Prkra protein kinase, interferon inducible double stranded RNA dependent activator [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Prkraprovided by MGI
Official Full Name: protein kinase, interferon inducible double stranded RNA dependent activatorprovided by MGI
Primary source: MGI:MGI:1344375
See related: Ensembl:ENSMUSG00000002731 AllianceGenome:MGI:1344375
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: PRK; RAX; Pact; lear
Summary: Predicted to enable several functions, including RNA binding activity; protein homodimerization activity; and protein kinase activator activity. Acts upstream of or within several processes, including ear morphogenesis; positive regulation of intrinsic apoptotic signaling pathway; and protein phosphorylation. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of RISC complex and RISC-loading complex. Predicted to be active in cytoplasm and nucleus. Is expressed in several structures, including 4-cell stage embryo; central nervous system; olfactory epithelium; and retina. Human ortholog(s) of this gene implicated in dystonia 16. Orthologous to human PRKRA (protein activator of interferon induced protein kinase EIF2AK2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in CNS E18 (RPKM 16.2), CNS E14 (RPKM 14.3) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 2 C3; 2 45.07 cM

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	2	NC_000068.8 (76436385..76478614, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	2	NC_000068.7 (76609215..76648220, complement)

Chromosome 2 - NC_000068.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Cell-type-specific need of Ddx3 and PACT for interferon induction by RNA viruses.
Title: Cell-type-specific need of Ddx3 and PACT for interferon induction by RNA viruses.
Prkra Mutation Alters mRNA Expression During Embryonic External Ear Development.
Title: Prkra Mutation Alters mRNA Expression During Embryonic External Ear Development.
Point Mutation in Prkra Alters miRNA Expression During Embryonic External Ear Development.
Title: Point Mutation in Prkra Alters miRNA Expression During Embryonic External Ear Development.
Prkra Mutation Alters Long Noncoding RNA Expression During Embryonic External Ear Development.
Title: Prkra Mutation Alters Long Noncoding RNA Expression During Embryonic External Ear Development.
PACT establishes a posttranscriptional brake on mitochondrial biogenesis by promoting the maturation of miR-181c.
Title: PACT establishes a posttranscriptional brake on mitochondrial biogenesis by promoting the maturation of miR-181c.
Dicer represses the interferon response and the double-stranded RNA-activated protein kinase pathway in mouse embryonic stem cells.
Title: Dicer represses the interferon response and the double-stranded RNA-activated protein kinase pathway in mouse embryonic stem cells.
Opposite actions of two dsRNA-binding proteins PACT and TRBP on RIG-I mediated signaling.
Title: Opposite actions of two dsRNA-binding proteins PACT and TRBP on RIG-I mediated signaling.
A genome-scale CRISPR screen reveals factors regulating Wnt-dependent renewal of mouse gastric epithelial cells.
Title: A genome-scale CRISPR screen reveals factors regulating Wnt-dependent renewal of mouse gastric epithelial cells.
PACT enhances mammalian embryonic neural stem cell properties as assessed in vitro and in vivo. PACT augments the Notch signaling pathway, a master regulator of neural stem cell fate, at the transcriptional level.
Title: PACT increases mammalian embryonic neural stem cell properties by facilitating activation of the notch signaling pathway.
TARBP2, but not PRKRA, functions in miRNA biogenesis of a subclass of miRNAs, and suggesting that functional redundancy between TARBP2 and PRKRA does not involve miRNA biogenesis.
Title: Functional Redundancy of DICER Cofactors TARBP2 and PRKRA During Murine Embryogenesis Does Not Involve miRNA Biogenesis.

Submit: New GeneRIF Correction See all GeneRIFs (23)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Chemically induced (ENU) (1) 1 citation
Endonuclease-mediated (2)
Spontaneous (4) 1 citation
Targeted (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AV120107 (e-PCR)
- UniSTS:178644

