Pcdhgc5 protocadherin gamma subfamily C, 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pcdhgc5provided by RGD
Official Full Name: protocadherin gamma subfamily C, 5provided by RGD
Primary source: RGD:2312582
See related: AllianceGenome:RGD:2312582
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable calcium ion binding activity. Predicted to be involved in homophilic cell adhesion via plasma membrane adhesion molecules. Predicted to act upstream of or within negative regulation of neuron apoptotic process and synapse organization. Predicted to be located in membrane. Orthologous to human PCDHGC5 (protocadherin gamma subfamily C, 5). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Biased expression in Brain (RPKM 335.4), Lung (RPKM 179.4) and 9 other tissues See more
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Genomic context

Location:: 18p11

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	18	NC_086036.1 (29898430..29917566)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	18	NC_051353.1 (29647201..29666336)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	18	NC_005117.4 (30964402..30969584)

Chromosome 18 - NC_086036.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in homophilic cell adhesion via plasma membrane adhesion molecules	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within synapse organization	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: protocadherin gamma-C5

Names: protocadherin gamma c5

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_001164288.1 → NP_001157760.1 protocadherin gamma-C5

See identical proteins and their annotated locations for NP_001157760.1

Status: PROVISIONAL

Source sequence(s)

GQ131870

UniProtKB/TrEMBL

C6JUM5

Conserved Domains (4) summary

cd11304
Location:246 → 346

Cadherin_repeat; Cadherin tandem repeat domain

pfam08266
Location:30 → 111

Cadherin_2; Cadherin-like

pfam15974
Location:821 → 917

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

pfam16492
Location:689 → 791

Cadherin_C_2; Cadherin cytoplasmic C-terminal