DreINT0016272 @ danRer10
Intron Retention
Gene
ENSDARG00000103288 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:50957848-50958344:+
Coord C1 exon
chr18:50957848-50957965
Coord A exon
chr18:50957966-50958194
Coord C2 exon
chr18:50958195-50958344
Length
229 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTTCTGTCTCTGTCTCGCAGTGG
3' ss Score
10.61
Exon sequences
Seq C1 exon
TGGGCGTATGAGCTGGGTCAGAGCAGTGAGGTGAAGGTGTCTGTTCCTCTGCATGGATGTGAGCACTTCTACCTGCTGACCAAACCTCTTTCTGAGCCGCTACCGTCCGACAGTCCAG
Seq A exon
GTGAGACCTCAACTACATCTGCAGACAGAGCTACACCTGAAAACACAGAAACTGAAAACACTGAAACTACACCTGAAAACGCTGAAACTACACCTGAAAACACAGAAACTACACCTGAAAACACTGAAACTACACCTGAAAACACTGAAACTACAGGAGAACCCTAACTACACCTTGTTACTGATCTATTCTCTCTCTGTTTATGACGGTTTCTGTCTCTGTCTCGCAG
Seq C2 exon
TGGTGATCGACATGGACGGACGGATCTATGCGCGCTCTTGGCATGGGGGAATCCTGTCTGGAGGTTTCGAGAAGAACCCCAAACCCATCTTCACTGAGGGACGCAACCAGCTGGAGGTGCAGAACATGCAGGAGGACTGGGATCACTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103288:ENSDART00000158517:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.098
Domain overlap (PFAM):
C1:
PF0126619=DAO=FE(10.9=100)
A:
NA
C2:
PF0126619=DAO=FE(13.9=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:
TGGGCGTATGAGCTGGGTC
R:
CGAAGTGATCCCAGTCCTCCT
Band lengths:
268-497
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]