DreEX0006645 @ danRer10
Exon Skipping
Gene
ENSDARG00000103288 | PDPR
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:HGNC Symbol;Acc:HGNC:30264]
Coordinates
chr18:50960794-50962032:+
Coord C1 exon
chr18:50960794-50960883
Coord A exon
chr18:50961005-50961187
Coord C2 exon
chr18:50961433-50962032
Length
183 bp
Sequences
Splice sites
3' ss Seq
CGGTGATTCTGCTTTCCCAGTAT
3' ss Score
4.29
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
Exon sequences
Seq C1 exon
GAAATGAGCGTGGGCTACGCTAACGGCATCAGAGTGATGAGCATGACACACACAGGAGAGCCGGGGTTCATGCTGTATATTCCCATTGAG
Seq A exon
TATGCACTGCACGTGTATAATGAGGTGATGTCGGTGGGCCAGAAGTACGGCATCCGCAACGCCGGCTACTACGCTCTGCGGAGTCTGCGCATCGAGAAGTTCTTTGCGTTCTGGGGTCAGGATCTGGACTCGTTCACCACACCGCTGGAGTGCGGACGCGAGTTCAGGGTCAAGTTTGACAAG
Seq C2 exon
GACACAGATTTCCTGGGCCGGGCCGCTCTGCTGCAGCAGCGTGAGTTAGGGGTGACGCGGCGCTTCCTCATGCTGGTTCTGGAGGATCATGATGCGGAGTTGGACCTGTGGCCGTGGTGGGGTGAGCCCATATATCGCAGCGGGCAGCTAGCGGGCACCACCAGCAGCAGCGCCTACAGCTACACCCTGCAGCGGCACGTGTGTCTGGGCTTCATCCGGCGGCTGGAGGACGGCGCGCCCGCGGTGATCACGCCCGAGTTCATCAACCGCGGAGACTACGAGGTGGAGATCGCCGGGCAGCGCTTCCCCGCCAAAGCCAAGCTCTACCCGTTCAGCTCACTGTTCGCCCAGCAGCGGCGCCGCAAGGAGGACCTGGAGCTCAGCAACTTCCAGAGCAAGTGAAGCGGAGAGACCATCAGTACCTGCAGACAATCACCTGTACCTGCACCGGCTGAGGGACGCTGCGCTGCTCCTGCAGGTGTGGATCTGCCCTCATCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103288-'28-20,'28-19,29-20
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0157116=GCV_T=FE(13.3=100)
A:
PF0157116=GCV_T=PD(25.2=90.2)
C2:
PF086696=GCV_T_C=WD(100=79.9)
Main Skipping 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:
AGCCGGGGTTCATGCTGTATA
R:
GATGAAGCCCAGACACACGTG
Band lengths:
248-431
Functional annotations
There are 1 annotated functions for this event
PMID: 32249828
[CRISPR screen]. This alternative exon is implicated in cell fitness by a CRISPR-based exon deletion phenotypic screen in RPE-1 cells.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]