Prdm8 MGI Mouse Gene Detail - MGI:1924880

Symbol

Prdm8
Name

PR domain containing 8

Feature Type

protein coding gene
IDs

MGI:1924880
NCBI Gene: 77630
Alliance

gene page
Transcription Start Sites

5 TSS

Sequence Map

Chr5:98315241-98335313 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 5, 47.77 cM, cytoband E3
Mapping Data

2 experiments

SNPs within 2kb

504 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1924880	protein coding gene	Chr5:98315057-98336850 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0029772	protein coding gene	Chr5:99536857-99544866 (+)
A/J	MGP_AJ_G0029738	protein coding gene	Chr5:95846851-95854858 (+)
AKR/J	MGP_AKRJ_G0029684	protein coding gene	Chr5:99028156-99036147 (+)
BALB/cJ	MGP_BALBcJ_G0029748	protein coding gene	Chr5:96858946-96866937 (+)
C3H/HeJ	MGP_C3HHeJ_G0029471	protein coding gene	Chr5:99362669-99370680 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0030203	protein coding gene	Chr5:103701336-103709349 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0027438	protein coding gene	Chr5:91144469-91152472 (+)
CAST/EiJ	MGP_CASTEiJ_G0028882	protein coding gene	Chr5:97974173-97982851 (+)
CBA/J	MGP_CBAJ_G0029441	protein coding gene	Chr5:107285247-107295387 (+)
DBA/2J	MGP_DBA2J_G0029585	protein coding gene	Chr5:96042408-96050462 (+)
FVB/NJ	MGP_FVBNJ_G0029544	protein coding gene	Chr5:94859028-94867019 (+)
LP/J	MGP_LPJ_G0029673	protein coding gene	Chr5:100137707-100145848 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0029573	protein coding gene	Chr5:112369349-112377344 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0030236	protein coding gene	Chr5:98464474-98472465 (+)
PWK/PhJ	MGP_PWKPhJ_G0028600	protein coding gene	Chr5:94439205-94447657 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0028435	protein coding gene	Chr5:96136187-96144156 (+)
WSB/EiJ	MGP_WSBEiJ_G0028960	protein coding gene	Chr5:98792225-98800206 (+)

Human Ortholog

PRDM8, PR/SET domain 8

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PRDM8, PR/SET domain 8
Synonyms

EPM10, KMT8D, PFM5
Links

HGNC:13993

NCBI Gene ID: 56978

neXtProt AC: NX_Q9NQV8

UniProt: Q9NQV8
Chr Location

4q21.21; chr4:80183879-80204329 (+) GRCh38

MGI Vertebrate Homology

Prdm8 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: PRDM8
Gene Tree

Prdm8

Diseases

1 with human PRDM8 associations

				Human Disease	Mouse Models
				progressive myoclonus epilepsy 10 IDs progressive myoclonus epilepsy 10 DOID:0111445 OMIM:616640 ORDO:324290

Click on a disease name to see all genes associated with that disease.

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Phenotype Summary

32 phenotypes from 2 alleles in 2 genetic backgrounds
16 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

9
Chemically induced (other)

1
Endonuclease-mediated

3
Radiation induced

1
Spontaneous

1
Targeted

3
Genomic Mutations

3 involving Prdm8
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

21 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a knock-out allele exhibit premature termination of corticopsinal motor neuron axons, absent corpus callosum and hippocampal commissure, excessive scratching, skin lesions, and contraction of hindpaws resulting a handstand phenotype.

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All GO Annotations

24
GO References

8

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

939
Tissues

73
cDNA Data

8
Literature Summary

14

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

GEO

Expression Atlas
Other Vertebrate Links

Xenbase prdm8

ZFIN prdm8b

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All Sequences

44
RefSeq

11
UniProt

1
CCDS

CCDS39178.1

Ensembl

ENSMUSG00000035456 (Evidence)
NCBI Gene

77630

			Length	Strain/Species	Flank
genomic	77630	NCBI Gene Model \| MGI Sequence Detail	20073	C57BL/6J	± kb
transcript	NM_001407995	RefSeq \| MGI Sequence Detail	3335	C57BL/6
polypeptide	Q8BZ97	UniProt \| EBI \| MGI Sequence Detail	688	Not Applicable

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UniProt

1 Sequence
Protein Ontology

PR:000013189 PR domain zinc finger protein 8

(term hierarchy)
EC

2.1.1.-
InterPro Domains

IPR044402 PRDM8-like, PR/SET domain

IPR001214 SET domain

IPR046341 SET domain superfamily

IPR052296 Transcriptional Repressor and Histone Methyltransferase

IPR036236 Zinc finger C2H2 superfamily

IPR013087 Zinc finger C2H2-type
GlyGen

Q8BZ97 2 sites, 2 N-linked glycans (2 sites)

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All nucleic 14

cDNA 9

Primer pair 3

Other 2

Microarray probesets 3

Summaries

All 53

Developmental Gene Expression 14

Gene Ontology 8

Phenotypes 16
Earliest

J:134667 Roderick TH, et al., Two radiation-induced chromosomal inversions in mice (Mus musculus). Proc Natl Acad Sci U S A. 1970 Oct;67(2):961-7
Latest

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

TSS for Prdm8:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr1555	Chr5:98315224-98315267 (+)	5 bp
Tssr47439	Chr5:98328725-98328740 (+)	13,492 bp
Tssr47440	Chr5:98334032-98334041 (+)	18,796 bp
Tssr47441	Chr5:98334459-98334483 (+)	19,230 bp
Tssr47442	Chr5:98334571-98334586 (+)	19,338 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