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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

COPA Gene

protein-coding   GIFtS: 62
GCID: GC01M160258

Coatomer Protein Complex, Subunit Alpha

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Coatomer Protein Complex, Subunit Alpha1 2     Alpha Coat Protein2
proxenin1 2     alpha-COP2
Alpha-Coat Protein2 3     Coatomer Subunit Alpha2
HEP-COP2 3     xenin2
HEPCOP2 3     Alpha-COP3

External Ids:    HGNC: 22301   Entrez Gene: 13142   Ensembl: ENSG000001222187   OMIM: 6019245   UniProtKB: P536213   

Export aliases for COPA gene to outside databases

Previous GC identifers: GC01M158051 GC01M155991 GC01M157036 GC01M157475 GC01M157072 GC01M158525 GC01M131615


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for COPA Gene:
In eukaryotic cells, protein transport between the endoplasmic reticulum and Golgi compartments is mediated in
part by non-clathrin-coated vesicular coat proteins (COPs). Seven coat proteins have been identified, and they
represent subunits of a complex known as coatomer. The subunits are designated alpha-COP, beta-COP,
beta-prime-COP, gamma-COP, delta-COP, epsilon-COP, and zeta-COP. The alpha-COP, encoded by COPA, shares high
sequence similarity with RET1P, the alpha subunit of the coatomer complex in yeast. Also, the N-terminal 25 amino
acids of alpha-COP encode the bioactive peptide, xenin, which stimulates exocrine pancreatic secretion and may
act as a gastrointestinal hormone. Alternative splicing results in multiple splice forms encoding distinct
isoforms. (provided by RefSeq, Jul 2008)

GeneCards Summary for COPA Gene: 
COPA (coatomer protein complex, subunit alpha) is a protein-coding gene. Diseases associated with COPA include menkes disease, and wilson disease, and among its related super-pathways are Clathrin-dependent protein traffic and Golgi to ER Retrograde Transport. GO annotations related to this gene include hormone activity and structural molecule activity. An important paralog of this gene is COPB2.

UniProtKB/Swiss-Prot: COPA_HUMAN, P53621
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. 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 to 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)
Function: Xenin stimulates exocrine pancreatic secretion. It inhibits pentagastrin-stimulated secretion of acid,
to induce exocrine pancreatic secretion and to affect small and large intestinal motility. In the gut, xenin
interacts with the neurotensin receptor

Gene Wiki entry for COPA Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.2  NT_004487.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the COPA gene promoter:
         CUTL1   C/EBPalpha   Meis-1b   GATA-2   Evi-1   Meis-1a   TGIF   Pax-4a   Meis-1   RSRFC4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidCOPA promoter sequence
   Search SABiosciences Chromatin IP Primers for COPA

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat COPA


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 1q23.2   Ensembl cytogenetic band:  1q23.2   HGNC cytogenetic band: 1q23.2

COPA Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
COPA gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01M160258:  view genomic region     (about GC identifiers)

Start:
160,258,377 bp from pter      End:
160,313,354 bp from pter
Size:
54,978 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: COPA_HUMAN, P53621 (See protein sequence)
Recommended Name: Coatomer subunit alpha  
Size: 1224 amino acids; 138346 Da
Subunit: Oligomeric complex that consists of at least the alpha, beta, beta', gamma, delta, epsilon and zeta
subunits. Probably interacts with PEX11A. Interacts with SCYL1 (By similarity)
Subcellular location: Cytoplasm (By similarity). Golgi apparatus membrane; Peripheral membrane protein;
Cytoplasmic side (By similarity). Cytoplasmic vesicle, COPI-coated vesicle membrane; Peripheral membrane protein;
Cytoplasmic side (By similarity). Note=The coatomer is cytoplasmic or polymerized on the cytoplasmic side of the
Golgi, as well as on the vesicles/buds originating from it (By similarity)
Subcellular location: Xenin: Secreted (By similarity)
Developmental stage: Xenin is released into the circulation after a meal
Rna editing: Modified_positions=164; Note=Edited at about 31%
Secondary accessions: Q5T201 Q8IXZ9
Alternative splicing: 2 isoforms:  P53621-1   P53621-2   

Explore the universe of human proteins at neXtProt for COPA: NX_P53621

Explore proteomics data for COPA at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_P53621

  • COPA Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    COPA Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001091868.1  NP_004362.2  

    ENSEMBL proteins: 
     ENSP00000357048   ENSP00000241704  
    Reactome Protein details: P53621
    Human Recombinant Protein Products for COPA: 
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    Novus Biologicals COPA Protein
    Novus Biologicals COPA Lysate
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Browse Proteins at Cloud-Clone Corp. 

