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Cnpy3 canopy FGF signaling regulator 3 [ Mus musculus (house mouse) ]

Gene ID: 72029, updated on 28-Oct-2024

Summary

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Official Symbol
Cnpy3provided by MGI
Official Full Name
canopy FGF signaling regulator 3provided by MGI
Primary source
MGI:MGI:1919279
See related
Ensembl:ENSMUSG00000023973 AllianceGenome:MGI:1919279
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
CAG4A; ERDA5; Tnrc5; PRAT4A; 1600025D17Rik; 2410050O22Rik
Summary
This gene encodes a member of the canopy family of proteins. The encoded protein may play a role in the maturation of toll-like receptors. Homozygous knockout mice for this gene show reduced cell surface expression of toll-like receptors and an impaired immune response including reduced production of cytokines in a mouse model of sepsis. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Apr 2015]
Expression
Ubiquitous expression in spleen adult (RPKM 22.5), adrenal adult (RPKM 22.5) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Cnpy3 in Genome Data Viewer
Location:
17 22.9 cM; 17 C
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (47046637..47063639, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (46735711..46752713, complement)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene peroxisomal biogenesis factor 6 Neighboring gene glycine N-methyltransferase Neighboring gene STARR-positive B cell enhancer ABC_E2490 Neighboring gene STARR-positive B cell enhancer ABC_E3204 Neighboring gene pre T cell antigen receptor alpha Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:46900557-46900758 Neighboring gene peroxisomal biogenesis factor 39

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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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Related articles in PubMed

  1. A novel rare variant of CNPY3 from familial NMOSD impairs the TLR-mediated immune response. Mo Y, et al. J Neuroimmunol, 2023 Apr 15. PMID 36931208
  2. Biallelic Variants in CNPY3, Encoding an Endoplasmic Reticulum Chaperone, Cause Early-Onset Epileptic Encephalopathy. Mutoh H, et al. Am J Hum Genet, 2018 Feb 1. PMID 29394991, Free PMC Article
  3. Toll-like receptor and accessory molecule mRNA expression in humans and mice as well as in murine autoimmunity, transient inflammation, and progressive fibrosis. Ramaiah SK, et al. Int J Mol Sci, 2013 Jun 26. PMID 23803655, Free PMC Article
  4. A single base mutation in the PRAT4A gene reveals differential interaction of PRAT4A with Toll-like receptors. Kiyokawa T, et al. Int Immunol, 2008 Nov. PMID 18780723
  5. Intracellular TLR4/MD-2 in macrophages senses Gram-negative bacteria and induces a unique set of LPS-dependent genes. Shibata T, et al. Int Immunol, 2011 Aug. PMID 21712422

See all (30) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. A novel rare variant of CNPY3 from familial NMOSD impairs the TLR-mediated immune response.
    Title: A novel rare variant of CNPY3 from familial NMOSD impairs the TLR-mediated immune response.
  2. The SLITRK4-CNPY3 axis promotes liver metastasis of gastric cancer by enhancing the endocytosis and recycling of TrkB in tumour cells.
    Title: The SLITRK4-CNPY3 axis promotes liver metastasis of gastric cancer by enhancing the endocytosis and recycling of TrkB in tumour cells.
  3. HuR regulates Paneth cell function by modulating TLR2 localization via posttranscriptional control of CNPY3 expression.
    Title: RNA-Binding Protein HuR Regulates Paneth Cell Function by Altering Membrane Localization of TLR2 via Post-transcriptional Control of CNPY3.
  4. association with PRAT4A is required for ligand-induced trafficking of TLR9 to endolysosomes
    Title: Regulatory molecules required for nucleotide-sensing Toll-like receptors.
  5. Cell surface expression of TLR5 is dependent on PRAT4A and restricted to neutrophils, classical monocytes and specific DC subsets.
    Title: PRAT4A-dependent expression of cell surface TLR5 on neutrophils, classical monocytes and dendritic cells.
  6. Data suggest that CNPY3 interacts with the ATP-sensitive conformation of gp96 to promote substrate loading. Our study has thus established CNPY3 as a TLR-specific cochaperone for gp96.
    Title: Folding of Toll-like receptors by the HSP90 paralogue gp96 requires a substrate-specific cochaperone.
  7. single base mutant associates preferentially with TLR9, and differentially interacts with TLR2, 4 and 9
    Title: A single base mutation in the PRAT4A gene reveals differential interaction of PRAT4A with Toll-like receptors.
  8. PRAT4A regulates the subcellular distribution and response of multiple toll-like recaptors and is required for both innate and adaptive immune responses
    Title: A protein associated with Toll-like receptor (TLR) 4 (PRAT4A) is required for TLR-dependent immune responses.
  9. PRAT4A is a novel protein associated with toll-like receptor (TLR) 4 that regulates cell surface expression of receptor complex TLR4/MD-2.
    Title: A protein associated with toll-like receptor 4 (PRAT4A) regulates cell surface expression of TLR4.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Gene trapped (1) 
  • Targeted (1)  1 citation

