RnoEX0064646 @ rn6
Exon Skipping
Gene
ENSRNOG00000022593 | Pdpr
Description
pyruvate dehydrogenase phosphatase regulatory subunit [Source:RGD Symbol;Acc:1308307]
Coordinates
chr19:43109427-43115109:-
Coord C1 exon
chr19:43115020-43115109
Coord A exon
chr19:43111504-43111686
Coord C2 exon
chr19:43109427-43110030
Length
183 bp
Sequences
Splice sites
3' ss Seq
CTTTTCTTCTCTTCATATAGTAT
3' ss Score
8.04
5' ss Seq
AAGGTATTT
5' ss Score
7.64
Exon sequences
Seq C1 exon
GAGATGAGTGTGGGCTATGCAAATGGGATCCGGGTGATGAGTATGACTCACACAGGAGAACCAGGATTCATGCTGTATATCCCCATAGAG
Seq A exon
TATGCTCTGCATGTCTACAATGAGGTGATGAGTGTTGGACAGAAATATGGAATCCGGAATGCTGGGTATTACGCTCTCAGAAGTCTCCGAATTGAGAAGTTTTTTGCTTTCTGGGGTCAGGACTTAAACACCCTCACCACGCCCCTGGAATGTGGAGGAGAGTCTCGCGTGAAGTTAGAGAAG
Seq C2 exon
GGCATAGACTTCATCGGTCGGGATGCCCTGCTGCAGCAAAAGCAGACCGGGGTATATAAACGCCTCGTTATGTTTATTCTGGATGACCATGACACAGACCTGGACTTGTGGCCTTGGTGGGGAGAACCCATTTACCGGAACGGAAAGTACGCTGGCAAGACCACCAGCAGTGCCTACAGCTACACTCTTGAGCGCCATGTATGCCTGGGCTATGTACACAACTTTTCTGAGGACAGCGGGGAAGAGCAGGTGGTGACAGCAGATTTCATCAACCGAGGAGAATATGAGATTGACATTGCAGGACATCGGTTTCAGGCCAAGGCCAAGCTCTACCCCGTCACCTCTTTTTTCACTCACAAGCGTAGAAAGGATGACGTGGAGCTGAGTGACTTTCATGGGAAGTAATGCAAGACTTTTTCCCTTCCTCCCATCCTCTCACCATGAGGAGCATCGTTCTGGGAGCTGACCTTTCCTCTGTCCCTGTCTCCTCACTGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022593-'26-28,'26-27,28-28
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=80.7)
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:
AGTGTGGGCTATGCAAATGGG
R:
TGGTCTTGCCAGCGTACTTTC
Band lengths:
247-430
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]