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Aliases for CNPY3 Gene

Aliases for CNPY3 Gene

  • Canopy FGF Signaling Regulator 3 2 3 5
  • Trinucleotide Repeat-Containing Gene 5 Protein 3 4
  • Expanded Repeat-Domain Protein CAG/CTG 5 3 4
  • Protein Associated With TLR4 3 4
  • CTG Repeat Protein 4a 3 4
  • PRAT4A 3 4
  • TNRC5 3 4
  • ERDA5 3 4
  • Protein Associated With Toll-Like Receptor 4A 3
  • Trinucleotide Repeat Containing 5 2
  • Canopy 3 Homolog (Zebrafish) 2
  • Protein Canopy Homolog 3 3
  • CAG Repeat Containing 3
  • EIEE60 3
  • CAG4A 3
  • CTG4A 4

External Ids for CNPY3 Gene

Previous HGNC Symbols for CNPY3 Gene

  • TNRC5

Previous GeneCards Identifiers for CNPY3 Gene

  • GC06P043004
  • GC06P042897
  • GC06P042614
  • GC06P042901

Summaries for CNPY3 Gene

Entrez Gene Summary for CNPY3 Gene

  • This gene encodes a protein that binds members of the toll-like receptor protein family and functions as a chaperone to aid in folding and export of these proteins. Alternative splicing results in multiple transcript variants. Naturally occuring readthrough transcription occurs between this locus and the downstream GNMT (glycine N-methyltransferase) gene and is represented with GeneID:107080644. [provided by RefSeq, Jan 2016]

GeneCards Summary for CNPY3 Gene

CNPY3 (Canopy FGF Signaling Regulator 3) is a Protein Coding gene. Diseases associated with CNPY3 include Epileptic Encephalopathy, Early Infantile, 60 and Swayback. Among its related pathways are Activated TLR4 signalling and Innate Immune System. Gene Ontology (GO) annotations related to this gene include signaling receptor binding. An important paralog of this gene is CNPY4.

UniProtKB/Swiss-Prot for CNPY3 Gene

  • Toll-like receptor (TLR)-specific co-chaperone for HSP90B1. Required for proper TLR folding, except that of TLR3, and hence controls TLR exit from the endoplasmic reticulum. Consequently, required for both innate and adaptive immune responses (By similarity).

Additional gene information for CNPY3 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CNPY3 Gene

Genomics for CNPY3 Gene

GeneHancer (GH) Regulatory Elements for CNPY3 Gene

Promoters and enhancers for CNPY3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06J042928 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 650.7 +1.7 1667 5.6 CLOCK MLX ZFP64 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 PIR33684 GC06M042930 CNPY3 GNMT PEX6 ZNF318 POLH GTPBP2 XPO5 RRP36
GH06J042927 Enhancer 0.2 dbSUPER 650.7 -1.6 -1631 0.6 CNPY3 GC06M042930 PIR33684 GC06P042927 RPL24P4 PEX6 PPP2R5D MEA1 KLHDC3 KLC4
GH06J042901 Enhancer 1.4 Ensembl ENCODE dbSUPER 12.3 -26.1 -26071 3.3 FOXA2 ARNT ZFP64 ARID4B DMAP1 ZNF2 ZNF48 YY1 SLC30A9 TCF12 LOC105375063 RPL7L1 PEX6 CNPY3 ENSG00000231113 PPP2R5D KLC4 RN7SL403P CUL7 MEA1
GH06J043119 Enhancer 1.2 Ensembl ENCODE dbSUPER 10.9 +194.3 194268 8.7 ZNF121 GLIS2 EGR1 SCRT2 RCOR1 FOS EGR2 ZNF263 ZNF362 CEBPB CUL7 ABCC10 BICRAL ZNF318 RPL34P14 PTK7 KLC4 CUL9 RN7SL403P PPP2R5D
GH06J042893 Enhancer 1.1 Ensembl ENCODE 11.3 -35.2 -35221 1 ATF1 ARNT ARID4B TCF12 ATF7 NCOA1 ZNF592 KAT8 MEF2D GMEB1 GC06P042892 RPL7L1 CNPY3 ENSG00000231113 RNU6-890P PPP2R5D MEA1 KLHDC3 PEX6 KLC4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CNPY3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CNPY3 gene promoter:
  • AP-4
  • LCR-F1
  • GR-alpha
  • GR
  • AML1a
  • NF-kappaB
  • NF-kappaB1
  • RelA
  • GATA-2
  • CBF(2)

Genomic Locations for CNPY3 Gene

Genomic Locations for CNPY3 Gene
chr6:42,929,122-42,939,287
(GRCh38/hg38)
Size:
10,166 bases
Orientation:
Plus strand
chr6:42,896,860-42,907,025
(GRCh37/hg19)
Size:
10,166 bases
Orientation:
Plus strand

