Pcdhgc3 MGI Mouse Gene Detail - MGI:1935201 - protocadherin gamma subfamily C, 3

Symbol

Pcdhgc3
Name

protocadherin gamma subfamily C, 3
Synonyms

PC43, Pcdh2

Feature Type

protein coding gene
IDs

MGI:1935201
NCBI Gene: 93706
Member of

Pcdhg cluster
Alliance

gene page
Transcription Start Sites

13 TSS

Sequence Map

Chr18:37939463-37974926 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 18, 19.67 cM
Mapping Data

4 experiments

SNPs within 2kb

721 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1935201	protein coding gene	Chr18:37939417-37974926 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0024351	protein coding gene	Chr18:36222976-36259977 (+)
A/J	MGP_AJ_G0024318	protein coding gene	Chr18:34975684-35011794 (+)
AKR/J	MGP_AKRJ_G0024287	protein coding gene	Chr18:35934197-35972570 (+)
BALB/cJ	MGP_BALBcJ_G0024318	protein coding gene	Chr18:35041678-35077409 (+)
C3H/HeJ	MGP_C3HHeJ_G0024084	protein coding gene	Chr18:36001924-36038769 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0024760	protein coding gene	Chr18:37521091-37559702 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0022199	protein coding gene	Chr18:34993059-35028291 (+)
CAST/EiJ	MGP_CASTEiJ_G0023559	protein coding gene	Chr18:35940136-35977834 (+)
CBA/J	MGP_CBAJ_G0024054	protein coding gene	Chr18:38626800-38667943 (+)
DBA/2J	MGP_DBA2J_G0024184	protein coding gene	Chr18:34575189-34611340 (+)
FVB/NJ	MGP_FVBNJ_G0024150	protein coding gene	Chr18:34285459-34321591 (+)
LP/J	MGP_LPJ_G0024268	protein coding gene	Chr18:36284722-36321813 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0024181	protein coding gene	Chr18:39889598-39929365 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0024809	protein coding gene	Chr18:35795227-35837204 (+)
PWK/PhJ	MGP_PWKPhJ_G0023303	protein coding gene	Chr18:34781563-34819114 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0023108	protein coding gene	Chr18:36015929-36054330 (+)
WSB/EiJ	MGP_WSBEiJ_G0023622	protein coding gene	Chr18:35698273-35737854 (+)

Human Ortholog

PCDHGC3, protocadherin gamma subfamily C, 3

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PCDHGC3, protocadherin gamma subfamily C, 3
Synonyms

PC43, PCDH2, PCDH-GAMMA-C3
Links

HGNC:8716

NCBI Gene ID: 5098

neXtProt AC: NX_Q9UN70

UniProt: Q9UN70
Chr Location

5q31.3; chr5:141475947-141512977 (+) GRCh38

MGI Vertebrate Homology

Pcdhgc3 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: PCDHGC3
Gene Tree

Pcdhgc3

less

Phenotype Summary

1 phenotype from 1 allele in 1 genetic background
10 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

7
Endonuclease-mediated

3
Targeted

4
Genomic Mutations

6 involving Pcdhgc3
Find Mice (IMSR)

56 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

less

All GO Annotations

11
GO References

5

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

less

Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

737
Tissues

14
cDNA Data

7
Literature Summary

7

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas

less

All Sequences

40
RefSeq

2
UniProt

3
CCDS

CCDS29192.1

Ensembl

ENSMUSG00000102918 (Evidence)
NCBI Gene

93706

			Length	Strain/Species	Flank
genomic	93706	NCBI Gene Model \| MGI Sequence Detail	35464	C57BL/6J	± kb
transcript	NM_033581	RefSeq \| MGI Sequence Detail	4687	ZRU/MplStud
polypeptide	NP_291059	RefSeq \| MGI Sequence Detail	934	ZRU/MplStud

less

UniProt

3 Sequences
PDB

4ZI8
InterPro Domains

IPR020894 Cadherin conserved site

IPR031904 Cadherin, C-terminal catenin-binding domain

IPR032455 Cadherin, cytoplasmic C-terminal domain

IPR002126 Cadherin-like

IPR015919 Cadherin-like superfamily

IPR013164 Cadherin, N-terminal

IPR050174 Protocadherin/Cadherin-related Cell Adhesion
GlyGen

Q91XX1 3 sites, 3 N-linked glycans (3 sites)

less

All nucleic 14

Genomic 2

cDNA 8

Primer pair 4

less

MGD-MRK-27054, MGI:104691

Summaries

All 37

Developmental Gene Expression 7

Gene Ontology 5

Phenotypes 10
Earliest

J:29362 Sago H, et al., Cloning, expression, and chromosomal localization of a novel cadherin-related protein, protocadherin-3. Genomics. 1995 Oct 10;29(3):631-40
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Pcdhgc3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr150739	Chr18:37939442-37939506 (+)	11 bp
Tssr5287	Chr18:37939522-37939525 (+)	61 bp
Tssr150740	Chr18:37939544-37939549 (+)	84 bp
Tssr150741	Chr18:37940063-37940076 (+)	607 bp
Tssr150742	Chr18:37940091-37940144 (+)	655 bp
Tssr150743	Chr18:37940893-37940914 (+)	1,441 bp
Tssr150744	Chr18:37941098-37941172 (+)	1,672 bp
Tssr150745	Chr18:37941743-37941757 (+)	2,287 bp
Tssr150746	Chr18:37941766-37941772 (+)	2,306 bp
Tssr5289	Chr18:37941786-37941793 (+)	2,327 bp
Tssr150747	Chr18:37945713-37945740 (+)	6,264 bp
Tssr150748	Chr18:37945923-37945950 (+)	6,474 bp
Tssr150749	Chr18:37946123-37946141 (+)	6,669 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 12/10/2024 MGI 6.24