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    Arcn1 archain 1 [ Mus musculus (house mouse) ]

    Gene ID: 213827, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Arcn1provided by MGI
    Official Full Name
    archain 1provided by MGI
    Primary source
    MGI:MGI:2387591
    See related
    Ensembl:ENSMUSG00000032096 AllianceGenome:MGI:2387591
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    nur17; 4632432M07Rik
    Summary
    Acts upstream of or within several processes, including Golgi vesicle transport; adult locomotory behavior; and cerebellar Purkinje cell layer maturation. Located in COPI-coated vesicle; Golgi apparatus; and endoplasmic reticulum. Is expressed in several structures, including genitourinary system. Orthologous to human ARCN1 (archain 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in placenta adult (RPKM 54.6), limb E14.5 (RPKM 40.9) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Arcn1 in Genome Data Viewer
    Location:
    9 A5.2; 9 24.84 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (44653440..44679105, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (44742143..44767808, complement)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene trehalase (brush-border membrane glycoprotein) Neighboring gene pleckstrin homology like domain, family B, member 1 Neighboring gene predicted gene, 24166 Neighboring gene STARR-positive B cell enhancer ABC_E9756 Neighboring gene intraflagellar transport 46 Neighboring gene transmembrane protein 25 Neighboring gene tetratricopeptide repeat domain 36

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Mutation in archain 1, a subunit of COPI coatomer complex, causes diluted coat color and Purkinje cell degeneration. Xu X, et al. PLoS Genet, 2010 May 20. PMID 20502676, Free PMC Article
    2. Relevance of the COPI complex for Alzheimer's disease progression in vivo. Bettayeb K, et al. Proc Natl Acad Sci U S A, 2016 May 10. PMID 27114526, Free PMC Article
    3. Stomach-specific calpain, nCL-2, localizes in mucus cells and proteolyzes the beta-subunit of coatomer complex, beta-COP. Hata S, et al. J Biol Chem, 2006 Apr 21. PMID 16476741
    4. IRE1α governs cytoskeleton remodelling and cell migration through a direct interaction with filamin A. Urra H, et al. Nat Cell Biol, 2018 Aug. PMID 30013108
    5. Functional genetic analysis of mouse chromosome 11. Kile BT, et al. Nature, 2003 Sep 4. PMID 12955145

    See all (39) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. nCL-2, localizes in mucus cells and proteolyzes the beta-subunit of coatomer complex, beta-COP
      Title: Stomach-specific calpain, nCL-2, localizes in mucus cells and proteolyzes the beta-subunit of coatomer complex, beta-COP.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Chemically induced (ENU) (2)  1 citation
    • Targeted (1) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC27546, MGC102316

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    involved_in Golgi localization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within Golgi vesicle transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within adult locomotory behavior IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within cerebellar Purkinje cell layer maturation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within establishment of localization in cell IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within pigmentation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of COPI vesicle coat IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of COPI vesicle coat IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in COPI-coated vesicle IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    coatomer subunit delta
    Names
    delta-COP
    delta-coat protein
    pale coat neuro

    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_145985.4 → NP_666097.3  coatomer subunit delta

      See identical proteins and their annotated locations for NP_666097.3

      Status: PROVISIONAL

      Source sequence(s)
      BC033387
      Consensus CDS
      CCDS40602.1
      UniProtKB/Swiss-Prot
      Q5XJY5, Q91W48
      UniProtKB/TrEMBL
      Q3U4S9
      Related
      ENSMUSP00000034607.10, ENSMUST00000034607.10
      Conserved Domains (2) summary
      cd09254
      Location:272 → 508
      AP_delta-COPI_MHD; Mu homology domain (MHD) of adaptor protein (AP) coat protein I (COPI) delta subunit
      cd14830
      Location:4 → 133
      Delta_COP_N; delta subunit of the F-COPI complex, N-terminal domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000075.7 Reference GRCm39 C57BL/6J

      Range
      44653440..44679105 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5XJY5.2 GenPept UniProtKB/Swiss-Prot:Q5XJY5

    Gene LinkOut

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

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