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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcatcaaaaactacagatttaaaaaattctatcggagaactacagtttgccctcatgttattattgcataactacttgttttaggcttcaccgtcacagTTATCTGACAAATGGGTCCAACCTGCATTCCTGCAATCACACAAAGATTCAAGCACTGGTATTGGTTGTCACTTCGAATCCCAGGTCTGCTGGCATG

Basic information

species Oryza sativa
transcript LOC_Os04g18030.4
intron # 2
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: 61 (upstream exon), 15 (downstream exon)
Score: 1

GTTCTTATCATGGACAAACTTACGGTGAAGATTATGTCATTTTCTTGCAAGATGGCAGATGTGATGGAAGAAGGTGTTTCATgtaagtatgt ... accgtcacagTTATCTGACAAATGGGTCCAACCTGCATTCCTGCAATCACACAAAGATTCAAGCACTGGTATTGGTTGTCACTTCGAATCCCAGGTCTGCTGGCATG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttgccctcatgttattattgcataactacttgttttaggcttcaccgtcacagTTATCTGACAAATGGGTCCAACCTGCATTCCTGCAATCACACAAAGATTCAAGCACTGGTATTGGTTGTCACTTCGAATCCCAGGTCTGCTGGCATG
                     gcataac  putative branch site (score: 1)
                                         cttcacc  putative PPT
             ttattattgcataa  TA-rich tract