Prkra (e-PCR), detects polymorphism
- UniSTS:479203

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables double-stranded RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables double-stranded RNA binding	IEA Inferred from Electronic Annotation more info
enables double-stranded RNA binding	ISO Inferred from Sequence Orthology more info
enables enzyme binding	IEA Inferred from Electronic Annotation more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables pre-miRNA binding	IEA Inferred from Electronic Annotation more info
enables pre-miRNA binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein kinase activator activity	IEA Inferred from Electronic Annotation more info
enables protein kinase activator activity	ISO Inferred from Sequence Orthology more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info
enables siRNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in RISC complex assembly	ISO Inferred from Sequence Orthology more info
involved_in antiviral innate immune response	IEA Inferred from Electronic Annotation more info
involved_in antiviral innate immune response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to oxidative stress	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within ear development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in miRNA processing	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within middle ear morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within outer ear morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of intrinsic apoptotic signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in pre-miRNA processing	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in protein stabilization	IEA Inferred from Electronic Annotation more info
involved_in protein stabilization	ISO Inferred from Sequence Orthology more info
involved_in regulation of regulatory ncRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in siRNA processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in siRNA processing	ISO Inferred from Sequence Orthology more info
involved_in siRNA processing	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within skeletal system morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of RISC complex	IBA Inferred from Biological aspect of Ancestor more info
part_of RISC-loading complex	IBA Inferred from Biological aspect of Ancestor more info
part_of RISC-loading complex	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in intracellular anatomical structure	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: interferon-inducible double-stranded RNA-dependent protein kinase activator A

Names: PKR-associated protein X; PKR-associating protein X; protein activator of the interferon-induced protein kinase

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001421199.1 → NP_001408128.1 interferon-inducible double-stranded RNA-dependent protein kinase activator A isoform 2

Status: VALIDATED

Source sequence(s)

AL928867
NM_001421200.1 → NP_001408129.1 interferon-inducible double-stranded RNA-dependent protein kinase activator A isoform 3

Status: VALIDATED

Source sequence(s)

AL928867
NM_001421201.1 → NP_001408130.1 interferon-inducible double-stranded RNA-dependent protein kinase activator A isoform 4

Status: VALIDATED

Source sequence(s)

AL928867
NM_001421202.1 → NP_001408131.1 interferon-inducible double-stranded RNA-dependent protein kinase activator A isoform 5

Status: VALIDATED

Source sequence(s)

AL928867
NM_001421203.1 → NP_001408132.1 interferon-inducible double-stranded RNA-dependent protein kinase activator A isoform 6

Status: VALIDATED

Source sequence(s)

AL928867
NM_001421204.1 → NP_001408133.1 interferon-inducible double-stranded RNA-dependent protein kinase activator A isoform 7

Status: VALIDATED

Source sequence(s)

AL928867
NM_001421205.1 → NP_001408134.1 interferon-inducible double-stranded RNA-dependent protein kinase activator A isoform 7

Status: VALIDATED

Source sequence(s)

AL928867
NM_001421206.1 → NP_001408135.1 interferon-inducible double-stranded RNA-dependent protein kinase activator A isoform 8

Status: VALIDATED

Source sequence(s)

AL928867
NM_001421207.1 → NP_001408136.1 interferon-inducible double-stranded RNA-dependent protein kinase activator A isoform 9

Status: VALIDATED

Source sequence(s)

AL928867
NM_011871.4 → NP_036001.1 interferon-inducible double-stranded RNA-dependent protein kinase activator A isoform 1

See identical proteins and their annotated locations for NP_036001.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longest isoform (1).

Source sequence(s)

AL928867

Consensus CDS

CCDS16159.1

UniProtKB/Swiss-Prot

Q9CZB7, Q9WTX2

Related

ENSMUSP00000002808.7, ENSMUST00000002808.7

Conserved Domains (3) summary

cd19889
Location:32 → 102

DSRM_PRKRA_rpt1; first double-stranded RNA binding motif of protein activator of the interferon-induced protein kinase (PRKRA) and similar proteins

cd19891
Location:126 → 192

DSRM_PRKRA_rpt2; second double-stranded RNA binding motif of protein activator of the interferon-induced protein kinase (PRKRA) and similar proteins

cd19892
Location:239 → 310

DSRM_PRKRA_rpt3; third double-stranded RNA binding motif of protein activator of the interferon-induced protein kinase (PRKRA) and similar proteins

RNA

NR_185269.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AL928867
NR_185270.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AL928867
NR_185271.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AL928867

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000068.8 Reference GRCm39 C57BL/6J

Range

76436385..76478614 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_030250935.2 → XP_030106795.1 interferon-inducible double-stranded RNA-dependent protein kinase activator A isoform X2

Conserved Domains (3) summary

cd19889
Location:113 → 183

DSRM_PRKRA_rpt1; first double-stranded RNA binding motif of protein activator of the interferon-induced protein kinase (PRKRA) and similar proteins

cd19891
Location:207 → 273

DSRM_PRKRA_rpt2; second double-stranded RNA binding motif of protein activator of the interferon-induced protein kinase (PRKRA) and similar proteins

cl00054
Location:320 → 342

DSRM_SF; double-stranded RNA binding motif (DSRM) superfamily