Jmjd4 MGI Mouse Gene Detail - MGI:2144404 - jumonji domain containing 4

Symbol

Jmjd4
Name

jumonji domain containing 4

Feature Type

protein coding gene
IDs

MGI:2144404
NCBI Gene: 194952
Alliance

genome feature page
Transcription Start Sites

2 TSS

Sequence Map

Chr11:59340871-59349393 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 11, 37.71 cM
Mapping Data

1 experiment

SNPs within 2kb

272 from dbSNP Build 142
Strain Annotations

19

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2144404	protein coding gene	Chr11:59340871-59353797 (+)
129S1/SvImJ	ENSMUSG00200034895	protein coding gene	Chr11:56348343-56356866 (+)
A/J	ENSMUSG00195030858	protein coding gene	Chr11:56280845-56295768 (+)
AKR/J	ENSMUSG00220049613	protein coding gene	Chr11:56445413-56453936 (+)
BALB/cJ	ENSMUSG00180048172	protein coding gene	Chr11:56364504-56373026 (+)
C3H/HeJ	ENSMUSG00175041495	protein coding gene	Chr11:56316007-56330929 (+)
C57BL/6NJ	ENSMUSG00215020140	protein coding gene	Chr11:56131829-56140350 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0016436	protein coding gene	Chr11:54266987-54274929 (+)
CAST/EiJ	ENSTCUG00005041979	protein coding gene	Chr11:55855436-55870358 (+)
CBA/J	ENSMUSG00210028740	protein coding gene	Chr11:56167358-56183930 (+)
DBA/2J	ENSMUSG00185033076	protein coding gene	Chr11:56348106-56356628 (+)
FVB/NJ	ENSMUSG00205036058	protein coding gene	Chr11:56236240-56244767 (+)
JF1/MsJ	ENSUMUG00000009300	protein coding gene	Chr11:56699231-56727576 (+)
LP/J	ENSMUSG00230043854	protein coding gene	Chr11:57556352-57564874 (+)
NOD/ShiLtJ	ENSMUSG00190038769	protein coding gene	Chr11:56417854-56426376 (+)
NZO/HlLtJ	ENSMUSG00225031675	protein coding gene	Chr11:59566932-59575459 (+)
PWK/PhJ	ENSLUMG00010024443	protein coding gene	Chr11:56161953-56176875 (+)
SPRET/EiJ	ENSMSPG00010038446	protein coding gene	Chr11:56935950-56941408 (+)
WSB/EiJ	ENSIUOG00005034798	protein coding gene	Chr11:56215961-56224512 (+)

Human Ortholog

JMJD4, jumonji domain containing 4

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

JMJD4, jumonji domain containing 4
Links

HGNC:25724

NCBI Gene ID: 65094

UniProt: Q9H9V9
Chr Location

1q42.13; chr1:227730412-227735411 (-) GRCh38

MGI Vertebrate Homology

Jmjd4 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: JMJD4
Gene Tree

Jmjd4

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Phenotype Summary

9 phenotypes from 2 alleles in 2 genetic backgrounds
17 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

17
Chemically induced (other)

1
Endonuclease-mediated

4
Gene trapped

6
Targeted

6
Genomic Mutations

1 involving Jmjd4
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

21 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a knock-out allele are healthy, fertile and physiologically normal.

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All GO Annotations

23
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

605
Tissues

8
cDNA Data

37
Literature Summary

3

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA JMJD4

Xenbase jmjd4

ZFIN jmjd4

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All Sequences

57
RefSeq

7
UniProt

1
CCDS

CCDS24768.1, CCDS56777.1

Ensembl

ENSMUSG00000036819 (Evidence)
NCBI Gene

194952

			Length	Strain/Species	Flank
genomic	ENSMUSG00000036819	Ensembl Gene Model \| MGI Sequence Detail	8523	C57BL/6J	± kb
transcript	ENSMUST00000108777	Ensembl \| MGI Sequence Detail	4351	Not Applicable
polypeptide	ENSMUSP00000104407	Ensembl \| MGI Sequence Detail	427	Not Applicable

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UniProt

1 Sequence
Protein Ontology

PR:000031190 2-oxoglutarate and iron-dependent oxygenase JMJD4

(term hierarchy)
EC

1.14.11.-
InterPro Domains

IPR041667 Cupin-like domain 8

IPR003347 JmjC domain

IPR050910 JMJD6 family arginine demethylases/lysyl-hydroxylases
GlyGen

Q8BFT6 1 site

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All nucleic 38

cDNA 37

Primer pair 1

Microarray probesets 3

Summaries

All 48

Developmental Gene Expression 3

Gene Ontology 7

Phenotypes 17
Earliest

J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
Latest

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

TSS for Jmjd4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr101796	Chr11:59340866-59340921 (+)	23 bp
Tssr101797	Chr11:59340956-59340966 (+)	90 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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