Format

Send to:

Choose Destination

CNPY3 canopy FGF signaling regulator 3 [ Homo sapiens (human) ]

Gene ID: 10695, updated on 5-Jan-2022

Summary

Official Symbol
CNPY3provided by HGNC
Official Full Name
canopy FGF signaling regulator 3provided by HGNC
Primary source
HGNC:HGNC:11968
See related
Ensembl:ENSG00000137161 MIM:610774
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CAG4A; DEE60; ERDA5; TNRC5; EIEE60; PRAT4A
Summary
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]
Expression
Ubiquitous expression in spleen (RPKM 21.7), bone marrow (RPKM 19.8) and 25 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See CNPY3 in Genome Data Viewer
Location:
6p21.1
Exon count:
8
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (42928002..42939294)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (42895740..42907032)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105375063 Neighboring gene pre T cell antigen receptor alpha Neighboring gene CNPY3-GNMT readthrough Neighboring gene RPL24 pseudogene 4 Neighboring gene glycine N-methyltransferase Neighboring gene peroxisomal biogenesis factor 6

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Readthrough CNPY3-GNMT

Readthrough gene: CNPY3-GNMT, Included gene: GNMT

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables signaling receptor binding IBA
Inferred from Biological aspect of Ancestor
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 lumen TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
protein canopy homolog 3
Names
CAG repeat containing
CTG repeat protein 4a
expanded repeat-domain protein CAG/CTG 5
protein associated with TLR4
protein associated with Toll-like receptor 4A
trinucleotide repeat-containing gene 5 protein

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001318842.1NP_001305771.1  protein canopy homolog 3 isoform 3 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) contains an alternate exon and uses an alternate splice site in the 5' region, but maintains the reading frame, compared to variant 1. The encoded isoform (3) is longer than isoform (1).
    Source sequence(s)
    AI202110, AK124196, BC011767, BQ063472
    Conserved Domains (1) summary
    pfam11938
    Location:48227
    DUF3456; TLR4 regulator and MIR-interacting MSAP
  2. NM_001318845.1NP_001305774.1  protein canopy homolog 3 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an exon in the 5' coding region and initiates translation at an alternate start codon compared to variant 1. The encoded isoform (2) has a distinct, shorter N-terminus than isoform 1.
    Source sequence(s)
    AI202110, AK124196, BC011767
    Conserved Domains (1) summary
    pfam11938
    Location:4105
    DUF3456; TLR4 regulator and MIR-interacting MSAP
  3. NM_001318847.2NP_001305776.1  protein canopy homolog 3 isoform 5 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) contains an alternate exon in the 5' region, lacks multiple 3' exons, and extends past a splice site used in variant 1, resulting in a distinct 3' coding region and 3' UTR. The encoded isoform (5) has a shorter, distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AK124196, CA431321, CK429647
    Conserved Domains (1) summary
    pfam11938
    Location:4892
    DUF3456; TLR4 regulator and MIR-interacting MSAP
  4. NM_001318848.2NP_001305777.1  protein canopy homolog 3 isoform 6 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks multiple 3' exons and extends past a splice site used in variant 1, resulting in a distinct 3' coding region and 3' UTR. The encoded isoform (6) has a shorter, distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AK124196, BQ680146, CA431321
    Conserved Domains (1) summary
    pfam11938
    Location:48124
    DUF3456; TLR4 regulator and MIR-interacting MSAP
  5. NM_006586.5NP_006577.2  protein canopy homolog 3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_006577.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform 1.
    Source sequence(s)
    AI202110, AL035587, BC004423
    Consensus CDS
    CCDS4875.1
    UniProtKB/Swiss-Prot
    Q9BT09
    Related
    ENSP00000361926.4, ENST00000372836.5
    Conserved Domains (1) summary
    pfam11938
    Location:48194
    DUF3456; TLR4 regulator and MIR-interacting MSAP

RNA

  1. NR_134880.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) contains an alternate exon in the 5' region compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AI202110, AK124196, BC011767, BG675987
  2. NR_134881.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) has a longer 5' UTR and contains two alternate exons in the 5' region compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AI202110, AK124196, AL035587, BC011767
  3. NR_134882.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) lacks an internal exon and contains an alternate exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AI202110, AK124196, BC011767, BI909527
  4. NR_134885.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (10) uses an alternate splice site in the 5' region, lacks multiple 3' exons, and extends past a splice site used in variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK124196, CA431321, CN302713
  5. NR_134886.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (11) lacks an exon in the 5' region, lacks multiple 3' exons, and extends past a splice site used in variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq criteria.
    Source sequence(s)
    AK124196, BF528267, CA431321, CN302712
  6. NR_134888.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks an exon in the 5' region and lacks an exon in the 3' region, compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the open reading frame found in variant 1.
    Source sequence(s)
    AI202110, AK124196, BC011767, HY101691

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20211119

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    42928002..42939294
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Support Center