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Aliases for COPE Gene

Aliases for COPE Gene

  • Coatomer Protein Complex Subunit Epsilon 2 3 5
  • Epsilon-COP 3 4
  • Coatomer Protein Complex, Subunit Epsilon 2
  • Coatomer Epsilon Subunit 3
  • Coatomer Subunit Epsilon 3
  • Epsilon Coat Protein 3
  • Epsilon-Coat Protein 4

External Ids for COPE Gene

Previous GeneCards Identifiers for COPE Gene

  • GC19M019504
  • GC19M019402
  • GC19M018855
  • GC19M018871
  • GC19M019010
  • GC19M018574

Summaries for COPE Gene

Entrez Gene Summary for COPE Gene

  • The product of this gene is an epsilon subunit of coatomer protein complex. Coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles. It is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins. Coatomer complex consists of at least the alpha, beta, beta', gamma, delta, epsilon and zeta subunits. Alternatively spliced transcript variants encoding different isoforms have been identified. [provided by RefSeq, Jul 2008]

GeneCards Summary for COPE Gene

COPE (Coatomer Protein Complex Subunit Epsilon) is a Protein Coding gene. Among its related pathways are wtCFTR and delta508-CFTR traffic / Generic schema (norm and CF) and Transport to the Golgi and subsequent modification. Gene Ontology (GO) annotations related to this gene include structural molecule activity.

UniProtKB/Swiss-Prot for COPE Gene

  • The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. The coatomer complex is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins. In mammals, the coatomer can only be recruited by membranes associated with ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors (By similarity).

Gene Wiki entry for COPE Gene

Additional gene information for COPE Gene

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

Genomics for COPE Gene

GeneHancer (GH) Regulatory Elements for COPE Gene

Promoters and enhancers for COPE 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
GH19J018918 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 650.7 -0.1 -56 2.6 HDGF PKNOX1 CLOCK SMAD1 FOXA2 ARID4B SIN3A DMAP1 ZBTB7B YY1 DDX49 COPE UPF1 IQCN ENSG00000268030 ATP13A1 NR2C2AP ENSG00000268938 ENSG00000269191 ENSG00000267481
GH19J018809 Enhancer 0.9 Ensembl ENCODE 5.7 +109.9 109916 0.9 CEBPG RFX5 IRF9 GATA3 VEZF1 TRIM24 RNF2 HLF CEBPB MNT COPE COMP UPF1
GH19J018648 Enhancer 1.3 FANTOM5 Ensembl ENCODE dbSUPER 2.2 +269.3 269306 3.6 RXRA ZNF266 ZIC2 NR2F2 SP1 ZFHX2 POLR2A ZSCAN5C ZNF341 FOS ENSG00000268030 UPF1 ENSG00000268938 NR2C2AP ENSG00000269191 MAU2 IQCN MEF2B ELL CRTC1
GH19J018915 Enhancer 0.6 ENCODE 0.7 +3.7 3682 0.7 CTCF ARID4B SIN3A EBF1 RAD21 SMC3 CREB1 ZNF444 HOMER3 COPE PIR40504 ENSG00000268193
GH19J018916 Enhancer 0.3 FANTOM5 0.7 +2.4 2362 0.3 MAU2 COPE PIR40504 ENSG00000268193
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around COPE on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the COPE gene promoter:

Genomic Locations for COPE Gene

Genomic Locations for COPE Gene
chr19:18,899,514-18,919,464
(GRCh38/hg38)
Size:
19,951 bases
Orientation:
Minus strand
chr19:19,010,323-19,030,206
(GRCh37/hg19)

Genomic View for COPE Gene

Genes around COPE on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for COPE Gene

Proteins for COPE Gene

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

    Protein Symbol:
    O14579-COPE_HUMAN
    Recommended name:
    Coatomer subunit epsilon
    Protein Accession:
    O14579
    Secondary Accessions:
    • A6NE29
    • A6NKA3
    • O76097
    • Q6IBB8
    • Q9UGP6

    Protein attributes for COPE Gene

    Size:
    308 amino acids
    Molecular mass:
    34482 Da
    Quaternary structure:
    • Oligomeric complex that consists of at least the alpha, beta, beta, gamma, delta, epsilon and zeta subunits.

