DreINT0016263 @ danRer10
Intron Retention
Gene
ENSDARG00000103288 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:50960121-50960501:+
Coord C1 exon
chr18:50960121-50960269
Coord A exon
chr18:50960270-50960388
Coord C2 exon
chr18:50960389-50960501
Length
119 bp
Sequences
Splice sites
5' ss Seq
CAGGTTCAG
5' ss Score
2.78
3' ss Seq
CTCCTCTGCTCCTCCTCCAGCTT
3' ss Score
8.79
Exon sequences
Seq C1 exon
TCCTCAGGGGATCAGGCTCTGCATCTGCTGCAGCGTCTCTGTGCTAATGATCTGGATGTTCCGGTCGGGCACATCGTGCACACGGGCATGCTGAACGCCAGAGGAGGCTACGAGAACGACTGCAGCGTGGTGCGCCTCAGCAAGAACAG
Seq A exon
GTTCAGTGTGTCCTCAGTGTCAGTATATTGCTCTCCCTCACTGTCAGTCAGCTGGAGGGTGAGTGTGTGTGTGTGTGTGTGTGTGCGAGGTGTTCACTCCTCCTCTGCTCCTCCTCCAG
Seq C2 exon
CTTCTTCATCATCTCTCCCACTGATCAGCAAGTGCACTGCTGGTCCTGGATGAAGCAGCACATGCCGAGCGACCCGCAGCTCCACCTGGAGGACGTCAGCTGGAAGTACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103288:ENSDART00000158517:13
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(22.5=100)
A:
NA
C2:
PF0157116=GCV_T=FE(17.4=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:
GATCAGGCTCTGCATCTGCTG
R:
TGTACTTCCAGCTGACGTCCT
Band lengths:
250-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]