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    Pcdhga1 protocadherin gamma subfamily A, 1 [ Mus musculus (house mouse) ]

    Gene ID: 93709, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Pcdhga1provided by MGI
    Official Full Name
    protocadherin gamma subfamily A, 1provided by MGI
    Primary source
    MGI:MGI:1935212
    See related
    Ensembl:ENSMUSG00000103144 AllianceGenome:MGI:1935212
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Summary
    Predicted to be involved in cell adhesion. Located in membrane. Is expressed in brain. Orthologous to human PCDHGA1 (protocadherin gamma subfamily A, 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in frontal lobe adult (RPKM 49.2), cortex adult (RPKM 44.4) and 24 other tissues See more
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    Genomic context

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    See Pcdhga1 in Genome Data Viewer
    Location:
    18 B3; 18 19.54 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (37794828..37974923)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (37661775..37841870)

    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 protein UXT pseudogene Neighboring gene protocadherin gamma subfamily A, 2 Neighboring gene protocadherin gamma subfamily A, 3 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. Combinatorial expression of alpha- and gamma-protocadherins alters their presenilin-dependent processing. Bonn S, et al. Mol Cell Biol, 2007 Jun. PMID 17403907, Free PMC Article
    2. Differential expression of individual gamma-protocadherins during mouse brain development. Frank M, et al. Mol Cell Neurosci, 2005 Aug. PMID 15964765
    3. Toward simpler and faster genome-wide mutagenesis in mice. Wu S, et al. Nat Genet, 2007 Jul. PMID 17572674
    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. Functional significance of isoform diversification in the protocadherin gamma gene cluster. Chen WV, et al. Neuron, 2012 Aug 9. PMID 22884324, Free PMC Article

    See all (21) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (1)  1 citation

    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
    		  
    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-A1

    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_033584.2 → NP_291062.1  protocadherin gamma-A1 precursor

      See identical proteins and their annotated locations for NP_291062.1

      Status: VALIDATED

      Source sequence(s)
      AC020971, AC129315
      Consensus CDS
      CCDS79622.1
      UniProtKB/TrEMBL
      A0A0A6YW27, Q91XZ0
      Related
      ENSMUSP00000142062.2, ENSMUST00000194190.2
      Conserved Domains (4) summary
      cd11304
      Location:246 → 343
      Cadherin_repeat; Cadherin tandem repeat domain
      pfam08266
      Location:31 → 112
      Cadherin_2; Cadherin-like
      pfam15974
      Location:808 → 904
      Cadherin_tail; Cadherin C-terminal cytoplasmic tail, catenin-binding region
      pfam16492
      Location:688 → 772
      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
      37794828..37974923
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials