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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatgttcggatacagttagtcattttgctgatgtcataactcataaactcataattatcataagtgtgaacacatacatcatacttcataggctattaactatgcatactagacggctgattgatatcttggtatgcgcaactctgcttatgttttgcgctagtatctgattaatgtgggaacaccatttttcagGGATGCAGGGAAGCTATACTATCCTTCAAG

Basic information

species Zea mays
transcript GRMZM2G351786_T01
intron # 6
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 3 RNA-Seq libraries.


Block sizes: 48 (upstream exon), 30 (downstream exon)
Score: 29

GAAGAGGTTGTTCTTTTGGATGGAGATACACCCCATCCAGAATCTGCTAAGGAAACATCCAATAACTGgtaaatgttc ... catttttcagGGATGCAGGGAAGCTATACTATCCTTCAAG


Block sizes: 42 (upstream exon), 30 (downstream exon)
Score: 9

GAAGAGGTTGTTCTTTTGGATGGAGATACACCCCATCCAGAATCTGCTAAGGAAACATCCAATAACTGgtaaatgttc ... catttttcagGGATGCAGGGAAGCTATACTATCCTTCAAG


Block sizes: 48 (upstream exon), 18 (downstream exon)
Score: 6

GAAGAGGTTGTTCTTTTGGATGGAGATACACCCCATCCAGAATCTGCTAAGGAAACATCCAATAACTGgtaaatgttc ... catttttcagGGATGCAGGGAAGCTATACTATCCTTCAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actctgcttatgttttgcgctagtatctgattaatgtgggaacaccatttttcagGGATGCAGGGAAGCTATACTATCCTTCAAG
                            gattaat  putative branch site (score: 6)
                                            ccatttttc  putative PPT
       ttatgtttt  TA-rich tract