Pcdhac2 protocadherin alpha subfamily C, 2 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Pcdhac2provided by MGI
Official Full Name: protocadherin alpha subfamily C, 2provided by MGI
Primary source: MGI:MGI:1891443
See related: Ensembl:ENSMUSG00000102697 AllianceGenome:MGI:1891443
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
Also known as: CNRc2
Summary: Acts upstream of or within serotonergic neuron axon guidance. Predicted to be active in plasma membrane. Is expressed in brain. Orthologous to human PCDHAC2 (protocadherin alpha subfamily C, 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in CNS E18 (RPKM 21.2), cortex adult (RPKM 14.2) and 8 other tissues See more
Orthologs: human all
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Genomic context

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 (37276731..37320716)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	18	NC_000084.6 (37143678..37187663)

Chromosome 18 - NC_000084.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pcdh-alphaC2 (alphaC2), a Pcdh-alpha isoform, was highly expressed in serotonergic neurons, and was required for normal diffusion in single-axon-level analyses of serotonergic axons.
Title: Protocadherin-αC2 is required for diffuse projections of serotonergic axons.
conditional deletion of the mouse protocadherin alpha (Pcdhalpha) gene cluster in serotonergic neurons disrupts local axonal tiling and global assembly of serotonergic circuitries and results in depression-like behaviors.
Title: Pcdhαc2 is required for axonal tiling and assembly of serotonergic circuitries in mice.

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Variation

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Alleles

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

Targeted (1) 1 citation

General gene information

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Markers

PMC312645P1 (e-PCR)
- UniSTS:272906

WI-19540 (e-PCR)
- UniSTS:63886

NoName (e-PCR)
- UniSTS:547524

Pcdha (e-PCR), detects polymorphism
- UniSTS:547524

RH65516 (e-PCR)
- UniSTS:66009

PMC311048P1 (e-PCR)
- UniSTS:272867

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
acts_upstream_of_or_within serotonergic neuron axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: protocadherin alpha-C2

Names: protocadherin alpha C2

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)

NM_001003672.2 → NP_001003672.1 protocadherin alpha-C2 precursor

See identical proteins and their annotated locations for NP_001003672.1

Status: VALIDATED

Source sequence(s)

AC020972, AC020973

Consensus CDS

CCDS29168.1

UniProtKB/TrEMBL

Q91Y09

Related

ENSMUSP00000039888.2, ENSMUST00000047479.3

Conserved Domains (4) summary

cd11304
Location:260 → 360

Cadherin_repeat; Cadherin tandem repeat domain

pfam15974
Location:855 → 998

Cadherin_tail; Cadherin C-terminal cytoplasmic tail, catenin-binding region

pfam16492
Location:702 → 807

Cadherin_C_2; Cadherin cytoplasmic C-terminal

cl09101
Location:42 → 126

E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus