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COPG1
HPA
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  • TISSUE
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ipTM
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  • SUMMARY

  • TISSUE

  • BRAIN

  • SINGLE CELL

  • SUBCELL

  • CANCER

  • BLOOD

  • CELL LINE

  • STRUCTURE

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  • COPG1
INTERACTION INTERACTION METABOLIC PATHWAYS Show tissue menu
TRANSPORT REACTIONS
Protein interactions
Protein interactions
Methods
Human metabolism
Metabolic proteins
Methods
GENERAL INFORMATIONi

General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.

Gene namei

Official gene symbol, which is typically a short form of the gene name, according to HGNC.

COPG1
Synonyms COPG
Gene descriptioni

Full gene name according to HGNC.

COPI coat complex subunit gamma 1
Protein classi

Assigned HPA protein class(es) for the encoded protein(s).

Read more
Essential proteins
Metabolic proteins
Plasma proteins
Predicted locationi

All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions.

  • Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached.
  • Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s).

The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location.

Intracellular
Protein evidence Evidence at protein level (all genes)

HUMAN PROTEIN ATLAS INFORMATIONi

Summary of RNA expression analysis and annotation data generated within the Human Protein Atlas project.

Single cell type
expression clusteri

The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.

Non-specific - Secretory pathway (mainly)
Single cell type specificityi

The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.

Low cell type specificity
Tissue expression
cluster (RNA)i

The RNA data was used to cluster genes according to their expression across tissues. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.

Non-specific - Protein processing (mainly)
Tissue specificity (RNA)i

The RNA specificity category is based on mRNA expression levels in the consensus dataset which is calculated from the RNA expression levels in samples from HPA and GTEX. The categories include: tissue enriched, group enriched, tissue enhanced, low tissue specificity and not detected.

Low tissue specificity
Subcellular locationi

Main subcellular location based on data generated in the subcellular section of the Human Protein Atlas.

Localized to the Golgi apparatus In addition localized to the Nucleoplasm, Cytosol
Secretome annotationi

All genes with at least one predicted secreted isoform have been annotated and classified with the aim to determine if the corresponding protein(s) are:

  • secreted into blood
  • locally secreted
  • or actually being attached to membrane or retained in intracellular locations like mitochondria, endoplasmatic reticulum (ER), Golgi apparatus or lysosomes.
Not available
GENE INFORMATIONi

Gene information from Ensembl and Entrez, as well as links to available gene identifiers are displayed here. Information was retrieved from Ensembl if not indicated otherwise.

Chromosome 3
Cytoband q21.3
Chromosome location (bp) 129249606 - 129277773
Number of transcriptsi

Number of protein-coding transcripts from the gene as defined by Ensembl.

2
Ensembl ENSG00000181789 (version 109)
Entrez gene 22820
HGNC HGNC:2236
UniProt Q9Y678
GeneCards COPG1
ASSAYSi

Links to data of the different assays available in the Structure & Interaction resource of the Human Protein Atlas. Click on the miniature images to directly get to the respective section.

Interaction Metabolic
INTERACTIONi

In the Interaction part of this page network plots showing the gene's first-level interaction partners according to four different datasets are displayed, including a consensus network plot showing only interactions present in at least two of the datasets. By clicking on nodes the network can be expanded. In the network plots the nodes represent genes and edge color represent the number of datasets the interaction belongs to. In-house generated AlphaFold 3 predicted 3D structures for interactions in the consensus network are displayed by clicking on the blue symbols on the edges.

The highlight bar in the top of the plot can be used to color the nodes according to subcellular location (based on data in the Subcellular section), predicted location (based on signalpeptide and transmembrane region predictions), tissue specificity (based on RNA tissue expression profiles) or proteinclass. For genes categorised as single cell type or group specific the option to highlight interaction partners expressed in the same cell type will also be available in the highlight bar.

Custom highlighting of nodes is possible using the top left Filter option in which a query of choice can be built to for example label all nodes that are tissue enriched in both human and mouse brain or those that belongs to a certain tissue expression cluster. The expression cluster for the gene is stated in the box Human Protein Atlas Information above the network plot. Click on Filter in the top left in the plot to find the query builder and some example queries.

Interactions included are direct interaction and physical associations with high and medium confidence from IntAct, physical multivalidated interactions from BioGRID, interactions with>75% probability from BioPlex and significant physical interactions from OpenCell.