Genomic View for CNPY3 Gene

Genes around CNPY3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CNPY3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CNPY3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CNPY3 Gene

Proteins for CNPY3 Gene

  • Protein details for CNPY3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BT09-CNPY3_HUMAN
    Recommended name:
    Protein canopy homolog 3
    Protein Accession:
    Q9BT09
    Secondary Accessions:
    • O15412
    • Q0P6I2
    • Q8NF54
    • Q8WTU8
    • Q9P0F2

    Protein attributes for CNPY3 Gene

    Size:
    278 amino acids
    Molecular mass:
    30748 Da
    Quaternary structure:
    • Interacts with HSP90B1; this interaction is disrupted in the presence of ATP. Interacts with TLR1, TLR2, TLR4 and TLR9 (By similarity). Strongest interaction with TLR4 (By similarity).
    SequenceCaution:
    • Sequence=AAB91442.1; Type=Frameshift; Positions=109; Evidence={ECO:0000305}; Sequence=AAF28907.1; Type=Frameshift; Positions=252; Evidence={ECO:0000305};

    Alternative splice isoforms for CNPY3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CNPY3 Gene

Post-translational modifications for CNPY3 Gene

  • Glycosylation at Thr271 and Asn153
  • Modification sites at PhosphoSitePlus

Other Protein References for CNPY3 Gene

No data available for DME Specific Peptides for CNPY3 Gene

Domains & Families for CNPY3 Gene

Gene Families for CNPY3 Gene

Protein Domains for CNPY3 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for CNPY3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9BT09

UniProtKB/Swiss-Prot:

CNPY3_HUMAN :
  • Belongs to the canopy family.
Family:
  • Belongs to the canopy family.
genes like me logo Genes that share domains with CNPY3: view

Function for CNPY3 Gene

Molecular function for CNPY3 Gene

UniProtKB/Swiss-Prot Function:
Toll-like receptor (TLR)-specific co-chaperone for HSP90B1. Required for proper TLR folding, except that of TLR3, and hence controls TLR exit from the endoplasmic reticulum. Consequently, required for both innate and adaptive immune responses (By similarity).

Phenotypes From GWAS Catalog for CNPY3 Gene

Gene Ontology (GO) - Molecular Function for CNPY3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005102 signaling receptor binding IEA --
genes like me logo Genes that share ontologies with CNPY3: view
genes like me logo Genes that share phenotypes with CNPY3: view

Animal Models for CNPY3 Gene

MGI Knock Outs for CNPY3:

Animal Model Products

  • Taconic Biosciences Mouse Models for CNPY3

CRISPR Products

miRNA for CNPY3 Gene

miRTarBase miRNAs that target CNPY3

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CNPY3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CNPY3 Gene

Localization for CNPY3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CNPY3 Gene

Endoplasmic reticulum.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CNPY3 gene
Compartment Confidence
endoplasmic reticulum 5
extracellular 3
nucleus 2
cytosol 2
lysosome 2
endosome 2

Gene Ontology (GO) - Cellular Components for CNPY3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IEA --
GO:0005788 endoplasmic reticulum lumen TAS --
GO:0012505 endomembrane system IBA --
genes like me logo Genes that share ontologies with CNPY3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CNPY3 Gene

Pathways & Interactions for CNPY3 Gene

genes like me logo Genes that share pathways with CNPY3: view

Pathways by source for CNPY3 Gene

Gene Ontology (GO) - Biological Process for CNPY3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002224 toll-like receptor signaling pathway TAS --
GO:0002376 immune system process IEA --
GO:0045087 innate immune response IEA --
genes like me logo Genes that share ontologies with CNPY3: view

No data available for SIGNOR curated interactions for CNPY3 Gene

Drugs & Compounds for CNPY3 Gene

No Compound Related Data Available

Transcripts for CNPY3 Gene

mRNA/cDNA for CNPY3 Gene

Unigene Clusters for CNPY3 Gene

Canopy 3 homolog (zebrafish):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CNPY3

Alternative Splicing Database (ASD) splice patterns (SP) for CNPY3 Gene

ExUns: 1 ^ 2a · 2b ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b · 5c · 5d · 5e ^ 6 ^ 7a · 7b ^ 8a · 8b · 8c · 8d ^ 9 ^ 10 ^ 11 ^ 12
SP1: - - - - -
SP2: - - - - - - - -
SP3: - - - - - - -
SP4: - - - - - - - - -
SP5: - - - - -
SP6:
SP7: - - - - - - - - - -
SP8: - - -
SP9: - - -
SP10: - - -
SP11: - - - -
SP12: - - - - - -
SP13:

Relevant External Links for CNPY3 Gene

GeneLoc Exon Structure for
CNPY3
ECgene alternative splicing isoforms for
CNPY3

Expression for CNPY3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CNPY3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CNPY3 Gene

This gene is overexpressed in Whole Blood (x10.2).