    Gene Ontology (GO): 5 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005615extracellular space IDA1429581
    GO:0005737cytoplasm IDA9115636
    GO:0005829cytosol TAS--
    GO:0030117membrane coat ----
    GO:0030126COPI vesicle coat ISS--

    COPA for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    ENDOLIG: Endogenous ligands
    WDR: WD repeat domain containing

    5/8 InterPro protein domains (see all 8):
     IPR006692 Coatomer_WD-assoc_reg
     IPR019775 WD40_repeat_CS
     IPR016391 Coatomer_asu
     IPR001680 WD40_repeat
     IPR020472 G-protein_beta_WD-40_rep

    Graphical View of Domain Structure for InterPro Entry P53621

    ProtoNet protein and cluster: P53621

    3 Blocks protein domains:
    IPB001680 G-protein beta WD-40 repeat signature
    IPB006692 Coatomer WD associated region
    IPB010714 Coatomer alpha subunit


    UniProtKB/Swiss-Prot: COPA_HUMAN, P53621
    Similarity: Contains 6 WD repeats


    COPA for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: COPA_HUMAN, P53621
    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. 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 to 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)
    Function: Xenin stimulates exocrine pancreatic secretion. It inhibits pentagastrin-stimulated secretion of acid,
    to induce exocrine pancreatic secretion and to affect small and large intestinal motility. In the gut, xenin
    interacts with the neurotensin receptor

         Genatlas biochemistry entry for COPA:
    Golgi coatomer complex alpha subunit,component of the coat of the non-clathrin-coated vesicles,expressed in a wide
    range of fetal and adult tissues,homolog to the alpha subunit of S cerevisiae coatomer protein complex,involved
    in the transport between the endoplasmic reticulum and Golgi

         Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005179hormone activity IEA--
    GO:0005198structural molecule activity IEA--
    GO:0005515protein binding ----
         
    COPA for ontologies           About GeneDecksing


    Phenotypes:
         15 GenomeRNAi human phenotypes for COPA:
     Decreased Hepatitis C virus re  Decreased Salmonella enterica   Decreased Salmonella-containin  Decreased Wnt reporter activit 
     Decreased cell number, increas  Decreased influenza A H1N1 (A/  Decreased influenza A H1N1 (A/  Decreased influenza A virus in 
     Decreased influenza A/WSN/33 r  Decreased viability of wild-ty  G0/1 arrest  Increased Salmonella enterica  
     Increased gamma-H2AX phosphory  Increased number of mitotic ce  Synthetic lethal with c-Myc af 

    Animal Models:
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       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for COPA 

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    hsa-miR-579 hsa-miR-3148 hsa-miR-551b* hsa-miR-1253
    SwitchGear 3'UTR luciferase reporter plasmidCOPA 3' UTR sequence
    Inhib. RNA
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    Clone
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for COPA


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for COPA About   (see all 6)                                                                                              See pathways by source

    SuperPathContained pathways About
    1Clathrin-dependent protein traffic
    Clathrin-dependent protein traffic0.66
    wtCFTR and delta508-CFTR traffic / Generic schema (norm and CF)0.37
    Transport Clathrin-coated vesicle cycle0.66
    2Golgi to ER Retrograde Transport
    Golgi to ER Retrograde Transport0.31
    COPI Mediated Transport0.31
    Cholesterol and Sphingolipids transport / Transport from Golgi and ER to the apical membrane (normal and CF)0.31
    3COPII (Coat Protein 2) Mediated Vesicle Transport
    Delta508-CFTR traffic / ER-to-Golgi in CF0.36
    Normal wtCFTR traffic / ER-to-Golgi 0.36
    4Membrane Trafficking
    Membrane Trafficking0.32
    5C-MYB transcription factor network
    C-MYB transcription factor network