    Alternative splice isoforms for COPE Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for COPE Gene

Post-translational modifications for COPE Gene

  • Phosphorylated by PKA.
  • Polyubiquitinated by RCHY1 in the presence of androgen, leading to proteasomal degradation.
  • Ubiquitination at Lys278, posLast=265265, and posLast=6565
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for COPE Gene

Domains & Families for COPE Gene

Gene Families for COPE Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for COPE Gene

Graphical View of Domain Structure for InterPro Entry

O14579

UniProtKB/Swiss-Prot:

COPE_HUMAN :
  • Belongs to the COPE family.
Family:
  • Belongs to the COPE family.
genes like me logo Genes that share domains with COPE: view

Function for COPE Gene

Molecular function for COPE Gene

UniProtKB/Swiss-Prot Function:
The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. The coatomer complex is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins. In mammals, the coatomer can only be recruited by membranes associated with ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors (By similarity).
GENATLAS Biochemistry:
Golgi coatomer complex,epsilon subunit,component of the coat of non clathrin-coated vesicles,involved in the transport between endoplasmic reticulum and Golgi

Gene Ontology (GO) - Molecular Function for COPE Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005198 structural molecule activity IEA --
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with COPE: view
genes like me logo Genes that share phenotypes with COPE: view

Animal Model Products

miRNA for COPE Gene

Clone Products

  • Addgene plasmids for COPE

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for COPE Gene

Localization for COPE Gene

Subcellular locations from UniProtKB/Swiss-Prot for COPE Gene

Cytoplasm. Golgi apparatus membrane; Peripheral membrane protein; Cytoplasmic side. Cytoplasmic vesicle, COPI-coated vesicle membrane; Peripheral membrane protein; Cytoplasmic side. Note=The coatomer is cytoplasmic or polymerized on the cytoplasmic side of the Golgi, as well as on the vesicles/buds originating from it. {ECO:0000250}.

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 COPE gene
Compartment Confidence
nucleus 5
endoplasmic reticulum 5
cytosol 5
golgi apparatus 5
extracellular 1
endosome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for COPE Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane TAS --
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IEA --
GO:0005789 endoplasmic reticulum membrane TAS --
GO:0005794 Golgi apparatus IEA,IDA --
genes like me logo Genes that share ontologies with COPE: view

Pathways & Interactions for COPE Gene

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

Gene Ontology (GO) - Biological Process for COPE Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006888 ER to Golgi vesicle-mediated transport TAS --
GO:0006890 retrograde vesicle-mediated transport, Golgi to ER IEA,TAS --
GO:0006891 intra-Golgi vesicle-mediated transport ISS,IBA --
GO:0015031 protein transport IEA --
GO:0016192 vesicle-mediated transport IEA --
genes like me logo Genes that share ontologies with COPE: view

No data available for SIGNOR curated interactions for COPE Gene

Drugs & Compounds for COPE Gene

(1) Drugs for COPE Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Guanosine triphosphate Experimental Pharma 0
genes like me logo Genes that share compounds with COPE: view

Transcripts for COPE Gene

Unigene Clusters for COPE Gene

Coatomer protein complex, subunit epsilon:
Representative Sequences:

Clone Products

  • Addgene plasmids for COPE

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

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

Relevant External Links for COPE Gene

GeneLoc Exon Structure for
COPE
ECgene alternative splicing isoforms for
COPE

Expression for COPE Gene

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

Protein differential expression in normal tissues from HIPED for COPE Gene

This gene is overexpressed in Salivary gland (7.4).

