Irf4 MGI Mouse Gene Detail - MGI:1096873 - interferon regulatory factor 4

Symbol

Irf4
Name

interferon regulatory factor 4
Synonyms

IRF-4, Spip

Feature Type

protein coding gene
IDs

MGI:1096873
NCBI Gene: 16364
Alliance

gene page
Transcription Start Sites

24 TSS

Sequence Map

Chr13:30933209-30950959 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 13, 13.28 cM, cytoband A3.3
Mapping Data

3 experiments

SNPs within 2kb

401 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1096873	protein coding gene	Chr13:30933191-30950965 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0020416	protein coding gene	Chr13:28618101-28635800 (+)
A/J	MGP_AJ_G0020371	protein coding gene	Chr13:27893018-27910719 (+)
AKR/J	MGP_AKRJ_G0020348	protein coding gene	Chr13:28497951-28515652 (+)
BALB/cJ	MGP_BALBcJ_G0020366	protein coding gene	Chr13:27975838-27993531 (+)
C3H/HeJ	MGP_C3HHeJ_G0020169	protein coding gene	Chr13:28508851-28526552 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0020802	protein coding gene	Chr13:29615202-29632879 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0018393	protein coding gene	Chr13:26290849-26308628 (+)
CAST/EiJ	MGP_CASTEiJ_G0019686	protein coding gene	Chr13:28163420-28195228 (+)
CBA/J	MGP_CBAJ_G0020125	protein coding gene	Chr13:30870142-30891309 (+)
DBA/2J	MGP_DBA2J_G0020247	protein coding gene	Chr13:27425981-27443916 (+)
FVB/NJ	MGP_FVBNJ_G0020232	protein coding gene	Chr13:27029819-27047512 (+)
LP/J	MGP_LPJ_G0020324	protein coding gene	Chr13:28876209-28893910 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0020258	protein coding gene	Chr13:31022241-31039934 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0020843	protein coding gene	Chr13:28135668-28153369 (+)
PWK/PhJ	MGP_PWKPhJ_G0019441	protein coding gene	Chr13:27579545-27621417 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0019262	protein coding gene	Chr13:27045527-27063275 (+)
WSB/EiJ	MGP_WSBEiJ_G0019748	protein coding gene	Chr13:28444267-28462806 (+)

Human Ortholog

IRF4, interferon regulatory factor 4

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

IRF4, interferon regulatory factor 4
Synonyms

LSIRF, MUM1, NF-EM5, SHEP8
Links

HGNC:6119

NCBI Gene ID: 3662

neXtProt AC: NX_Q15306

UniProt: Q15306
Chr Location

6p25.3; chr6:391739-411443 (+) GRCh38

MGI Vertebrate Homology

Irf4 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: IRF4
Gene Tree

Irf4

Diseases

6 with human IRF4 associations

				Human Disease	Mouse Models
				acute lymphoblastic leukemia IDs acute lymphoblastic leukemia DOID:9952 EFO:0000220 ICD10CM:C91.00 ICD9CM:204.0 NCI:C3167 NCI:C7055 OMIM:247640 OMIM:613065 ORDO:513 UMLS_CUI:C0023449 UMLS_CUI:C1335469
				anaplastic large cell lymphoma IDs anaplastic large cell lymphoma DOID:0050744 NCI:C3720
				chronic lymphocytic leukemia IDs chronic lymphocytic leukemia DOID:1040 EFO:0000095 ICD10CM:C91.10 ICD9CM:204.1 MESH:D015451 NCI:C3163 OMIM:109543 OMIM:151400 OMIM:609630 OMIM:612557 OMIM:612558 OMIM:612559 ORDO:67038 UMLS_CUI:C0023434
				multiple myeloma IDs multiple myeloma DOID:9538 EFO:0001378 ICD10CM:C90.0 ICD9CM:203.0 MESH:D009101 NCI:C3242 OMIM:254500 ORDO:29073 UMLS_CUI:C0026764
				peripheral T-cell lymphoma IDs peripheral T-cell lymphoma DOID:0050749
				pigmentation disease IDs pigmentation disease DOID:10123 ICD9CM:709.09 UMLS_CUI:C0375489

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

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Phenotype Summary

51 phenotypes from 6 alleles in 10 genetic backgrounds
12 phenotypes from multigenic genotypes
207 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

16
Chemically induced (ENU)

2
Chemically induced (other)

1
Endonuclease-mediated

7
Radiation induced

1
Targeted

5
Genomic Mutations

2 involving Irf4
Incidental Mutations

APF , CvDC
Find Mice (IMSR)

28 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for disruptions in this gene display immune system abnormalities involving development of both T and B cells and affecting susceptibility to both bacterial and viral infections as well as impaired thermogenic gene expression and energy expenditure.

