAGgtaggtattt ... atctttctagGATGGCAGTTCTGGAGAAGTTAACAAAGTTTCGATTGAACGTGAAGAAAGGCGCCTAACTGAACTTGGTCAGAAGATAATTGAAACATTTGCACTATCCC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcagtatagctatttatctcactgctcagtttttgtcattctcatctttctagGATGGCAGTTCTGGAGAAGTTAACAAAGTTTCGATTGAACGTGAAGAAAGGCGCCTAACTGAACTTGGTCAGAAGATAATTGAAACATTTGCACTATCCC
                 atctcac  putative branch site (score: 14)
                               tttttgtcattctcat  putative PPT
            tatttatct  TA-rich tract