Ntn4 MGI Mouse Gene Detail - MGI:1888978

Symbol

Ntn4
Name

netrin 4
Synonyms

beta-netrin

Feature Type

protein coding gene
IDs

MGI:1888978
NCBI Gene: 57764
Alliance

gene page
Transcription Start Sites

8 TSS

Sequence Map

Chr10:93476911-93581834 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 10, 48.59 cM, cytoband C3
Mapping Data

1 experiment

SNPs within 2kb

3299 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1888978	protein coding gene	Chr10:93476543-93583069 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0017656	protein coding gene	Chr10:95063068-95175537 (+)
A/J	MGP_AJ_G0017635	protein coding gene	Chr10:91760149-91864760 (+)
AKR/J	MGP_AKRJ_G0017593	protein coding gene	Chr10:94375666-94485998 (+)
BALB/cJ	MGP_BALBcJ_G0017598	protein coding gene	Chr10:92020787-92128482 (+)
C3H/HeJ	MGP_C3HHeJ_G0017421	protein coding gene	Chr10:94382719-94488278 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0018055	protein coding gene	Chr10:98207799-98331500 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0015736	protein coding gene	Chr10:87352013-87461819 (+)
CAST/EiJ	MGP_CASTEiJ_G0016986	protein coding gene	Chr10:94360223-94473627 (+)
CBA/J	MGP_CBAJ_G0017390	protein coding gene	Chr10:102264171-102390291 (+)
DBA/2J	MGP_DBA2J_G0017496	protein coding gene	Chr10:90850684-90957478 (+)
FVB/NJ	MGP_FVBNJ_G0017488	protein coding gene	Chr10:90061567-90179874 (+)
LP/J	MGP_LPJ_G0017570	protein coding gene	Chr10:95688299-95797743 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0017519	protein coding gene	Chr10:103564096-103681657 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0018092	protein coding gene	Chr10:94272577-94383507 (+)
PWK/PhJ	MGP_PWKPhJ_G0016767	protein coding gene	Chr10:90939170-91048456 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0016555	protein coding gene	Chr10:93072999-93190671 (+)
WSB/EiJ	MGP_WSBEiJ_G0017045	protein coding gene	Chr10:94245897-94361807 (+)

Human Ortholog

NTN4, netrin 4

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

NTN4, netrin 4
Synonyms

PRO3091
Links

HGNC:13658

NCBI Gene ID: 59277

neXtProt AC: NX_Q9HB63

UniProt: Q9HB63
Chr Location

12q22; chr12:95657807-95791189 (-) GRCh38

MGI Vertebrate Homology

Ntn4 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: NTN4
Gene Tree

Ntn4

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Phenotype Summary

21 phenotypes from 3 alleles in 4 genetic backgrounds
21 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

10
Chemically induced (other)

1
Endonuclease-mediated

3
Gene trapped

1
Targeted

4
Transposon induced

1
Genomic Mutations

2 involving Ntn4
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

61 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a knock-out allele exhibit increased cell proliferation in the cornea without an increase in corneal thickness and increased microvessel branching in the middle levels of the retina.

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All GO Annotations

14
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

916
Tissues

103
cDNA Data

9
Literature Summary

20

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase ntn4

ZFIN ntn4

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All Sequences

38
RefSeq

2
UniProt

3
CCDS

CCDS24128.1

Ensembl

ENSMUSG00000020019 (Evidence)
NCBI Gene

57764

			Length	Strain/Species	Flank
genomic	57764	NCBI Gene Model \| MGI Sequence Detail	104924	C57BL/6J	± kb
transcript	NM_021320	RefSeq \| MGI Sequence Detail	2411	C57BL/6
polypeptide	Q9JI33	UniProt \| EBI \| MGI Sequence Detail	628	Not Applicable

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UniProt

3 Sequences
Protein Ontology

PR:000011465 netrin-4

(term hierarchy)
PDB

4WNX
InterPro Domains

IPR050440 Laminin/Netrin Extracellular Matrix

IPR008211 Laminin, N-terminal

IPR002049 Laminin-type EGF domain

IPR035811 Netrin-4, NTR domain

IPR001134 Netrin domain

IPR018933 Netrin module, non-TIMP type

IPR008993 Tissue inhibitor of metalloproteinases-like, OB-fold
GlyGen

Q9JI33 4 sites, 1 N-linked glycan (1 site)

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All nucleic 14

cDNA 9

Primer pair 2

Other 3

Microarray probesets 3

Summaries

All 59

Developmental Gene Expression 20

Gene Ontology 7

Phenotypes 21
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 Ntn4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr95276	Chr10:93476839-93476864 (+)	-59 bp
Tssr95277	Chr10:93476867-93476896 (+)	-29 bp
Tssr95278	Chr10:93476903-93476918 (+)	0 bp
Tssr95279	Chr10:93477032-93477078 (+)	144 bp
Tssr95280	Chr10:93514592-93514595 (+)	37,683 bp
Tssr95281	Chr10:93518338-93518349 (+)	41,433 bp
Tssr95282	Chr10:93526957-93526958 (+)	50,047 bp
Tssr95283	Chr10:93536547-93536570 (+)	59,648 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