DreINT0016265 @ danRer10
Intron Retention
Gene
ENSDARG00000103288 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:50960590-50960883:+
Coord C1 exon
chr18:50960590-50960684
Coord A exon
chr18:50960685-50960793
Coord C2 exon
chr18:50960794-50960883
Length
109 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TGTGTGTGTGTGTTTTGCAGGAA
3' ss Score
12.57
Exon sequences
Seq C1 exon
CGCTGAATCTGATTGGTCCTCGAGCCATGGATGTGCTGTCCGAACTCTCGTATGTGTCCATGACTCCAGAGCACTTCCCTTCGCTCTTCTGTAAG
Seq A exon
GTGAGACGCCTGTGTGCTGTGTGGTCATGTGACGTCTCCTGTGTGGTCATGTGATGTCTCCTGTGTGGTCGTGTGACGTCACCTGAGTGTGTGTGTGTGTGTTTTGCAG
Seq C2 exon
GAAATGAGCGTGGGCTACGCTAACGGCATCAGAGTGATGAGCATGACACACACAGGAGAGCCGGGGTTCATGCTGTATATTCCCATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103288:ENSDART00000158517:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0157116=GCV_T=FE(14.2=100)
A:
NA
C2:
PF0157116=GCV_T=FE(13.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCTGAATCTGATTGGTCCTCG
R:
GGAATATACAGCATGAACCCCGG
Band lengths:
178-287
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]