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    Pcdhga3 protocadherin gamma subfamily A, 3 [ Mus musculus (house mouse) ]

    Gene ID: 93711, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Pcdhga3provided by MGI
    Official Full Name
    protocadherin gamma subfamily A, 3provided by MGI
    Primary source
    MGI:MGI:1935215
    See related
    Ensembl:ENSMUSG00000104346 AllianceGenome:MGI:1935215
    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
    Summary
    Acts upstream of or within endosome to lysosome transport and lipid tube assembly involved in organelle fusion. Located in membrane. Is expressed in brain. Orthologous to human PCDHGA3 (protocadherin gamma subfamily A, 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in frontal lobe adult (RPKM 48.3), whole brain E14.5 (RPKM 44.3) and 24 other tissues See more
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    Genomic context

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    See Pcdhga3 in Genome Data Viewer
    Location:
    18 B3; 18 19.55 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (37807388..37974926)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (37674335..37841873)

    Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene protocadherin alpha 4B Neighboring gene predicted gene, 38666 Neighboring gene predicted gene, 38667 Neighboring gene RIKEN cDNA 3222401L13 gene Neighboring gene STARR-seq mESC enhancer starr_44317 Neighboring gene protocadherin gamma subfamily A, 1 Neighboring gene protein UXT pseudogene Neighboring gene protocadherin gamma subfamily A, 2 Neighboring gene protocadherin gamma subfamily B, 1 Neighboring gene protocadherin gamma subfamily A, 4 Neighboring gene protocadherin gamma subfamily B, 2 Neighboring gene protocadherin gamma subfamily A, 5 Neighboring gene STARR-seq mESC enhancer starr_44321 Neighboring gene predicted gene, 24401 Neighboring gene protocadherin gamma subfamily A, 6 Neighboring gene protocadherin gamma subfamily A, 7 Neighboring gene protocadherin gamma subfamily B, 4 Neighboring gene protocadherin gamma subfamily A, 8 Neighboring gene protocadherin gamma subfamily B, 5 Neighboring gene STARR-seq mESC enhancer starr_44322 Neighboring gene protocadherin gamma subfamily A, 10 Neighboring gene protocadherin gamma subfamily A, 9 Neighboring gene protocadherin gamma subfamily A, 11 Neighboring gene protocadherin gamma subfamily B, 6 Neighboring gene protocadherin gamma subfamily B, 7 Neighboring gene protocadherin gamma subfamily A, 12 Neighboring gene STARR-seq mESC enhancer starr_44324 Neighboring gene protocadherin gamma subfamily B, 8 Neighboring gene cDNA sequence BC037039 Neighboring gene protocadherin gamma subfamily C, 3 Neighboring gene STARR-seq mESC enhancer starr_44330 Neighboring gene STARR-seq mESC enhancer starr_44331 Neighboring gene protocadherin gamma subfamily C, 4 Neighboring gene protocadherin gamma subfamily C, 5 Neighboring gene predicted gene, 29994 Neighboring gene STARR-seq mESC enhancer starr_44332 Neighboring gene STARR-positive B cell enhancer ABC_E8711 Neighboring gene microRNA 6979 Neighboring gene diaphanous related formin 1 Neighboring gene STARR-seq mESC enhancer starr_44334 Neighboring gene STARR-positive B cell enhancer ABC_E1953 Neighboring gene histone deacetylase 3

    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 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. Gamma-protocadherin homophilic interaction and intracellular trafficking is controlled by the cytoplasmic domain in neurons. Fernández-Monreal M, et al. Mol Cell Neurosci, 2009 Mar. PMID 19136062, Free PMC Article
    2. A variable cytoplasmic domain segment is necessary for γ-protocadherin trafficking and tubulation in the endosome/lysosome pathway. O'Leary R, et al. Mol Biol Cell, 2011 Nov. PMID 21917590, Free PMC Article
    3. Differential expression of individual gamma-protocadherins during mouse brain development. Frank M, et al. Mol Cell Neurosci, 2005 Aug. PMID 15964765
    4. Maturation of postnatally generated olfactory bulb granule cells depends on functional γ-protocadherin expression. Ledderose J, et al. Sci Rep, 2013. PMID 23515096, Free PMC Article
    5. Developmental epigenetic modification regulates stochastic expression of clustered protocadherin genes, generating single neuron diversity. Toyoda S, et al. Neuron, 2014 Apr 2. PMID 24698270

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within endosome to lysosome transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within lipid tube assembly involved in organelle fusion IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    protocadherin gamma-A3

    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_033586.2 → NP_291064.1  protocadherin gamma-A3 precursor

      See identical proteins and their annotated locations for NP_291064.1

      Status: PROVISIONAL

      Source sequence(s)
      BC060691
      Consensus CDS
      CCDS37781.1
      UniProtKB/TrEMBL
      Q91XY5
      Related
      ENSMUSP00000073150.6, ENSMUST00000073447.8
      Conserved Domains (4) summary
      cd11304
      Location:243 → 340
      Cadherin_repeat; Cadherin tandem repeat domain
      pfam08266
      Location:27 → 109
      Cadherin_2; Cadherin-like
      pfam15974
      Location:805 → 901
      Cadherin_tail; Cadherin C-terminal cytoplasmic tail, catenin-binding region
      pfam16492
      Location:685 → 768
      Cadherin_C_2; Cadherin cytoplasmic C-terminal

    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_000084.7 Reference GRCm39 C57BL/6J

      Range
      37807388..37974926
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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