Ntn1 MGI Mouse Gene Detail - MGI:105088

Symbol

Ntn1
Name

netrin 1
Synonyms

Netrin-1

Feature Type

protein coding gene
IDs

MGI:105088
NCBI Gene: 18208
Gene Overview

MyGene.info: NTN1
Alliance

gene page
Transcription Start Sites

14 TSS

Sequence Map

Chr11:68209364-68386826 bp, - strand
From NCBI annotation of GRCm38

View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 11, 41.45 cM, cytoband B3
Mapping Data

2 experiments

SNPs within 2kb

950 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_105088	protein coding gene	Chr11:68209364-68400823 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0018499	protein coding gene	Chr11:68546857-68746863 (-)
A/J	MGP_AJ_G0018468	protein coding gene	Chr11:65983602-66176424 (-)
AKR/J	MGP_AKRJ_G0018437	protein coding gene	Chr11:67950017-68144413 (-)
BALB/cJ	MGP_BALBcJ_G0018439	protein coding gene	Chr11:66271453-66465068 (-)
C3H/HeJ	MGP_C3HHeJ_G0018252	protein coding gene	Chr11:67974116-68173435 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0018891	protein coding gene	Chr11:70642101-70843812 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0016535	protein coding gene	Chr11:62926279-63117853 (-)
CAST/EiJ	MGP_CASTEiJ_G0017808	protein coding gene	Chr11:68191246-68399987 (-)
CBA/J	MGP_CBAJ_G0018226	protein coding gene	Chr11:73773671-73980122 (-)
DBA/2J	MGP_DBA2J_G0018335	protein coding gene	Chr11:65585062-65777749 (-)
FVB/NJ	MGP_FVBNJ_G0018325	protein coding gene	Chr11:65203455-65397997 (-)
LP/J	MGP_LPJ_G0018406	protein coding gene	Chr11:69122321-69319385 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0018348	protein coding gene	Chr11:74488999-74689525 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0018932	protein coding gene	Chr11:68198738-68393902 (-)
PWK/PhJ	MGP_PWKPhJ_G0017583	protein coding gene	Chr11:66202433-66398584 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0017371	protein coding gene	Chr11:68043366-68236277 (-)
WSB/EiJ	MGP_WSBEiJ_G0017861	protein coding gene	Chr11:67814529-68017815 (-)

Human Ortholog

NTN1, netrin 1

Vertebrate Orthologs

9

Human Ortholog

NTN1, netrin 1
Orthology source: HomoloGene, HGNC
Synonyms

NTN1L
Links

HGNC:8029

NCBI Gene ID: 9423

neXtProt AC: NX_O95631

UniProt: O95631
Chr Location

17p13.1; chr17:9021542-9244000 (+) GRCh38.p7

HomoloGene

Vertebrate Homology Class 21008
1 human;1 mouse;1 rat;1 chimpanzee;1 cattle;1 dog;1 chicken;1 zebrafish;1 macaque, rhesus
HCOP

human homology predictions: NTN1
Gene Tree

Ntn1

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Phenotype Summary

25 phenotypes from 3 alleles in 6 genetic backgrounds
6 phenotypes from multigenic genotypes
83 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	immune system	integument	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	neoplasm	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	vision/eye

Click cells to view annotations.

All Mutations and Alleles

47
Chemically induced (other)

1
Gene trapped

38
Targeted

6
Transgenic

2
Genomic Mutations

1 involving Ntn1
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

71 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygotes for targeted mutations exhibit impaired axonal migration, abnormal semicircular canals, lack of corpus callosum, aberrant commissures, hypoplasia of the optic nerve, motor and balance defects, failure to suckle, and neonatal death.

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All GO Annotations

34
GO References

22

External Resources

FuncBase

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 death	cell differentiation	cell population proliferation	cellular component organization	establishment of localization	homeostatic process	immune system process	lipid metabolic process	nucleic acid-templated transcription	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	non-membrane-bounded organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	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

524
Tissues

190
cDNA Data

106
Literature Summary

159

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GENSAT

GEO

Expression Atlas
Other Vertebrate Links

GEISHA NTN3

Xenbase ntn1

ZFIN ntn1a, ntn1b

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Ntn1 interacts with 339 markers (Mir7-1, Mir7-2, Mir7b, ...) View All

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All Sequences

46
RefSeq

2
UniProt

2
CCDS

CCDS24864.1
UniGene

39095

Ensembl

ENSMUSG00000020902 (Evidence)
NCBI Gene

18208

			Length	Strain/Species	Flank
genomic	18208	NCBI Gene Model \| MGI Sequence Detail	177463	C57BL/6J	± kb
transcript	NM_008744	RefSeq \| MGI Sequence Detail	5757	C57BL/6
polypeptide	O09118	UniProt \| EBI \| MGI Sequence Detail	604	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000011463 netrin-1

(term hierarchy)
PDB

4OVE
InterPro Domains

IPR008979 Galactose-binding-like domain superfamily

IPR002049 Laminin EGF domain

IPR008211 Laminin, N-terminal

IPR038684 Laminin, N-terminal domain superfamily

IPR001134 Netrin domain

IPR018933 Netrin module, non-TIMP type

IPR008993 Tissue inhibitor of metalloproteinases-like, OB-fold

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All nucleic 118

cDNA 108

Primer pair 2

Other 8

Microarray probesets 5

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MGD-MRK-32128, MGI:2144226, MGI:2652852

Summaries

All 273

Developmental Gene Expression 159

Gene Ontology 22

Phenotypes 83
Earliest

J:5300 Borit A, et al., New mutant mouse with communicating hydrocephalus and secondary aqueductal stenosis. Acta Neuropathol (Berl). 1972;21(4):316-31
Latest

J:266538 Backer S, et al., Trio GEF mediates RhoA activation downstream of Slit2 and coordinates telencephalic wiring. Development. 2018 Oct 2;145(19)

TSS for Ntn1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr108580	Chr11:68401087-68401104 (-)	-14,270 bp
Tssr108579	Chr11:68401057-68401076 (-)	-14,241 bp
Tssr108578	Chr11:68400812-68400836 (-)	-13,998 bp
Tssr108577	Chr11:68400782-68400808 (-)	-13,969 bp
Tssr108576	Chr11:68400466-68400482 (-)	-13,648 bp
Tssr108575	Chr11:68387168-68387194 (-)	-355 bp
Tssr108574	Chr11:68386974-68387002 (-)	-162 bp
Tssr108573	Chr11:68386943-68386970 (-)	-131 bp
Tssr108572	Chr11:68386931-68386942 (-)	-111 bp
Tssr108571	Chr11:68386899-68386917 (-)	-82 bp
Tssr108570	Chr11:68386871-68386889 (-)	-54 bp
Tssr108569	Chr11:68386841-68386860 (-)	-25 bp
Tssr108568	Chr11:68386821-68386835 (-)	-2 bp
Tssr108567	Chr11:68386805-68386819 (-)	14 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
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