Pcdh12 MGI Mouse Gene Detail - MGI:1855700

Symbol

Pcdh12
Name

protocadherin 12
Synonyms

vascular endothelial cadherin-2, VE-cadherin-2

Feature Type

protein coding gene
IDs

MGI:1855700
NCBI Gene: 53601
Alliance

gene page
Transcription Start Sites

3 TSS

Sequence Map

Chr18:38400145-38417454 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 18, 20.17 cM, cytoband B3
Mapping Data

3 experiments

SNPs within 2kb

539 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1855700	protein coding gene	Chr18:38400142-38417455 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0024361	protein coding gene	Chr18:36707472-36725447 (-)
A/J	MGP_AJ_G0024328	protein coding gene	Chr18:35439691-35461863 (-)
AKR/J	MGP_AKRJ_G0024297	protein coding gene	Chr18:36401859-36418862 (-)
BALB/cJ	MGP_BALBcJ_G0024328	protein coding gene	Chr18:35504482-35521466 (-)
C3H/HeJ	MGP_C3HHeJ_G0024094	protein coding gene	Chr18:36475809-36493101 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0024770	protein coding gene	Chr18:38011646-38030099 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0022209	protein coding gene	Chr18:35458500-35475795 (-)
CAST/EiJ	MGP_CASTEiJ_G0023569	protein coding gene	Chr18:36431076-36448544 (-)
CBA/J	MGP_CBAJ_G0024064	protein coding gene	Chr18:39135955-39152964 (-)
DBA/2J	MGP_DBA2J_G0024194	protein coding gene	Chr18:35037863-35054942 (-)
FVB/NJ	MGP_FVBNJ_G0024160	protein coding gene	Chr18:34759952-34777292 (-)
LP/J	MGP_LPJ_G0024278	protein coding gene	Chr18:36769777-36786814 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0024191	protein coding gene	Chr18:40383305-40403028 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0024819	protein coding gene	Chr18:36278293-36295614 (-)
PWK/PhJ	MGP_PWKPhJ_G0023313	protein coding gene	Chr18:35264410-35282322 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0023118	protein coding gene	Chr18:36490687-36508070 (-)
WSB/EiJ	MGP_WSBEiJ_G0023632	protein coding gene	Chr18:36175878-36197158 (-)

Human Ortholog

PCDH12, protocadherin 12

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PCDH12, protocadherin 12
Synonyms

DMJDS1, VECAD2, VE-cadherin-2
Links

HGNC:8657

NCBI Gene ID: 51294

neXtProt AC: NX_Q9NPG4

UniProt: Q9NPG4
Chr Location

5q31.3; chr5:141943581-141969741 (-) GRCh38

MGI Vertebrate Homology

Pcdh12 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: PCDH12
Gene Tree

Pcdh12

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Phenotype Summary

2 phenotypes from 2 alleles in 2 genetic backgrounds
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

5
Endonuclease-mediated

2
Targeted

3
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

40 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a targeted mutation are viable, fertile and do not display any obvious histomorphological abnormalities.

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All GO Annotations

10
GO References

6

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.

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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

779
Tissues

48
cDNA Data

32
Literature Summary

35

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase pcdh12

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All Sequences

38
RefSeq

2
UniProt

3
CCDS

CCDS29199.1

Ensembl

ENSMUSG00000024440 (Evidence)
NCBI Gene

53601

			Length	Strain/Species	Flank
genomic	53601	NCBI Gene Model \| MGI Sequence Detail	17310	C57BL/6J	± kb
transcript	NM_017378	RefSeq \| MGI Sequence Detail	5587	C57BL/6
polypeptide	O55134	UniProt \| EBI \| MGI Sequence Detail	1180	Not Applicable

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UniProt

3 Sequences
Protein Ontology

PR:000012345 protocadherin-12

(term hierarchy)
InterPro Domains

IPR020894 Cadherin conserved site

IPR002126 Cadherin-like

IPR015919 Cadherin-like superfamily

IPR013164 Cadherin, N-terminal

IPR050174 Protocadherin/Cadherin-related Cell Adhesion
GlyGen

O55134 5 sites

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All nucleic 39

cDNA 34

Primer pair 4

Other 1

Microarray probesets 5

Summaries

All 67

Developmental Gene Expression 35

Gene Ontology 6

Phenotypes 10
Earliest

J:48727 Telo' P, et al., Identification of a novel cadherin (vascular endothelial cadherin-2) located at intercellular junctions in endothelial cells. J Biol Chem. 1998 Jul 10;273(28):17565-72
Latest

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

TSS for Pcdh12:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr153032	Chr18:38417444-38417461 (-)	1 bp
Tssr153031	Chr18:38417392-38417399 (-)	58 bp
Tssr153030	Chr18:38417375-38417381 (-)	76 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 11/12/2024 MGI 6.24