Prkd3 MGI Mouse Gene Detail - MGI:1922542

Symbol

Prkd3
Name

protein kinase D3
Synonyms

4930557O20Rik, 5730497N19Rik, MGC:47171, PKD3, Prkcn

Feature Type

protein coding gene
IDs

MGI:1922542
NCBI Gene: 75292
Alliance

genome feature page
Transcription Start Sites

7 TSS

Sequence Map

Chr17:79256834-79328245 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 17, 49.69 cM, cytoband E3
Mapping Data

4 experiments

SNPs within 2kb

2084 from dbSNP Build 142
Strain Annotations

19

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1922542	protein coding gene	Chr17:79256834-79328245 (-)
129S1/SvImJ	ENSMUSG00200024040	protein coding gene	Chr17:74630328-74701833 (-)
A/J	ENSMUSG00195027981	protein coding gene	Chr17:75984752-76056315 (-)
AKR/J	ENSMUSG00220013208	protein coding gene	Chr17:74892414-74963949 (-)
BALB/cJ	ENSMUSG00180004488	protein coding gene	Chr17:75694517-75766070 (-)
C3H/HeJ	ENSMUSG00175015590	protein coding gene	Chr17:74972693-75044211 (-)
C57BL/6NJ	ENSMUSG00215009073	protein coding gene	Chr17:74682036-74753462 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0021893	protein coding gene	Chr17:74686618-74757928 (-)
CAST/EiJ	ENSTCUG00005014433	protein coding gene	Chr17:75540374-75611939 (-)
CBA/J	ENSMUSG00210020319	protein coding gene	Chr17:74836078-74907584 (-)
DBA/2J	ENSMUSG00185012796	protein coding gene	Chr17:77669566-77741073 (-)
FVB/NJ	ENSMUSG00205025717	protein coding gene	Chr17:75450701-75522207 (-)
JF1/MsJ	ENSUMUG00000018266	protein coding gene	Chr17:77362552-77433999 (-)
LP/J	ENSMUSG00230020232	protein coding gene	Chr17:78670921-78742966 (-)
NOD/ShiLtJ	ENSMUSG00190009336	protein coding gene	Chr17:74734832-74806342 (-)
NZO/HlLtJ	ENSMUSG00225029967	protein coding gene	Chr17:80926412-80998350 (-)
PWK/PhJ	ENSLUMG00010005051	protein coding gene	Chr17:74607312-74678825 (-)
SPRET/EiJ	ENSMSPG00010008500	protein coding gene	Chr17:75074353-75140005 (-)
WSB/EiJ	ENSIUOG00005010282	protein coding gene	Chr17:75662822-75734562 (-)

Human Ortholog

PRKD3, protein kinase D3

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PRKD3, protein kinase D3
Synonyms

EPK2, nPKC-NU, PKC-NU, PKD3, PRKCN
Links

HGNC:9408

NCBI Gene ID: 23683

UniProt: O94806
Chr Location

2p22.2; chr2:37250502-37324833 (-) GRCh38

MGI Vertebrate Homology

Prkd3 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: PRKD3
Protein SuperFamily

PKC_mu_nu_D2
Gene Tree

Prkd3

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Phenotype Summary

8 phenotypes from 2 alleles in 2 genetic backgrounds
3 phenotypes from multigenic genotypes
25 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

30
Endonuclease-mediated

6
Gene trapped

17
Targeted

7
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

64 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygous mutation of this gene results in abnormal vertebral trabecular bone morphology and abnormal femur morphology.

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All GO Annotations

17
GO References

7

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

888
Tissues

209
cDNA Data

17
Literature Summary

6

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase prkd3

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All Sequences

67
RefSeq

8
UniProt

6
CCDS

CCDS37699.1, CCDS50184.1, CCDS50185.1

Ensembl

ENSMUSG00000024070 (Evidence)
NCBI Gene

75292

			Length	Strain/Species	Flank
genomic	75292	NCBI Gene Model \| MGI Sequence Detail	71412	C57BL/6J	± kb
transcript	NM_001171004	RefSeq \| MGI Sequence Detail	5887	C57BL/6
polypeptide	Q8K1Y2	UniProt \| EBI \| MGI Sequence Detail	889	Not Applicable

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UniProt

6 Sequences
Protein Ontology

PR:000013238 serine/threonine-protein kinase D3

(term hierarchy)
EC

2.7.11.1, 2.7.11.13
InterPro Domains

IPR046349 C1-like domain superfamily

IPR020454 Diacylglycerol/phorbol-ester binding

IPR011993 PH-like domain superfamily

IPR001849 Pleckstrin homology domain

IPR017441 Protein kinase, ATP binding site

IPR002219 Protein kinase C-like, phorbol ester/diacylglycerol-binding domain

IPR015727 Protein kinase C mu-related

IPR000719 Protein kinase domain

IPR011009 Protein kinase-like domain superfamily

IPR008271 Serine/threonine-protein kinase, active site

IPR057764 Serine/threonine-protein kinase D1-3-like, ubiquitin-like domain
GlyGen

Q8K1Y2 3 sites, 3 N-linked glycans (3 sites)

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All nucleic 22

cDNA 20

Primer pair 2

Antibodies 1

Microarray probesets 7

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MGI:1917857

Summaries

All 69

Developmental Gene Expression 6

Gene Ontology 7

Phenotypes 25
Earliest

J:120490 Morrow TA, et al., Pro-B-cell-specific transcription and proapoptotic function of protein kinase Ceta. Mol Cell Biol. 1999 Aug;19(8):5608-18
Latest

J:347799 Waheed-Ullah Q, et al., Effect of deletion of the protein kinase PRKD1 on development of the mouse embryonic heart. J Anat. 2024 Jul;245(1):70-83

TSS for Prkd3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr149433	Chr17:79328255-79328288 (-)	-27 bp
Tssr149432	Chr17:79328169-79328232 (-)	44 bp
Tssr149431	Chr17:79328131-79328139 (-)	110 bp
Tssr149430	Chr17:79292857-79292897 (-)	35,368 bp
Tssr149429	Chr17:79292834-79292855 (-)	35,400 bp
Tssr149428	Chr17:79292822-79292829 (-)	35,419 bp
Tssr149427	Chr17:79273761-79273781 (-)	54,474 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)
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