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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagataaaatattgtaatccggattttgtttttcatgtttggcgtaactattgttggctatttcttttaagattattgttttcctttgtgcggataatttgctgattgcataatcaccttgtagAATTACAAATGCTGTGAAGGAGTCTGGGGGGTTGAGAGAAAGGTTGTATCATACTGCATACAATGCCAAGCGACATGCAATGATAAATG

Basic information

species Zea mays
transcript GRMZM2G059381_T01
intron # 13
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 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 124

GATAACTTGAAGCTGATGGATGATTTGGCTGTTCTGAGACCAACAATATTCGCAAGTGTTCCCCGGTTATATAACAAAATTTATGCTGCgtaagataaa ... caccttgtagAATTACAAATGCTGTGAAGGAGTCTGGGGGGTTGAGAGAAAGGTTGTATCATACTGCATACAATGCCAAGCGACATGCAATGATAAATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 291

GATAACTTGAAGCTGATGGATGATTTGGCTGTTCTGAGACCAACAATATTCGCAAGTGTTCCCCGGTTATATAACAAAATTTATGCTGCgtaagataaa ... caccttgtagAATTACAAATGCTGTGAAGGAGTCTGGGGGGTTGAGAGAAAGGTTGTATCATACTGCATACAATGCCAAGCGACATGCAATGATAAATG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 134

GATAACTTGAAGCTGATGGATGATTTGGCTGTTCTGAGACCAACAATATTCGCAAGTGTTCCCCGGTTATATAACAAAATTTATGCTGCgtaagataaa ... caccttgtagAATTACAAATGCTGTGAAGGAGTCTGGGGGGTTGAGAGAAAGGTTGTATCATACTGCATACAATGCCAAGCGACATGCAATGATAAATG


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 397

GATAACTTGAAGCTGATGGATGATTTGGCTGTTCTGAGACCAACAATATTCGCAAGTGTTCCCCGGTTATATAACAAAATTTATGCTGCgtaagataaa ... caccttgtagAATTACAAATGCTGTGAAGGAGTCTGGGGGGTTGAGAGAAAGGTTGTATCATACTGCATACAATGCCAAGCGACATGCAATGATAAATG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agattattgttttcctttgtgcggataatttgctgattgcataatcaccttgtagAATTACAAATGCTGTGAAGGAGTCTGGGGGGTTGAGAGAAAGGTTGTATCATACTGCATACAATGCCAAGCGACATGCAATGATAAATG
                              tgctgat  putative branch site (score: 397)
                                            tcacctt  putative PPT
                        ataattt  TA-rich tract