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 EMD Millipore Pathway for COPA
        Clathrin-dependent protein traffic


    5 GeneGo (Thomson Reuters) Pathways for COPA
        wtCFTR and delta508-CFTR traffic / Generic schema (norm and CF)
    Delta508-CFTR traffic / ER-to-Golgi in CF
    Cholesterol and Sphingolipids transport / Transport from Golgi and ER to the apical membrane (normal and CF)
    Normal wtCFTR traffic / ER-to-Golgi
    Transport Clathrin-coated vesicle cycle

    2 BioSystems Pathways for COPA
        C-MYB transcription factor network
    Arf1 pathway

    3        Reactome Pathways for COPA
        Membrane Trafficking
    COPI Mediated Transport
    Golgi to ER Retrograde Transport



    COPA for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for COPA

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/1055 Interacting proteins for COPA (P536212, 3 ENSP000003570484) via UniProtKB, MINT, STRING, and/or I2D (see all 1055)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ARCN1P484442, 3, ENSP000002640284MINT-7945693 MINT-8217717 MINT-7947479 I2D: score=7 STRING: ENSP00000264028
    COPB1P536182, 3, ENSP000002499234MINT-7945693 MINT-8217717 MINT-7947479 I2D: score=7 STRING: ENSP00000249923
    COPEO145792, 3, ENSP000002628124MINT-8217717 MINT-63065 I2D: score=7 STRING: ENSP00000262812
    COPB2P356062, 3, ENSP000003294194MINT-7945693 MINT-7947479 I2D: score=3 STRING: ENSP00000329419
    RPL31P628992, 3MINT-7945693 MINT-6489355 MINT-7947479 I2D: score=1 
    About this table

    Gene Ontology (GO): 5/6 biological process terms (GO ID links to tree view) (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006886intracellular protein transport IEA--
    GO:0006890retrograde vesicle-mediated transport, Golgi to ER TAS--
    GO:0009451RNA modification IEA--
    GO:0016192vesicle-mediated transport ----
    GO:0030157pancreatic juice secretion IDA1429581

    COPA for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    COPA for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for COPA

    1 HMDB Compound for COPA    About this table
    CompoundSynonyms CAS #PubMed Ids
    Guanosine triphosphate5'-GTP (see all 10)86-01-1--

    2 Novoseek inferred chemical compound relationships for COPA gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    copper 49.2 17 10639134 (4), 17696885 (2), 9398888 (2), 11500054 (1) (see all 7)
    chloramphenicol 25.1 1 11031122 (1)

    Search CenterWatch for drugs/clinical trials and news about COPA

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for COPA gene (2 alternative transcripts): 
    NM_001098398.1  NM_004371.3  

    Unigene Clusters for COPA:

    Coatomer protein complex, subunit alpha
    Hs.162121  [show with all ESTs], Hs.685025
    Unigene Representative Sequences: NM_001098398, BC037941
    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000368069 ENST00000241704(uc009wti.3 uc001fvv.4 uc009wtj.1)
    ENST00000545284 ENST00000481522 ENST00000481040 ENST00000541366 ENST00000545266

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    Additional mRNA sequence: BC037941.2 

    24/37 DOTS entries (see all 37):

    DT.92354410  DT.422143  DT.95266247  DT.121428648  DT.95266251  DT.100795668  DT.95266229  DT.91764888 
    DT.121428676  DT.100001009  DT.121428684  DT.97774102  DT.99965931  DT.121428771  DT.121428772  DT.91707646 
    DT.100795664  DT.95332895  DT.95316196  DT.97792442  DT.99970079  DT.100658439  DT.121428646  DT.121428719 

    24/602 AceView cDNA sequences (see all 602):

    AU142819 AA320890 H88325 AU125358 CA311078 BP357036 T33323 CA448126 
    BM478131 AK129830 AU127657 CA777639 BM786087 R55642 AI051128 BE397260 
    BQ421074 AA315854 AI582666 AW157631 AA604637 BU172026 CA848348 AU122300 

