Foxn4 MGI Mouse Gene Detail - MGI:2151057

Symbol

Foxn4
Name

forkhead box N4

Feature Type

protein coding gene
IDs

MGI:2151057
NCBI Gene: 116810
Alliance

gene page
Transcription Start Sites

6 TSS

Sequence Map

Chr5:114392225-114411868 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 5, 55.99 cM
Mapping Data

1 experiment

SNPs within 2kb

674 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2151057	protein coding gene	Chr5:114392225-114412486 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0029934	protein coding gene	Chr5:116976590-116996341 (-)
A/J	MGP_AJ_G0029899	protein coding gene	Chr5:112387576-112407691 (-)
AKR/J	MGP_AKRJ_G0029837	protein coding gene	Chr5:115954926-115974566 (-)
BALB/cJ	MGP_BALBcJ_G0029910	protein coding gene	Chr5:113754765-113774431 (-)
C3H/HeJ	MGP_C3HHeJ_G0029630	protein coding gene	Chr5:116457400-116477064 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0030364	protein coding gene	Chr5:121504710-121524354 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0027592	protein coding gene	Chr5:107212689-107232948 (-)
CAST/EiJ	MGP_CASTEiJ_G0029038	protein coding gene	Chr5:115390334-115411876 (-)
CBA/J	MGP_CBAJ_G0029597	protein coding gene	Chr5:126121416-126141063 (-)
DBA/2J	MGP_DBA2J_G0029747	protein coding gene	Chr5:112447868-112467538 (-)
FVB/NJ	MGP_FVBNJ_G0029704	protein coding gene	Chr5:111248425-111268441 (-)
LP/J	MGP_LPJ_G0029836	protein coding gene	Chr5:117544509-117565235 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0029735	protein coding gene	Chr5:130574801-130594451 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0030405	protein coding gene	Chr5:115419568-115439302 (-)
PWK/PhJ	MGP_PWKPhJ_G0028752	protein coding gene	Chr5:111078668-111099095 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0028590	protein coding gene	Chr5:112959503-112979720 (-)
WSB/EiJ	MGP_WSBEiJ_G0029114	protein coding gene	Chr5:115986707-116006365 (-)

Human Ortholog

FOXN4, forkhead box N4

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

FOXN4, forkhead box N4
Links

HGNC:21399

NCBI Gene ID: 121643

neXtProt AC: NX_Q96NZ1

UniProt: Q96NZ1
Chr Location

12q24.11; chr12:109277978-109309284 (-) GRCh38

MGI Vertebrate Homology

Foxn4 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: FOXN4
Gene Tree

Foxn4

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Phenotype Summary

19 phenotypes from 2 alleles in 2 genetic backgrounds
24 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

2
Radiation induced

1
Targeted

5
Genomic Mutations

2 involving Foxn4
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

32 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygous null mice display postnatal lethality and abnormal retina morphology with a total loss of horizontal cells and decreased amacrine cell number.

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All GO Annotations

20
GO References

9

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

1015
Tissues

238
cDNA Data

13
Literature Summary

46

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase foxn4

ZFIN foxn4

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All Sequences

47
RefSeq

8
UniProt

4
CCDS

CCDS19562.1

Ensembl

ENSMUSG00000042002 (Evidence)
NCBI Gene

116810

			Length	Strain/Species	Flank
genomic	ENSMUSG00000042002	Ensembl Gene Model \| MGI Sequence Detail	19644	C57BL/6J	± kb
transcript	ENSMUST00000044790	Ensembl \| MGI Sequence Detail	3016	Not Applicable
polypeptide	ENSMUSP00000047951	Ensembl \| MGI Sequence Detail	521	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000007639 forkhead box protein N4

(term hierarchy)
InterPro Domains

IPR049624 Forkhead box protein N1/4

IPR001766 Fork head domain

IPR030456 Fork head domain conserved site 2

IPR036390 Winged helix DNA-binding domain superfamily

IPR036388 Winged helix-like DNA-binding domain superfamily

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All nucleic 18

Genomic 1

cDNA 14

Primer pair 2

Other 1

Microarray probesets 3

Summaries

All 79

Developmental Gene Expression 46

Gene Ontology 9

Phenotypes 24
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:354849 Wutikeli H, et al., Role of Elavl-like RNA-binding protein in retinal development and signal transduction. Biochim Biophys Acta Mol Basis Dis. 2024 Sep 20;1871(1):167518

TSS for Foxn4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr52701	Chr5:114412306-114412330 (-)	-450 bp
Tssr52700	Chr5:114412094-114412142 (-)	-250 bp
Tssr52699	Chr5:114411894-114411899 (-)	-29 bp
Tssr1601	Chr5:114411851-114411863 (-)	11 bp
Tssr52698	Chr5:114411833-114411847 (-)	28 bp
Tssr52697	Chr5:114409223-114409225 (-)	2,644 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