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Fields »
e.g. Brain enriched, Localized to mitochondria, Non-specific - Protein processing

Field
Term
Gene name
Class
Subclass
Category
Keyword
Chromosome
External id
Tissue
Cell type
Expression
Antibody panel
Tissue
Main location
Patient ID
Annotation
Tissue
Category
Tau score
Cluster
Reliability
Brain region
Category
Tau score
Brain region
Category
Tau score
Brain region
Category
Tau score
Cluster
Reliability
Tissue
Cell type
Enrichment
Cell type
Category
Tau score
Cell type group
Category
Tau score
Cell type
Category
Tau score
Cell type
Category
Tau score
Cell lineage
Category
Tau score
Cluster
Cluster
Location
Searches
Location
Cell line
Class
Type
Phase
Reliability
Cancer
Prognosis
Cancer
Category
Cancer
Category
Tau score
Cluster
Variants
Interacting gene (ensg_id)
Type
Number of interactions
Pathway
ipTM
Category
Category
Category
Category
Validation
Validation
Validation
Validation
Antibodies
Data type
Column


Consensus
IntAct
BioGrid
OpenCell
BioPlex
Highlight:
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Subcell location
Predicted location
Cell type specificity
Protein class

Non-commercial use only, subject to AlphaFold3 Output Terms of Use

Interaction:
Color scheme:
Confidence
Antibodies
Interactor
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PAE plot
Number of interactions: 16
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
ARCN18221104
ATL2326140
CFTR3410323600
COPA14240780
COPB1121133124
COPB2131291224
COPE193289213
COPG210018247
COPZ111015377
COPZ210108
ERGIC2327026
MYC6690126920
NUDCD1832270
SACM1L926152023
SCYL18216140
SCYL354770
Show allShow less
Highlight:
Off
Subcell location
Predicted location
Cell type specificity
Protein class

Number of interactions: 4 View all protein interaction data in IntAct
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
CFTR3410323600
MYC6690126920
NUDCD1832270
SACM1L926152023
Highlight:
Off
Subcell location
Predicted location
Cell type specificity
Protein class

Number of interactions: 27
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
ARCN18221104
ATL2326140
BAP19711706
CD274254904
CD7438800
CFTR3410323600
COPA14240780
COPB1121133124
COPB2131291224
COPE193289213
COPG210018247
COPZ111015377
COPZ210108
DRD104700
ERGIC2327026
GBF15219527
HUWE15520920
MYC6690126920
NUDCD1832270
PRKN1111140500
RUFY1253200
SACM1L926152023
SCYL18216140
SCYL354770
SEC61B5131721600
SMC3997445
TMED101782510120
Show allShow less
Highlight:
Off
Subcell location
Predicted location
Cell type specificity
Protein class

Number of interactions: 19
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
ARCN18221104
ATL2326140
ATL34142614
BCAP31231369304
COPA14240780
COPB1121133124
COPB2131291224
COPE193289213
COPZ111015377
DHRS712170
ESYT115563310
GEMIN41129311220
GRAMD1A21490
MYO1B3226130
NUDCD1832270
PPM1G17437437
SCYL18216140
SCYL354770
URI1191139180
Show allShow less
Highlight:
Off
Subcell location
Predicted location
Cell type specificity
Protein class

Number of interactions: 11
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
ARCN18221104
CCDC107060024
COPB1121133124
COPB2131291224
COPE193289213
COPG210018247
COPZ111015377
COPZ210108
ERGIC2327026
KCNJ1002107
SACM1L926152023
Show allShow less
METABOLIC SUMMARYi

In this summary the pathway/subsystems to which the gene belongs is shown together with the associated cellular compartment for the reactions based on metabolite information. The number of proteins and metabolites in the pathway is shown as well as the number of reactions for the selected gene. By clicking on a pathway in the summary table the associated metabolic network map is shown, together with a gene-tissue heatmap that shows the expression of genes in that pathway in different tissues.

Gene COPG1 is associated with 4 reactions in 1 different subsystems, and present in the compartments: Cytosol, Extracellular, Golgi apparatus, Lysosome. Provided by metabolicatlas.org
Pathway / Subsystem Subsystem-associated compartments # proteins # metabolites # reactions for
this protein
Transport reactions Cytosol, Extracellular, Lysosome, Peroxisome, Mitochondria, Golgi apparatus, Endoplasmic reticulum, Nucleus, Inner mitochondria 563 1599 4
PROTEIN INFORMATIONi

The protein information section displays alternative protein-coding transcripts (splice variants) encoded by this gene according to the Ensembl database.

The Splice variant identifier links to the Ensembl website protein summary for the selected splice variant. The data in the Swissprot and TrEMBL columns links to corresponding pages in the UniProt database.

The protein classes assigned to this protein are shown if expanding the data in the protein class column. Parent protein classes are in bold font and subclasses are listed under the parent class.

The length of the protein (amino acid residues according to Ensembl), molecular mass (kDalton), predicted signal peptide and number of predicted transmembrane region(s) according to in-house majority decision methods based on sets of predictors are also reported.

Splice variant SwissProt TrEMBL Protein class Length & mass Signal peptide
(predicted)
Transmembrane regions
(predicted)
COPG1-201 Q9Y678
Metabolic proteins
Predicted intracellular proteins
Plasma proteins
Mapped to neXtProt
Essential proteins
Protein evidence (Kim et al 2014)
Protein evidence (Ezkurdia et al 2014)
Show all
874 aa
97.7 kDa
No 0
COPG1-205 H0Y8X7
Metabolic proteins
Predicted intracellular proteins
Essential proteins
Protein evidence (Ezkurdia et al 2014)
188 aa
21 kDa
No 0

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by the Knut & Alice Wallenberg Foundation.

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