    GeneLoc Exon Structure

    5/12 Alternative Splicing Database (ASD) splice patterns (SP) for COPA (see all 12)    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10a · 10b ^ 11a · 11b ^ 12a · 12b ^ 13a · 13b ^ 14a · 14b · 14c ^
    SP1:                                                                                                        -                                                   
    SP2:                                                                                                                                                            
    SP3:                                                                                                        -                                                   
    SP4:                                                                                                                                                            
    SP5:                                                                                                        -                                                   

    ExUns: 15a · 15b ^ 16 ^ 17 ^ 18a · 18b ^ 19 ^ 20 ^ 21 ^ 22a · 22b ^ 23 ^ 24
    SP1:                                                                              
    SP2:                                                                              
    SP3:                                                                              
    SP4:                                                                              
    SP5:                                                                              


    ECgene alternative splicing isoforms for COPA

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    COPA expression in normal human tissues (normalized intensities)      COPA embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGCTGGGAAA
    COPA Expression
    About this image


    COPA expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/30 selected tissues (see all 30) fully expand
     
     Testis (Reproductive System)    fully expand to see all 4 entries
             Leydig Cells Testis Interstitium
             seminal vesicle ; glandular cells   
     
     Uterus (Reproductive System)    fully expand to see all 4 entries
             uterus, post-menopause ; glandular cells   
     
     Brain (Nervous System)    fully expand to see all 4 entries
             Cerebral Cortex
     
     Epithelium (Uncategorized)    fully expand to see all 4 entries
             vagina ; squamous epithelial cells   
     
     Colon (Gastrointestinal Tract)    fully expand to see all 3 entries
             rectum ; glandular cells   

    See COPA Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for COPA

    SOURCE GeneReport for Unigene clusters: Hs.162121 Hs.685025

    UniProtKB/Swiss-Prot: COPA_HUMAN, P53621
    Tissue specificity: Uniformly expressed in a wide range of adult and fetal tissues. Xenin is found in gastric,
    duodenal and jejunal mucosa. Circulates in the blood. Seems to be confined to specific endocrine cells

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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for COPA gene from 9/21 species (see all 21)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Copa1 , 5 coatomer protein complex subunit alpha1, 5 91.07(n)1
    98.45(a)1
      1 (79.54 cM)5
    128471  NM_009938.41  NP_034068.31 
     1720825295 
    chicken
    (Gallus gallus)
    Aves COPA1 coatomer protein complex, subunit alpha 82.9(n)
    96.57(a)
      426906  NM_001031405.1  NP_001026576.1 
    lizard
    (Anolis carolinensis)
    Reptilia --
    COPA6
    coatomer protein complex, subunit alpha
    95(a)
    79(a)
    possible ortholog
    1 ↔ 1
    GL343878.1(127963-145644)
    AAWZ02039946(278-5338)
    zebrafish
    (Danio rerio)
    Actinopterygii copa1 coatomer protein complex, subunit alpha 75.36(n)
    86.75(a)
      260439  NM_001001941.2  NP_001001941.2 
    fruit fly
    (Drosophila melanogaster)
    Insecta alphaCop1 , 3 retrograde (Golgi to ER) transport3
    alpha-coatomer protein1
    69(a)3
    66.2(n)1
    71.94(a)1
      62A93
    381991  NM_167908.21  NP_728648.11 
    worm
    (Caenorhabditis elegans)
    Secernentea Y71F9AL.171 , 3 coatomer, alpha chain3
    Protein Y71F9AL.171
    64(a)3
    60.18(n)1
    60.98(a)1
      I(2895563-2900802)3
    1718601  NM_058668.41  NP_491069.11 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes COP1(YDL145C)4
    COP11
    Alpha subunit of COPI vesicle coatomer complex, which more4
    Cop1p1
    51.58(n)1
    45.78(a)1
      4(198176-194571)4
    8514101, 4  NP_010136.11, 4 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT2G213901 coatomer subunit alpha-2 59.15(n)
    56.79(a)
      816678  NM_127711.3  NP_179734.1 
    rice
    (Oryza sativa)
    Liliopsida Os09g01278001 hypothetical protein 59.32(n)
    57.35(a)
      4346440  NM_001069147.1  NP_001062612.1 


