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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatcatttgatatcctttgttggtttttattttccccatgccatggtcactgacagccagggttagagatcatgtaacttttctactatttttatttagGTACAGTACTAAGTGCAGATTTTCAACATGAAGTCCAAGCAATGCAACAAGTAGTGGCATCTAACGATAGACTGAATGAACTATCAACTTCAGAATTTGC

Basic information

species Zea mays
transcript GRMZM2G421829_T01
intron # 7
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: 48 (upstream exon), 48 (downstream exon)
Score: 127

CCTTTGGCTGTAAATGATTCAGAGCCATGTGTTGATGGTTCTGCTGGACCATCTGTGGTGAACCTGGTACAGATGGATGGTCCATTATTTGATGCACAAGgtaatcattt ... ttttatttagGTACAGTACTAAGTGCAGATTTTCAACATGAAGTCCAAGCAATGCAACAAGTAGTGGCATCTAACGATAGACTGAATGAACTATCAACTTCAGAATTTGC


Block sizes: 44 (upstream exon), 48 (downstream exon)
Score: 64

CCTTTGGCTGTAAATGATTCAGAGCCATGTGTTGATGGTTCTGCTGGACCATCTGTGGTGAACCTGGTACAGATGGATGGTCCATTATTTGATGCACAAGgtaatcattt ... ttttatttagGTACAGTACTAAGTGCAGATTTTCAACATGAAGTCCAAGCAATGCAACAAGTAGTGGCATCTAACGATAGACTGAATGAACTATCAACTTCAGAATTTGC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 55

CCTTTGGCTGTAAATGATTCAGAGCCATGTGTTGATGGTTCTGCTGGACCATCTGTGGTGAACCTGGTACAGATGGATGGTCCATTATTTGATGCACAAGgtaatcattt ... ttttatttagGTACAGTACTAAGTGCAGATTTTCAACATGAAGTCCAAGCAATGCAACAAGTAGTGGCATCTAACGATAGACTGAATGAACTATCAACTTCAGAATTTGC


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 64

CCTTTGGCTGTAAATGATTCAGAGCCATGTGTTGATGGTTCTGCTGGACCATCTGTGGTGAACCTGGTACAGATGGATGGTCCATTATTTGATGCACAAGgtaatcattt ... ttttatttagGTACAGTACTAAGTGCAGATTTTCAACATGAAGTCCAAGCAATGCAACAAGTAGTGGCATCTAACGATAGACTGAATGAACTATCAACTTCAGAATTTGC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtcactgacagccagggttagagatcatgtaacttttctactatttttatttagGTACAGTACTAAGTGCAGATTTTCAACATGAAGTCCAAGCAATGCAACAAGTAGTGGCATCTAACGATAGACTGAATGAACTATCAACTTCAGAATTTGC
                                 cttttctactattttt  CT-rich tract
                           atgtaacttttctact  TA-rich tract