U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Pcdhac1 protocadherin alpha subfamily C, 1 [ Mus musculus (house mouse) ]

Gene ID: 353236, updated on 11-Apr-2024

Summary

Go to the top of the page Help
Official Symbol
Pcdhac1provided by MGI
Official Full Name
protocadherin alpha subfamily C, 1provided by MGI
Primary source
MGI:MGI:1891442
See related
Ensembl:ENSMUSG00000103255 AllianceGenome:MGI:1891442
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
CNRc1
Summary
Predicted to be involved in cell adhesion. Predicted to be integral component of plasma membrane. Orthologous to human PCDHAC1 (protocadherin alpha subfamily C, 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in CNS E18 (RPKM 19.5), cortex adult (RPKM 12.5) and 7 other tissues See more
Orthologs
human all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
18 B3; 18 19.46 cM
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 18 NC_000084.7 (37223189..37320710)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 18 NC_000084.6 (37090136..37187657)

Chromosome 18 - NC_000084.7Genomic Context describing neighboring genes Neighboring gene protocadherin alpha 1 Neighboring gene protocadherin alpha 2 Neighboring gene protocadherin alpha 4B Neighboring gene protocadherin alpha 3 Neighboring gene protocadherin alpha 4 Neighboring gene predicted gene, 38666 Neighboring gene protocadherin alpha 5 Neighboring gene predicted gene, 38667 Neighboring gene protocadherin alpha 6 Neighboring gene protocadherin alpha 7 Neighboring gene protocadherin alpha 8 Neighboring gene protocadherin alpha 10 Neighboring gene protocadherin alpha 9 Neighboring gene protocadherin alpha 11 Neighboring gene predicted gene 10545 Neighboring gene protocadherin alpha 5 pseudogene Neighboring gene protocadherin alpha 12 Neighboring gene heat shock transcription factor 2 binding protein pseudogene Neighboring gene protocadherin alpha subfamily C, 2 Neighboring gene predicted gene 10544 Neighboring gene STARR-seq mESC enhancer starr_44309 Neighboring gene protocadherin beta 1 Neighboring gene protocadherin beta 2

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Toward simpler and faster genome-wide mutagenesis in mice. Wu S, et al. Nat Genet, 2007 Jul. PMID 17572674
  2. Monoallelic yet combinatorial expression of variable exons of the protocadherin-alpha gene cluster in single neurons. Esumi S, et al. Nat Genet, 2005 Feb. PMID 15640798
  3. Alpha protocadherins and Pyk2 kinase regulate cortical neuron migration and cytoskeletal dynamics via Rac1 GTPase and WAVE complex in mice. Fan L, et al. Elife, 2018 Jun 18. PMID 29911975, Free PMC Article
  4. CNR/Pcdhalpha family in subplate neurons, and developing cortical connectivity. Morishita H, et al. Neuroreport, 2004 Dec 3. PMID 15570159
  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 (12) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
involved_in cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

Go to the top of the page Help
Preferred Names
protocadherin alpha-C1
Names
protocadherin alpha C1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001003671.1 → NP_001003671.1  protocadherin alpha-C1 precursor

    See identical proteins and their annotated locations for NP_001003671.1

    Status: PROVISIONAL

    Source sequence(s)
    AY013768
    Consensus CDS
    CCDS29167.1
    UniProtKB/TrEMBL
    Q91Y10
    Related
    ENSMUSP00000007584.2, ENSMUST00000007584.4
    Conserved Domains (3) summary
    cd11304
    Location:451 → 552
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam15974
    Location:813 → 956
    Cadherin_tail; Cadherin C-terminal cytoplasmic tail, catenin-binding region
    cl09101
    Location:21 → 103
    E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

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
    37223189..37320710
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
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
Tools
Miscellaneous