Atlas of Genetics and Cytogenetics in Oncology and Haematology


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COPA (coatomer protein complex subunit alpha)

Identity

Alias_namescoatomer protein complex
Alias_symbol (synonym)HEP-COP
Other aliasAILJK
HGNC (Hugo) COPA
LocusID (NCBI) 1314
Atlas_Id 46159
Location 1q23.2  [Link to chromosome band 1q23]
Location_base_pair Starts at 160288587 and ends at 160343564 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
COPA (1q23.2) / COPA (1q23.2)COPA (1q23.2) / LRRFIP1 (2q37.3)FRS2 (12q15) / COPA (1q23.2)
SPOCK1 (5q31.2) / COPA (1q23.2)TGOLN2 (2p11.2) / COPA (1q23.2)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)COPA   2230
Cards
Entrez_Gene (NCBI)COPA  1314  coatomer protein complex subunit alpha
AliasesAILJK; HEP-COP
GeneCards (Weizmann)COPA
Ensembl hg19 (Hinxton)ENSG00000122218 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000122218 [Gene_View]  ENSG00000122218 [Sequence]  chr1:160288587-160343564 [Contig_View]  COPA [Vega]
ICGC DataPortalENSG00000122218
TCGA cBioPortalCOPA
AceView (NCBI)COPA
Genatlas (Paris)COPA
WikiGenes1314
SOURCE (Princeton)COPA
Genetics Home Reference (NIH)COPA
Genomic and cartography
GoldenPath hg38 (UCSC)COPA  -     chr1:160288587-160343564 -  1q23.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)COPA  -     1q23.2   [Description]    (hg19-Feb_2009)
EnsemblCOPA - 1q23.2 [CytoView hg19]  COPA - 1q23.2 [CytoView hg38]
Mapping of homologs : NCBICOPA [Mapview hg19]  COPA [Mapview hg38]
OMIM601924   616414   
Gene and transcription
Genbank (Entrez)AK129830 AK307953 BC037941 BC038447 DC308331
RefSeq transcript (Entrez)NM_001098398 NM_004371
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)COPA
Cluster EST : UnigeneHs.685025 [ NCBI ]
CGAP (NCI)Hs.685025
Alternative Splicing GalleryENSG00000122218
Gene ExpressionCOPA [ NCBI-GEO ]   COPA [ EBI - ARRAY_EXPRESS ]   COPA [ SEEK ]   COPA [ MEM ]
Gene Expression Viewer (FireBrowse)COPA [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)1314
GTEX Portal (Tissue expression)COPA
Human Protein AtlasENSG00000122218-COPA [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP53621   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP53621  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP53621
Splice isoforms : SwissVarP53621
PhosPhoSitePlusP53621
Domaine pattern : Prosite (Expaxy)WD_REPEATS_1 (PS00678)    WD_REPEATS_2 (PS50082)    WD_REPEATS_REGION (PS50294)   
Domains : Interpro (EBI)Apc4_WD40_dom    Coatomer_asu    Coatomer_asu_C    Coatomer_WD-assoc_reg    G-protein_beta_WD-40_rep    Haem_d1_sf    WD40/YVTN_repeat-like_dom_sf    WD40_repeat    WD40_repeat_CS    WD40_repeat_dom    WD40_repeat_dom_sf   
Domain families : Pfam (Sanger)ANAPC4_WD40 (PF12894)    Coatomer_WDAD (PF04053)    COPI_C (PF06957)    WD40 (PF00400)   
Domain families : Pfam (NCBI)pfam12894    pfam04053    pfam06957    pfam00400   
Domain families : Smart (EMBL)WD40 (SM00320)  
Conserved Domain (NCBI)COPA
DMDM Disease mutations1314
Blocks (Seattle)COPA
SuperfamilyP53621
Human Protein Atlas [tissue]ENSG00000122218-COPA [tissue]
Peptide AtlasP53621
HPRD03564
IPIIPI00295857   IPI00646493   
Protein Interaction databases
DIP (DOE-UCLA)P53621
IntAct (EBI)P53621
FunCoupENSG00000122218
BioGRIDCOPA
STRING (EMBL)COPA
ZODIACCOPA
Ontologies - Pathways
QuickGOP53621
Ontology : AmiGOGolgi membrane  hormone activity  structural molecule activity  extracellular space  cytoplasm  endoplasmic reticulum membrane  cytosol  intracellular protein transport  ER to Golgi vesicle-mediated transport  ER to Golgi vesicle-mediated transport  retrograde vesicle-mediated transport, Golgi to ER  retrograde vesicle-mediated transport, Golgi to ER  intra-Golgi vesicle-mediated transport  regulation of signaling receptor activity  membrane  COPI vesicle coat  COPI vesicle coat  COPI vesicle coat  transport vesicle  pancreatic juice secretion  extracellular exosome  
Ontology : EGO-EBIGolgi membrane  hormone activity  structural molecule activity  extracellular space  cytoplasm  endoplasmic reticulum membrane  cytosol  intracellular protein transport  ER to Golgi vesicle-mediated transport  ER to Golgi vesicle-mediated transport  retrograde vesicle-mediated transport, Golgi to ER  retrograde vesicle-mediated transport, Golgi to ER  intra-Golgi vesicle-mediated transport  regulation of signaling receptor activity  membrane  COPI vesicle coat  COPI vesicle coat  COPI vesicle coat  transport vesicle  pancreatic juice secretion  extracellular exosome  
NDEx NetworkCOPA
Atlas of Cancer Signalling NetworkCOPA
Wikipedia pathwaysCOPA
Orthology - Evolution
OrthoDB1314
GeneTree (enSembl)ENSG00000122218
Phylogenetic Trees/Animal Genes : TreeFamCOPA
HOVERGENP53621
HOGENOMP53621
Homologs : HomoloGeneCOPA
Homology/Alignments : Family Browser (UCSC)COPA
Gene fusions - Rearrangements
Fusion : QuiverCOPA
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerCOPA [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)COPA
dbVarCOPA
ClinVarCOPA
1000_GenomesCOPA 
Exome Variant ServerCOPA
ExAC (Exome Aggregation Consortium)ENSG00000122218
GNOMAD BrowserENSG00000122218
Varsome BrowserCOPA
Genetic variants : HAPMAP1314
Genomic Variants (DGV)COPA [DGVbeta]
DECIPHERCOPA [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisCOPA 
Mutations
ICGC Data PortalCOPA 
TCGA Data PortalCOPA 
Broad Tumor PortalCOPA
OASIS PortalCOPA [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICCOPA  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDCOPA
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch COPA
DgiDB (Drug Gene Interaction Database)COPA
DoCM (Curated mutations)COPA (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)COPA (select a term)
intoGenCOPA
Cancer3DCOPA(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM601924    616414   
Orphanet23481   
DisGeNETCOPA
MedgenCOPA
Genetic Testing Registry COPA
NextProtP53621 [Medical]
TSGene1314
GENETestsCOPA
Target ValidationCOPA
Huge Navigator COPA [HugePedia]
snp3D : Map Gene to Disease1314
BioCentury BCIQCOPA
ClinGenCOPA
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD1314
Chemical/Pharm GKB GenePA26746
Clinical trialCOPA
Miscellaneous
canSAR (ICR)COPA (select the gene name)
Probes
Litterature
PubMed98 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineCOPA
EVEXCOPA
GoPubMedCOPA
iHOPCOPA
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Tue Nov 6 10:59:34 CET 2018

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