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COPG2 COPI coat complex subunit gamma 2 [ Homo sapiens (human) ]

Gene ID: 26958, updated on 27-Nov-2024

Summary

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Official Symbol
COPG2provided by HGNC
Official Full Name
COPI coat complex subunit gamma 2provided by HGNC
Primary source
HGNC:HGNC:2237
See related
Ensembl:ENSG00000158623 MIM:604355; AllianceGenome:HGNC:2237
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
2-COP; gamma-2-COP
Summary
Predicted to enable structural molecule activity. Involved in intra-Golgi vesicle-mediated transport. Part of COPI vesicle coat. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in testis (RPKM 19.0), ovary (RPKM 19.0) and 25 other tissues See more
Orthologs
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Genomic context

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See COPG2 in Genome Data Viewer
Location:
7q32.2
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (130506238..130668748, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (131819957..131983050, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (130146079..130353588, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26656 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:130126788-130127007 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18646 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr7:130143892-130145091 Neighboring gene MEST intronic transcript 1, antisense RNA Neighboring gene mesoderm specific transcript Neighboring gene microRNA 335 Neighboring gene COPG2 imprinted transcript 1 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr7:130261863-130262448 Neighboring gene uncharacterized LOC124901746 Neighboring gene MPRA-validated peak6720 silencer Neighboring gene RNA, 5S ribosomal pseudogene 246 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26657 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18647 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18648 Neighboring gene NANOG hESC enhancer GRCh37_chr7:130361154-130361710 Neighboring gene testis specific 13 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:130418105-130418642 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18650 Neighboring gene uncharacterized LOC105375508 Neighboring gene KLF transcription factor 14 Neighboring gene uncharacterized LOC105375509 Neighboring gene armadillo repeat containing X-linked 2 pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Afferent innervation of the vestibular nuclei in the chinchilla. II. Description of the vestibular nerve and nuclei. Newman A, et al. Brain Res, 1992 Dec 4. PMID 1472999
  2. gamma2-COP, a novel imprinted gene on chromosome 7q32, defines a new imprinting cluster in the human genome. Blagitko N, et al. Hum Mol Genet, 1999 Dec. PMID 10556286
  3. The novel gene, gamma2-COP (COPG2), in the 7q32 imprinted domain escapes genomic imprinting. Yamasaki K, et al. Genomics, 2000 Sep 15. PMID 10995575
  4. Methylation and expression analyses of the 7q autism susceptibility locus genes MEST , COPG2, and TSGA14 in human and anthropoid primate cortices. Schneider E, et al. Cytogenet Genome Res, 2012. PMID 22456293
  5. SCYL1 arginine methylation by PRMT1 is essential for neurite outgrowth via Golgi morphogenesis. Amano G, et al. Mol Biol Cell, 2020 Aug 15. PMID 32583741, Free PMC Article

See all (123) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SCYL1 arginine methylation by PRMT1 is essential for neurite outgrowth via Golgi morphogenesis.
    Title: SCYL1 arginine methylation by PRMT1 is essential for neurite outgrowth via Golgi morphogenesis.
  2. In cortices, the MEST promoter was hemimethylated, as expected for a differentially methylated imprinting control region, whereas the COPG2 and TSGA14 promoters were completely demethylated, typical for transcriptionally active non-imprinted genes.
    Title: Methylation and expression analyses of the 7q autism susceptibility locus genes MEST , COPG2, and TSGA14 in human and anthropoid primate cortices.
  3. Mutation sscreening and imprinting analysis of candidate genes for autism in the 7q32 region
    Title: Mutation screening and imprinting analysis of four candidate genes for autism in the 7q32 region.
Submit: New GeneRIF Correction

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study identifies multiple susceptibility loci for pancreatic cancer.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ11781, DKFZp761N09121

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables structural molecule activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in intra-Golgi vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in intra-Golgi vesicle-mediated transport IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in intracellular protein transport IEA
Inferred from Electronic Annotation
more info
  
involved_in organelle transport along microtubule IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein secretion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
part_of COPI vesicle coat IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of COPI vesicle coat IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in Golgi membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in Golgi membrane TAS
Traceable Author Statement
more info
  
located_in cytosol TAS
Traceable Author Statement
more info
  
is_active_in endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
  
is_active_in endoplasmic reticulum-Golgi intermediate compartment IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in growth cone IEA
Inferred from Electronic Annotation
more info
  
located_in transport vesicle TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
coatomer subunit gamma-2
Names
coat protein, nonclathrin, gamma-2-cop
coatomer protein complex subunit gamma 2
gamma-2-coat protein
testicular secretory protein Li 12

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_001290033.2 → NP_001276962.1  coatomer subunit gamma-2 isoform 2

    See identical proteins and their annotated locations for NP_001276962.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks several exons and its 3'-terminal exon extends past a splice site that is used in variant 1. The encoded isoform (2) has a shorter and distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AL162012, BC110796, BX353590
    Consensus CDS
    CCDS78275.1
    UniProtKB/TrEMBL
    Q9H9B7
    Related
    ENSP00000331218.8, ENST00000330992.8
    Conserved Domains (2) summary
    COG5240
    Location:7 → 718
    SEC21; Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
    sd00044
    Location:398 → 423
    HEAT; HEAT repeat [structural motif]

  2. NM_012133.6 → NP_036265.3  coatomer subunit gamma-2 isoform 1

    See identical proteins and their annotated locations for NP_036265.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AF157833, AK291409, BX089636, HY355769
    Consensus CDS
    CCDS75662.1
    UniProtKB/Swiss-Prot
    A6NH74, Q2NLA0, Q54AC3, Q8WVW8, Q9UBF2
    UniProtKB/TrEMBL
    A0A140VK12, Q9H9B7
    Related
    ENSP00000402346.2, ENST00000425248.5
    Conserved Domains (2) summary
    COG5240
    Location:7 → 866
    SEC21; Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
    sd00044
    Location:398 → 423
    HEAT; HEAT repeat [structural motif]

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    130506238..130668748 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    131819957..131983050 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9UBF2.1 GenPept UniProtKB/Swiss-Prot:Q9UBF2

Gene LinkOut

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

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