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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaacatgtttgattttatttacttggaaaacgatccatttatatgttacatctgaatgtacttcatatcatctttagtaatttttttttgtgttgacagGTCATGTGATGCTTTACTTGCAAATCCTGCTACCTCACTTGTGGTCCCTGCAATCGGGATTATTGTGTTTGCTCTGTGGGGTTTTTTGCCTCTAATGCGG

Basic information

species Zea mays
transcript GRMZM2G028914_T02
intron # 4
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: 46 (upstream exon), 48 (downstream exon)
Score: 78

CACCTCGCAGATATAGATCTTTGGGCTTTAGATCTTTTGCCTTGCCAATTCCTTTGAAGGAAATTCCTCTTGTCAAGAACACATCATTAGCACTAACTAGgtaattccct ... gtgttgacagGTCATGTGATGCTTTACTTGCAAATCCTGCTACCTCACTTGTGGTCCCTGCAATCGGGATTATTGTGTTTGCTCTGTGGGGTTTTTTGCCTCTAATGCGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 165

CACCTCGCAGATATAGATCTTTGGGCTTTAGATCTTTTGCCTTGCCAATTCCTTTGAAGGAAATTCCTCTTGTCAAGAACACATCATTAGCACTAACTAGgtaattccct ... gtgttgacagGTCATGTGATGCTTTACTTGCAAATCCTGCTACCTCACTTGTGGTCCCTGCAATCGGGATTATTGTGTTTGCTCTGTGGGGTTTTTTGCCTCTAATGCGG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 146

CACCTCGCAGATATAGATCTTTGGGCTTTAGATCTTTTGCCTTGCCAATTCCTTTGAAGGAAATTCCTCTTGTCAAGAACACATCATTAGCACTAACTAGgtaattccct ... gtgttgacagGTCATGTGATGCTTTACTTGCAAATCCTGCTACCTCACTTGTGGTCCCTGCAATCGGGATTATTGTGTTTGCTCTGTGGGGTTTTTTGCCTCTAATGCGG


Block sizes: 49 (upstream exon), 46 (downstream exon)
Score: 104

CACCTCGCAGATATAGATCTTTGGGCTTTAGATCTTTTGCCTTGCCAATTCCTTTGAAGGAAATTCCTCTTGTCAAGAACACATCATTAGCACTAACTAGgtaattccct ... gtgttgacagGTCATGTGATGCTTTACTTGCAAATCCTGCTACCTCACTTGTGGTCCCTGCAATCGGGATTATTGTGTTTGCTCTGTGGGGTTTTTTGCCTCTAATGCGG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttacatctgaatgtacttcatatcatctttagtaatttttttttgtgttgacagGTCATGTGATGCTTTACTTGCAAATCCTGCTACCTCACTTGTGGTCCCTGCAATCGGGATTATTGTGTTTGCTCTGTGGGGTTTTTTGCCTCTAATGCGG
                                    tttttttttgtgtt  CT-rich tract
                 ttcatatcatctttag  TA-rich tract