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



Protein tissue co-expression partners for COPE Gene

NURSA nuclear receptor signaling pathways regulating expression of COPE Gene:

COPE

SOURCE GeneReport for Unigene cluster for COPE Gene:

Hs.10326

Evidence on tissue expression from TISSUES for COPE Gene

  • Nervous system(4.9)
  • Skin(4.8)
  • Liver(4.4)
  • Lung(4)
  • Eye(3.4)
  • Pancreas(2.5)
  • Kidney(2.2)
  • Muscle(2.1)
  • Intestine(2)
genes like me logo Genes that share expression patterns with COPE: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for COPE Gene

Orthologs for COPE Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for COPE Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia COPE 34 33
  • 99.03 (n)
OneToOne
dog
(Canis familiaris)
Mammalia COPE 34 33
  • 89.94 (n)
OneToOne
cow
(Bos Taurus)
Mammalia COPE 34 33
  • 89.61 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Cope 33
  • 86.14 (n)
oppossum
(Monodelphis domestica)
Mammalia COPE 34
  • 86 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Cope 16 34 33
  • 85.28 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia COPE 34
  • 82 (a)
OneToOne
chicken
(Gallus gallus)
Aves COPE 34 33
  • 73.05 (n)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia cope 33
  • 71.36 (n)
zebrafish
(Danio rerio)
Actinopterygii cope 34 33
  • 72.43 (n)
OneToOne
Dr.25629 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006625 33
  • 58.65 (n)
fruit fly
(Drosophila melanogaster)
Insecta epsilonCOP 34 33
  • 53.88 (n)
OneToOne
BcDNA:LD29885 35
  • 39 (a)
worm
(Caenorhabditis elegans)
Secernentea F45G2.4 35 33
  • 48.41 (n)
cope-1 34
  • 36 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons AT2G34840 33
  • 48.67 (n)
rice
(Oryza sativa)
Liliopsida Os04g0612600 33
  • 52.59 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.1707 34
  • 66 (a)
OneToOne
Cin.4675 33
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4675 33
Species where no ortholog for COPE was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • lizard (Anolis carolinensis)
  • 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 blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for COPE Gene

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

Paralogs for COPE Gene

No data available for Paralogs for COPE Gene

Variants for COPE Gene

Sequence variations from dbSNP and Humsavar for COPE Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000006766 -- 18,906,682(-) G/A intron_variant
rs1000111607 -- 18,907,876(-) T/C intron_variant
rs1000142790 -- 18,908,146(-) A/G intron_variant
rs1000229723 -- 18,901,735(-) A/C intron_variant
rs1000244 -- 18,919,658(-) A/G upstream_transcript_variant

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

Variant ID Type Subtype PubMed ID
nsv1151217 CNV deletion 26484159
nsv470132 CNV loss 18288195
nsv817819 CNV loss 17921354
nsv833777 CNV loss 17160897
nsv833778 CNV loss 17160897
nsv952423 CNV deletion 24416366

Variation tolerance for COPE Gene

Residual Variation Intolerance Score: 64.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.77; 86.72% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for COPE Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
COPE

SNP Genotyping and Copy Number Assay Products

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

Disorders for COPE Gene

Additional Disease Information for COPE

No disorders were found for COPE Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for COPE Gene

Publications for COPE Gene

  1. Segregation of COPI-rich and anterograde-cargo-rich domains in endoplasmic-reticulum-to-Golgi transport complexes. (PMID: 10469566) Shima DT … Pepperkok R (Current biology : CB 1999) 2 3 4 58
  2. Ubiquitylation of epsilon-COP by PIRH2 and regulation of the secretion of PSA. (PMID: 17721809) Maruyama S … Hatakeyama S (Molecular and cellular biochemistry 2008) 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 DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J … Lucas SM (Nature 2004) 3 4 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58

Products for COPE Gene

  • Addgene plasmids for COPE

Sources for COPE Gene

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