    ENSEMBL Gene Tree for COPA (if available)
    TreeFam Gene Tree for COPA (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for COPA gene
    COPB22  

    COPA for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/1088 SNPs in COPA are shown (see all 1088)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0665254
    ----see VAR_0665252 I V mis40--------
    rs1165125791,2
    F--160257884(+) ACTCCC/TGGCTA 2 -- ds50011Minor allele frequency- T:0.01WA 118
    rs1117303131,2
    C--160257898(+) GTACAT/-TTTTT 2 -- ds50011Minor allele frequency- -:0.00CSA 2
    rs1833045391,2
    --160257926(+) GTCTCA/GCTCTT 2 -- ds50010--------
    rs75237691,2
    C,F,A,H--160257980(+) TGTACA/TCTGTT 2 -- ds500117Minor allele frequency- T:0.40NA NS EA WA CSA 932
    rs755380341,2
    F--160258023(+) AAAAAA/GGCAAC 2 -- ds50011Minor allele frequency- G:0.13WA 118
    rs1877927691,2
    --160258025(+) AAAAGC/GAACTC 2 -- ds50010--------
    rs1922414961,2
    --160258041(+) ATAAAA/GCTAAA 2 -- ds50010--------
    rs769127861,2
    C,F--160258053(+) AATACA/GACGTA 2 -- ds50013Minor allele frequency- G:0.21WA CSA 122
    rs1844054261,2
    --160258082(+) AAAACA/CAAGTG 2 -- ds50010--------

    HapMap Linkage Disequilibrium report for COPA (160258377 - 160313354 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for COPA:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv272694CNV Insertion20981092
    nsv3210CNV Loss18451855

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 601924    OMIM disorders: --

    7 diseases for COPA:    About MalaCards
    menkes disease    wilson disease    pancreatitis    neuroendocrine tumor
    duodenitis    hepatocellular carcinoma    neuronitis


    COPA for disorders           About GeneDecksing

    1 Novoseek inferred disease relationship for COPA gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    hepatocellular carcinoma 5.76 1 9115636 (1)


    Export disorders for COPA gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for COPA gene, integrated from 9 sources (see all 100):
    (articles sorted by number of sources associating them with COPA)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. HEP-COP, a novel human gene whose product is highly homologous to the alpha-subunit of the yeast coatomer protein complex. (PubMed id 8647451)1, 2, 3, 9 Chow V.T.K. and Quek H.H. (1996)
    2. Xenin -- a review. (PubMed id 9533652)1, 2, 9 Feurle G.E. (1998)
    3. Alpha coat protein COPA (HEP-COP): presence of an Alu repeat in cDNA and identity of the amino terminus to xenin. (PubMed id 9365789)1, 2, 9 Chow V.T.K. and Quek H.H. (1997)
    4. Identification of xenin, a xenopsin-related peptide, in the human gastric mucosa and its effect on exocrine pancreatic secretion. (PubMed id 1429581)1, 2, 9 Feurle G.E.... Metzger J.W. (1992)
    5. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)1, 2 Beausoleil S.A.... Gygi S.P. (2006)
    6. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
    7. Genomic organization and mapping of the human HEP-COP gene (COPA) to 1q. (PubMed id 9186507)1, 9 Quek H.H. and Chow V.T. (1997)
    8. Molecular and cellular studies of the human homolog of the 160-kD alpha-subunit of the coatomer protein complex. (PubMed id 9115636)1, 9 Quek H.H. and Chow V.T. (1997)
    9. A Proteomics Strategy for the Identification of FAT10- Modified Sites by Mass Spectrometry. (PubMed id 23862649)1 Leng L....Wang J. (2013)
    10. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 1314 HGNC: 2230 AceView: COPA Ensembl:ENSG00000122218 euGenes: HUgn1314
    ECgene: COPA H-InvDB: COPA

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for COPA Pharmacogenomics, SNPs, Pathways
    Wikipedia http://en.wikipedia.org/wiki/Xenin

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for COPA gene:
    Search GeneIP for patents involving COPA

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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    About This Section

     
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