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

    Gene ID: 72029, updated on 2-Nov-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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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