Pcdh9 MGI Mouse Gene Detail - MGI:1306801

Pcdh9 Gene Detail

Symbol

Pcdh9
Name

protocadherin 9
Synonyms

1500001L12Rik, A730003J17Rik, C530050I23Rik, C630029H24Rik, LOC382930

Feature Type

protein coding gene
IDs

MGI:1306801
NCBI Gene: 211712
Alliance

gene page

Sequence Map

Chr14:93013410-93890679 bp, - strand
From VEGA annotation of GRCm38

Mouse Genome Browser
Download
Sequence

877270 bp ± kb flank
Genome Browsers

VEGA | Ensembl | UCSC | NCBI

Genetic Map

Chromosome 14, 45.80 cM
Mapping Data

4 experiments

Human Ortholog

PCDH9, protocadherin 9

Vertebrate Orthologs

10

Human Ortholog

PCDH9, protocadherin 9
Orthology source: HomoloGene, HGNC
Links

HGNC:8661

NCBI Gene ID: 5101

neXtProt AC: NX_Q9HC56

UniProt: Q9HC56
Chr Location

13q21.32; chr13:66302834-67230336 (-) GRCh38.p7

HomoloGene

Vertebrate Homology Class 10698
1 human;1 mouse;1 rat;1 chimpanzee;1 cattle;1 dog;1 chicken;1 zebrafish;1 frog, western clawed;1 macaque, rhesus
HCOP

human homology predictions: PCDH9
Gene Tree

Pcdh9

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Phenotype Summary

12 phenotypes from 1 allele in 1 genetic background
6 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
Chemically induced (other)

1
Gene trapped

1
Targeted

3
Genomic Mutations

1 involving Pcdh9
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

32 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a knock-out allele exhibit impaired long-term social and bject recognition and sensorimotor development.

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All GO Annotations

4
GO References

3

External Resources

FuncBase

Molecular Function

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

Biological Process

nucleic acid-templated transcription	carbohydrate derivative metabolism	cell death	cell differentiation	cell proliferation	cellular component organization	establishment of localization	homeostatic process	immune system process	lipid metabolic process	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	non-membrane-bounded organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	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

143
Tissues

120
cDNA Data

20
Literature Summary

13

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GENSAT

GEO

Expression Atlas
Other Vertebrate Links

GEISHA PCDH9

Xenbase pcdh9

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Pcdh9 interacts with 134 markers (Mir7-1, Mir7-2, Mir7b, ...) View All

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All Sequences

81
RefSeq

14
UniProt

15
CCDS

CCDS36992.1, CCDS79350.1, CCDS79352.1, CCDS84156.1

			Length	Strain/Species	Flank
genomic	OTTMUSG00000050936	VEGA Gene Model \| MGI Sequence Detail	877270	C57BL/6J	± kb
transcript	OTTMUST00000129100	VEGA \| MGI Sequence Detail	6521	Not Applicable
polypeptide	OTTMUSP00000069389	VEGA \| MGI Sequence Detail	1237	Not Applicable

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SNPs within 2kb

9487 from dbSNP Build 142

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UniProt

15 Sequences
InterPro Domains

IPR002126 Cadherin

IPR020894 Cadherin conserved site

IPR015919 Cadherin-like

IPR013164 Cadherin, N-terminal

IPR013585 Protocadherin

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All nucleic 25

cDNA 23

Primer pair 1

Other 1

Microarray probesets 9

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MGI:1916209, MGI:2444471, MGI:2685143, MGI:2686059, MGI:3510991

Summaries

All 36

Developmental Gene Expression 13

Gene Ontology 3

Phenotypes 6
Earliest

J:50455 Strehl S, et al., Characterization of two novel protocadherins (PCDH8 and PCDH9) localized on human chromosome 13 and mouse chromosome 14. Genomics. 1998 Oct 1;53(1):81-9
Latest

J:237757 Bruining H, et al., Genetic Mapping in Mice Reveals the Involvement of Pcdh9 in Long-Term Social and Object Recognition and Sensorimotor Development. Biol Psychiatry. 2015 Oct 01;78(7):485-95

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
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