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Pcdhgb1 protocadherin gamma subfamily B, 1 [ Mus musculus (house mouse) ]

Gene ID: 93699, updated on 11-Apr-2024

Summary

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Official Symbol
Pcdhgb1provided by MGI
Official Full Name
protocadherin gamma subfamily B, 1provided by MGI
Primary source
MGI:MGI:1935169
See related
Ensembl:ENSMUSG00000103037 AllianceGenome:MGI:1935169
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 growth cone and membrane. Is expressed in central nervous system. Orthologous to human PCDHGB1 (protocadherin gamma subfamily B, 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in frontal lobe adult (RPKM 50.4), whole brain E14.5 (RPKM 45.8) and 24 other tissues See more
Orthologs
human all
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Genomic context

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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 (37813325..37974923)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (37680272..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 protocadherin gamma subfamily A, 1 Neighboring gene protein UXT pseudogene Neighboring gene protocadherin gamma subfamily A, 2 Neighboring gene protocadherin gamma subfamily A, 3 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
  • 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 homophilic interaction between gamma-protocadherin multimers greatly expands the molecular diversity of cell adhesion. Schreiner D, et al. Proc Natl Acad Sci U S A, 2010 Aug 17. PMID 20679223, Free PMC Article
  2. The b1 isoform of protocadherin-gamma (Pcdhgamma) interacts with the microtubule-destabilizing protein SCG10. Gayet O, et al. FEBS Lett, 2004 Dec 3. PMID 15581637
  3. 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
  4. Functional significance of isoform diversification in the protocadherin gamma gene cluster. Chen WV, et al. Neuron, 2012 Aug 9. PMID 22884324, Free PMC Article
  5. A differential developmental pattern of spinal interneuron apoptosis during synaptogenesis: insights from genetic analyses of the protocadherin-gamma gene cluster. Prasad T, et al. Development, 2008 Dec. PMID 19029045, Free PMC Article

See all (20) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Data demonstrate role of the gamma-Pcdhs in synaptogenesis and implications for the molecular control of neuronal specificity.
    Title: Combinatorial homophilic interaction between gamma-protocadherin multimers greatly expands the molecular diversity of cell adhesion.
  2. Results identify SCG10 as a cytoplasmic interactor for protocadherin-gamma (Pcdhgamma)-b1 and other isoforms of the Pcdhgamma-b subfamily, and show that SCG10 and Pcdhgamma-b1 are found together in certain neuronal growth cones.
    Title: The b1 isoform of protocadherin-gamma (Pcdhgamma) interacts with the microtubule-destabilizing protein SCG10.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC101993

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 growth cone IDA
Inferred from Direct Assay
more info
 PubMed 
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-B1

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_033574.4 → NP_291052.3  protocadherin gamma-B1 precursor

    See identical proteins and their annotated locations for NP_291052.3

    Status: VALIDATED

    Source sequence(s)
    AC020971, AC129315
    Consensus CDS
    CCDS79624.1
    UniProtKB/TrEMBL
    Q7TQF1, Q91XX8
    Related
    ENSMUSP00000141348.2, ENSMUST00000192931.2
    Conserved Domains (4) summary
    cd11304
    Location:234 → 331
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08266
    Location:21 → 100
    Cadherin_2; Cadherin-like
    pfam15974
    Location:795 → 891
    Cadherin_tail; Cadherin C-terminal cytoplasmic tail, catenin-binding region
    pfam16492
    Location:675 → 756
    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
    37813325..37974923
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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