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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcgtatcacacaaacacctttcatcagaaataatatgattgtaatcttgaaccagttagctaggaactcatctattccattagttacaccatactccgtatcatttaggataacactttacttactagcatgctccatatttctatttcagGCCATTCATCCAGTCATGGTCCAGAGTCATCGTCTCCTATCAATCACAGGATCAACAAATCAGGTCAACTCACTATCCATGTCTTTACTTTCAATTACGC

Basic information

species Oryza sativa
transcript 13114.m00155
intron # 1
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: 74 (upstream exon), 65 (downstream exon)
Score: 18

ATGGAGTTCCCAAGCTTCCCATGCCTGCTTCATCAGAAGAACACCTCAGGTTCAAAGCAAAAAGGTCTATACACCAAAACAGCAAAGgtattcgtat ... tctatttcagGCCATTCATCCAGTCATGGTCCAGAGTCATCGTCTCCTATCAATCACAGGATCAACAAATCAGGTCAACTCACTATCCATGTCTTTACTTTCAATTACGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtatcatttaggataacactttacttactagcatgctccatatttctatttcagGCCATTCATCCAGTCATGGTCCAGAGTCATCGTCTCCTATCAATCACAGGATCAACAAATCAGGTCAACTCACTATCCATGTCTTTACTTTCAATTACGC
                      tacttac  putative branch site (score: 18)
                                           tttctatttc  putative PPT
                                        atatttctatttca  TA-rich tract