Protein differential expression in normal tissues from HIPED for CNPY3 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (28.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CNPY3 Gene



Protein tissue co-expression partners for CNPY3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CNPY3 Gene:

CNPY3

SOURCE GeneReport for Unigene cluster for CNPY3 Gene:

Hs.414099

Evidence on tissue expression from TISSUES for CNPY3 Gene

  • Nervous system(4.7)
  • Spleen(4.5)
  • Blood(4.4)
  • Intestine(4.3)
  • Liver(4.3)
  • Lung(4.3)
  • Lymph node(2.2)
genes like me logo Genes that share expression patterns with CNPY3: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CNPY3 Gene

Orthologs for CNPY3 Gene

This gene was present in the common ancestor of animals.

Orthologs for CNPY3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CNPY3 34 33
  • 99.4 (n)
OneToOne
dog
(Canis familiaris)
Mammalia CNPY3 34 33
  • 90.9 (n)
OneToOne
cow
(Bos Taurus)
Mammalia CNPY3 34 33
  • 90.12 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Cnpy3 33
  • 85.99 (n)
mouse
(Mus musculus)
Mammalia Cnpy3 16 34 33
  • 85.14 (n)
oppossum
(Monodelphis domestica)
Mammalia CNPY3 34
  • 82 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CNPY3 34
  • 76 (a)
OneToOne
chicken
(Gallus gallus)
Aves LOC100858990 33
  • 75.8 (n)
CNPY3 34
  • 69 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia CNPY3 34
  • 67 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.18156 33
zebrafish
(Danio rerio)
Actinopterygii tnrc5 34 33
  • 65.43 (n)
OneToOne
Dr.18916 33
fruit fly
(Drosophila melanogaster)
Insecta CG11577 34
  • 44 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea C11H1.7 34 33
  • 48.96 (n)
OneToMany
Species where no ortholog for CNPY3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for CNPY3 Gene

ENSEMBL:
Gene Tree for CNPY3 (if available)
TreeFam:
Gene Tree for CNPY3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CNPY3: view image

Paralogs for CNPY3 Gene

Paralogs for CNPY3 Gene

(1) SIMAP similar genes for CNPY3 Gene using alignment to 1 proteins:

  • CNPY3_HUMAN
genes like me logo Genes that share paralogs with CNPY3: view

Variants for CNPY3 Gene

Sequence variations from dbSNP and Humsavar for CNPY3 Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1000205950 -- 42,929,646(+) C/T 5_prime_UTR_variant, coding_sequence_variant, missense_variant, non_coding_transcript_variant
rs1000504149 -- 42,939,401(+) C/A downstream_transcript_variant
rs1000873651 -- 42,927,337(+) A/G upstream_transcript_variant
rs1001068738 -- 42,928,873(+) T/C genic_upstream_transcript_variant, non_coding_transcript_variant, upstream_transcript_variant
rs1001174289 -- 42,929,450(+) C/T 5_prime_UTR_variant, non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for CNPY3 Gene

Variant ID Type Subtype PubMed ID
esv3369220 CNV duplication 20981092
esv3576145 CNV gain 25503493
nsv1017398 CNV gain 25217958
nsv1111316 CNV tandem duplication 24896259
nsv830651 CNV loss 17160897

Variation tolerance for CNPY3 Gene

Residual Variation Intolerance Score: 54% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.40; 85.54% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CNPY3 Gene

Human Gene Mutation Database (HGMD)
CNPY3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CNPY3

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CNPY3 Gene

Disorders for CNPY3 Gene

MalaCards: The human disease database

(2) MalaCards diseases for CNPY3 Gene - From: HGMD, OMIM, ClinVar, and DISEASES

Disorder Aliases PubMed IDs
epileptic encephalopathy, early infantile, 60
  • eiee60
swayback
  • swayback of sheep
- elite association - COSMIC cancer census association via MalaCards
Search CNPY3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CNPY3

genes like me logo Genes that share disorders with CNPY3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CNPY3 Gene

Publications for CNPY3 Gene

  1. cDNAs with long CAG trinucleotide repeats from human brain. (PMID: 9225980) Margolis RL … Ross CA (Human genetics 1997) 2 3 4 58
  2. Folding of Toll-like receptors by the HSP90 paralogue gp96 requires a substrate-specific cochaperone. (PMID: 20865800) Liu B … Li Z (Nature communications 2010) 3 4 58
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  4. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 3 4 58
  5. A Global Analysis of the Receptor Tyrosine Kinase-Protein Phosphatase Interactome. (PMID: 28065597) Yao Z … Stagljar I (Molecular cell 2017) 3 58

Products for CNPY3 Gene

Sources for CNPY3 Gene

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