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables signaling receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables signaling receptor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in innate immune response IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
protein canopy homolog 3
Names
canopy 3 homolog
protein associated with Tlr4
protein associated with toll-like receptor 4
trinucleotide repeat-containing gene 5 protein

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)

  1. NM_001305988.1 → NP_001292917.1  protein canopy homolog 3 isoform 2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate exon in the 3' coding region, resulting in a frameshift and an early stop codon, compared to variant 1. The encoded isoform (2) has a shorter and distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AA028507, AK005532, AK085617, BB857917, BY245140
    UniProtKB/Swiss-Prot
    Q9DAU1
    Conserved Domains (1) summary
    pfam11938
    Location:48 → 165
    DUF3456; TLR4 regulator and MIR-interacting MSAP

  2. NM_001305989.1 → NP_001292918.1  protein canopy homolog 3 isoform 3

    See identical proteins and their annotated locations for NP_001292918.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an exon in its 5' UTR and uses a downstream in-frame start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus compared to isoform 1. Variants 3 and 4 encode the same isoform (3).
    Source sequence(s)
    AA028507, AK005532, AK085617, BB857917, BY245140
    UniProtKB/Swiss-Prot
    Q9DAU1
    Conserved Domains (1) summary
    pfam11938
    Location:1 → 69
    DUF3456; TLR4 regulator and MIR-interacting MSAP

  3. NM_001305990.1 → NP_001292919.1  protein canopy homolog 3 isoform 3

    See identical proteins and their annotated locations for NP_001292919.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks two exons in its 5' UTR and uses a downstream in-frame start codon, compared to variant 1. The encoded isoform (4) has a shorter N-terminus compared to isoform 1. Variants 3 and 4 encode the same isoform (3).
    Source sequence(s)
    AK082340, AK085617, BB857917
    UniProtKB/Swiss-Prot
    Q9DAU1
    Conserved Domains (1) summary
    pfam11938
    Location:1 → 69
    DUF3456; TLR4 regulator and MIR-interacting MSAP

  4. NM_028065.4 → NP_082341.1  protein canopy homolog 3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_082341.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AA028507, AK005532, AK085617, BB857917, BY245140
    Consensus CDS
    CCDS28839.1
    UniProtKB/Swiss-Prot
    Q571I0, Q8BUS5, Q8BUV5, Q8C0C5, Q9DAU1
    Related
    ENSMUSP00000050309.7, ENSMUST00000059844.13
    Conserved Domains (1) summary
    pfam11938
    Location:48 → 194
    DUF3456; TLR4 regulator and MIR-interacting MSAP

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

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    47046637..47063639 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030250060.1 → XP_030105920.1  protein canopy homolog 3 isoform X1

    Conserved Domains (1) summary
    pfam11938
    Location:1 → 69
    DUF3456; TLR4 regulator and MIR-interacting MSAP
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9DAU1.1 GenPept UniProtKB/Swiss-Prot:Q9DAU1

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