DreINT0016262 @ danRer10
Intron Retention
Gene
ENSDARG00000103288 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:50959895-50960269:+
Coord C1 exon
chr18:50959895-50960028
Coord A exon
chr18:50960029-50960120
Coord C2 exon
chr18:50960121-50960269
Length
92 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TGTGTGTGTGTGTGTGTCAGTCC
3' ss Score
8.17
Exon sequences
Seq C1 exon
ACCTGCTGGCGCTGGATCAGAGTAAGACCTTCTACAAGCCGGACTGGTTTGATATCGTGGGCGCGGAGGTGAAGTGCTGTAAGGAGGCGGTGTGTGTGATCGACATGTCCTCCTTCACCAAGTTTGAGCTCACA
Seq A exon
GTGAGTCCGACACACCTCATCATGGCCTGAGTGACCCGTCTGAGGAGCACAGCCTTCATCTGAGTGTGTGTGTGTGTGTGTGTGTGTGTCAG
Seq C2 exon
TCCTCAGGGGATCAGGCTCTGCATCTGCTGCAGCGTCTCTGTGCTAATGATCTGGATGTTCCGGTCGGGCACATCGTGCACACGGGCATGCTGAACGCCAGAGGAGGCTACGAGAACGACTGCAGCGTGGTGCGCCTCAGCAAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103288:ENSDART00000158517:12
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=PU(5.5=26.7)
A:
NA
C2:
PF0157116=GCV_T=FE(22.5=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:
CGGTGTGTGTGATCGACATGT
R:
GTCGTTCTCGTAGCCTCCTCT
Band lengths:
167-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]