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All GO Annotations

47
GO References

15

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

858
Tissues

148
cDNA Data

39
Literature Summary

11

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA IRF4

ZFIN irf4a, irf4b

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All Sequences

50
RefSeq

8
UniProt

4
CCDS

CCDS26419.1, CCDS84017.1

Ensembl

ENSMUSG00000021356 (Evidence)
NCBI Gene

16364

			Length	Strain/Species	Flank
genomic	ENSMUSG00000021356	Ensembl Gene Model \| MGI Sequence Detail	17751	C57BL/6J	± kb
transcript	ENSMUST00000021784	Ensembl \| MGI Sequence Detail	4764	Not Applicable
polypeptide	ENSMUSP00000021784	Ensembl \| MGI Sequence Detail	450	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000002046 interferon regulatory factor 4

(term hierarchy)
PDB

5BVI
InterPro Domains

IPR019471 Interferon regulatory factor-3

IPR019817 Interferon regulatory factor, conserved site

IPR001346 Interferon regulatory factor, DNA-binding domain

IPR008984 SMAD/FHA domain superfamily

IPR017855 SMAD-like domain superfamily

IPR036390 Winged helix DNA-binding domain superfamily

IPR036388 Winged helix-like DNA-binding domain superfamily

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All nucleic 42

Genomic 1

cDNA 39

Primer pair 2

Microarray probesets 4

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MGD-MRK-29048, MGI:104895, MGI:2145221

Summaries

All 288

Developmental Gene Expression 11

Gene Ontology 15

Phenotypes 207
Earliest

J:182573 Roderick TH, Producing and detecting paracentric chromosomal inversions in mice. Mutat Res. 1971 Jan;11(1):59-69
Latest

J:353591 Lyons-Cohen MR, et al., Site-specific regulation of Th2 differentiation within lymph node microenvironments. J Exp Med. 2024 Apr 1;221(4)

TSS for Irf4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr119093	Chr13:30931759-30931788 (+)	-1,435 bp
Tssr119094	Chr13:30932645-30932668 (+)	-552 bp
Tssr119095	Chr13:30932697-30932704 (+)	-508 bp
Tssr119096	Chr13:30933213-30933230 (+)	13 bp
Tssr119097	Chr13:30933511-30933559 (+)	326 bp
Tssr119098	Chr13:30933939-30933965 (+)	743 bp
Tssr119099	Chr13:30934635-30934658 (+)	1,438 bp
Tssr119100	Chr13:30935073-30935079 (+)	1,867 bp
Tssr119101	Chr13:30935689-30935713 (+)	2,492 bp
Tssr119102	Chr13:30936711-30936723 (+)	3,508 bp
Tssr119103	Chr13:30937431-30937437 (+)	4,225 bp
Tssr119104	Chr13:30937461-30937482 (+)	4,263 bp
Tssr119105	Chr13:30941613-30941615 (+)	8,405 bp
Tssr4030	Chr13:30944967-30944969 (+)	11,759 bp
Tssr119106	Chr13:30945602-30945613 (+)	12,399 bp
Tssr119107	Chr13:30945645-30945654 (+)	12,441 bp
Tssr119108	Chr13:30948108-30948115 (+)	14,903 bp
Tssr119109	Chr13:30948500-30948507 (+)	15,295 bp
Tssr119110	Chr13:30948544-30948556 (+)	15,341 bp
Tssr119111	Chr13:30948770-30948775 (+)	15,564 bp
Tssr119112	Chr13:30948811-30948824 (+)	15,609 bp
Tssr119113	Chr13:30948835-30948843 (+)	15,630 bp
Tssr119114	Chr13:30948860-30948871 (+)	15,657 bp
Tssr119115	Chr13:30950155-30950162 (+)	16,950 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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