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COPZ1 COPI coat complex subunit zeta 1 [ Homo sapiens (human) ]

Gene ID: 22818, updated on 5-Apr-2020

Summary

Official Symbol
COPZ1provided by HGNC
Official Full Name
COPI coat complex subunit zeta 1provided by HGNC
Primary source
HGNC:HGNC:2243
See related
Ensembl:ENSG00000111481 MIM:615472
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
COPZ; CGI-120; HSPC181; zeta-COP; zeta1-COP
Summary
This gene encodes a subunit of the cytoplasmic coatamer protein complex, which is involved in autophagy and intracellular protein trafficking. The coatomer protein complex is comprised of seven subunits and functions as the coat protein of coat protein complex (COP)I-vesicles. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Nov 2012]
Expression
Ubiquitous expression in thyroid (RPKM 49.0), colon (RPKM 30.9) and 25 other tissues See more
Orthologs

Genomic context

See COPZ1 in Genome Data Viewer
Location:
12q13.13
Exon count:
9
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (54325109..54351850)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (54718874..54745635)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene nuclear factor, erythroid 2 Neighboring gene RNA, U6 small nuclear 950, pseudogene Neighboring gene microRNA 148b Neighboring gene RNA, 7SL, cytoplasmic 744, pseudogene Neighboring gene uncharacterized LOC102724050 Neighboring gene G protein-coupled receptor 84 Neighboring gene zinc finger protein 385A

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

Phenotypes

NHGRI GWAS Catalog

Description
A genome- and phenome-wide association study to identify genetic variants influencing platelet count and volume and their pleiotropic effects.
NHGRI GWA Catalog
GWAS of blood cell traits identifies novel associated loci and epistatic interactions in Caucasian and African-American children.
NHGRI GWA Catalog
New gene functions in megakaryopoiesis and platelet formation.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify subunit zeta 1 of coatomer protein complex (COPZ1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify subunit zeta 1 of coatomer protein complex (COPZ1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Nef nef Tandem affinity purification and mass spectrometry analysis identify subunit zeta 1 of coatomer protein complex (COPZ1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify subunit zeta 1 of coatomer protein complex (COPZ1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Process Evidence Code Pubs
ER to Golgi vesicle-mediated transport TAS
Traceable Author Statement
more info
 
intra-Golgi vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
intra-Golgi vesicle-mediated transport IDA
Inferred from Direct Assay
more info
PubMed 
intra-Golgi vesicle-mediated transport ISS
Inferred from Sequence or Structural Similarity
more info
 
intracellular protein transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
retrograde vesicle-mediated transport, Golgi to ER IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
retrograde vesicle-mediated transport, Golgi to ER TAS
Traceable Author Statement
more info
PubMed 
toxin transport IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
COPI vesicle coat IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
COPI vesicle coat IDA
Inferred from Direct Assay
more info
PubMed 
COPI vesicle coat ISS
Inferred from Sequence or Structural Similarity
more info
 
Golgi membrane TAS
Traceable Author Statement
more info
 
cytosol TAS
Traceable Author Statement
more info
 
endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
transport vesicle TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
coatomer subunit zeta-1
Names
coatomer protein complex subunit zeta 1
coatomer protein complex, subunit zeta
zeta-1 COP
zeta-1-coat protein

NCBI Reference Sequences (RefSeq)

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_001271734.2NP_001258663.1  coatomer subunit zeta-1 isoform 2

    See identical proteins and their annotated locations for NP_001258663.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an internal in-frame exon in the coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.
    Source sequence(s)
    AF151878, AK293377, CB127540
    Consensus CDS
    CCDS61138.1
    UniProtKB/Swiss-Prot
    P61923
    Related
    ENSP00000410620.2, ENST00000455864.6
    Conserved Domains (1) summary
    cl02092
    Location:8130
    Clat_adaptor_s; Clathrin adaptor complex small chain
  2. NM_001271735.2NP_001258664.1  coatomer subunit zeta-1 isoform 3

    See identical proteins and their annotated locations for NP_001258664.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame splice site and lacks an internal in-frame exon in the coding region, compared to variant 1. The encoded isoform (3) is shorter, compared to isoform 1.
    Source sequence(s)
    AF151878, CB127540, DA562746
    Consensus CDS
    CCDS61137.1
    UniProtKB/Swiss-Prot
    P61923
    Related
    ENSP00000448444.1, ENST00000552362.5
    Conserved Domains (1) summary
    cl02092
    Location:12148
    Clat_adaptor_s; Clathrin adaptor complex small chain
  3. NM_001271736.2NP_001258665.1  coatomer subunit zeta-1 isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate in-frame splice site in the 5' coding region and uses a downstream start codon compared to variant 1. The encoded isoform (4) has a distinct and longer N-terminus, compared to isoform 1.
    Source sequence(s)
    AF151878, AK311027
    Consensus CDS
    CCDS61139.1
    UniProtKB/Swiss-Prot
    P61923
    Related
    ENSP00000449270.1, ENST00000549043.5
    Conserved Domains (1) summary
    pfam01217
    Location:20161
    Clat_adaptor_s; Clathrin adaptor complex small chain
  4. NM_016057.3NP_057141.1  coatomer subunit zeta-1 isoform 1

    See identical proteins and their annotated locations for NP_057141.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform 1.
    Source sequence(s)
    AF151878
    Consensus CDS
    CCDS8877.1
    UniProtKB/Swiss-Prot
    P61923
    UniProtKB/TrEMBL
    A0A024RB72
    Related
    ENSP00000262061.2, ENST00000262061.7
    Conserved Domains (1) summary
    cd14829
    Location:14145
    Zeta-COP; zeta subunit of the F-COPI complex

RNA

  1. NR_073424.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AF151878, AK295325, CB127540

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p13 Primary Assembly

    Range
    54325109..54351850
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_002957300.1 RNA Sequence

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