Npas3 MGI Mouse Gene Detail - MGI:1351610 - neuronal PAS domain protein 3

Symbol

Npas3
Name

neuronal PAS domain protein 3
Synonyms

4930423H22Rik, bHLHe12

Feature Type

protein coding gene
IDs

MGI:1351610
NCBI Gene: 27386
Alliance

gene page
Transcription Start Sites

6 TSS

Sequence Map

Chr12:53294940-54118958 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 12, 22.31 cM, cytoband C1
Mapping Data

2 experiments

SNPs within 2kb

21412 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1351610	protein coding gene	Chr12:53294874-54118958 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0019734	protein coding gene	Chr12:52111257-52956915 (+)
A/J	MGP_AJ_G0019696	protein coding gene	Chr12:50268660-51102180 (+)
AKR/J	MGP_AKRJ_G0019667	protein coding gene	Chr12:51764228-52616504 (+)
BALB/cJ	MGP_BALBcJ_G0019674	protein coding gene	Chr12:50545365-51381837 (+)
C3H/HeJ	MGP_C3HHeJ_G0019477	protein coding gene	Chr12:51872562-52726909 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0020122	protein coding gene	Chr12:53706343-54567208 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0017745	protein coding gene	Chr12:48593574-49419521 (+)
CAST/EiJ	MGP_CASTEiJ_G0019030	protein coding gene	Chr12:46923249-47776107 (+)
CBA/J	MGP_CBAJ_G0019449	protein coding gene	Chr12:55551867-56443941 (+)
DBA/2J	MGP_DBA2J_G0019563	protein coding gene	Chr12:50131382-50959757 (+)
FVB/NJ	MGP_FVBNJ_G0019552	protein coding gene	Chr12:49555512-50382873 (+)
LP/J	MGP_LPJ_G0019635	protein coding gene	Chr12:52180496-53028611 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0019588	protein coding gene	Chr12:57226289-58091876 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0020160	protein coding gene	Chr12:51281081-52126123 (+)
PWK/PhJ	MGP_PWKPhJ_G0018797	protein coding gene	Chr12:44697422-45530300 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0018591	protein coding gene	Chr12:45858689-46714817 (+)
WSB/EiJ	MGP_WSBEiJ_G0019081	protein coding gene	Chr12:51746867-52595510 (+)

Human Ortholog

NPAS3, neuronal PAS domain protein 3

Vertebrate Orthologs

1

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

NPAS3, neuronal PAS domain protein 3
Synonyms

bHLHe12, MOP6, PASD6
Links

HGNC:19311

NCBI Gene ID: 64067

neXtProt AC: NX_Q8IXF0

UniProt: Q8IXF0
Chr Location

14q13.1; chr14:32934396-33820863 (+) GRCh38

MGI Vertebrate Homology

Npas3 stringent orthology
1 human;1 mouse
HCOP

vertebrate homology predictions: NPAS3
Gene Tree

Npas3

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Phenotype Summary

43 phenotypes from 4 alleles in 4 genetic backgrounds
8 phenotypes from multigenic genotypes
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

8
Chemically induced (other)

1
Endonuclease-mediated

1
Targeted

6
Genomic Mutations

1 involving Npas3
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

41 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for some knock-out alleles exhibit abnormal behavior and nervous system morphology. Mice homozygous for another knock-out allele exhibit defective lung branching morphogenesis and die shortly after birth.

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All GO Annotations

15
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

930
Tissues

157
cDNA Data

14
Literature Summary

14

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA NPAS3

Xenbase npas3

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All Sequences

145
RefSeq

100
UniProt

7
CCDS

CCDS25907.1

Ensembl

ENSMUSG00000021010 (Evidence)
NCBI Gene

27386

			Length	Strain/Species	Flank
genomic	ENSMUSG00000021010	Ensembl Gene Model \| MGI Sequence Detail	824019	C57BL/6J	± kb
transcript	ENSMUST00000101432	Ensembl \| MGI Sequence Detail	5879	Not Applicable
polypeptide	ENSMUSP00000098975	Ensembl \| MGI Sequence Detail	925	Not Applicable

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UniProt

7 Sequences
Protein Ontology

PR:000011351 neuronal PAS domain-containing protein 3

(term hierarchy)
PDB

5SY7
InterPro Domains

IPR036638 Helix-loop-helix DNA-binding domain superfamily

IPR011598 Myc-type, basic helix-loop-helix (bHLH) domain

IPR000014 PAS domain

IPR035965 PAS domain superfamily

IPR013767 PAS fold

IPR013655 PAS fold-3
GlyGen

Q9QZQ0 5 sites, 1 N-linked glycan (1 site), 1 O-linked glycan (4 sites)

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All nucleic 17

cDNA 14

Primer pair 3

Microarray probesets 5

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MGI:1918894

Summaries

All 52

Developmental Gene Expression 14

Gene Ontology 7

Phenotypes 17
Earliest

J:24330 Cserjesi P, et al., Scleraxis: a basic helix-loop-helix protein that prefigures skeletal formation during mouse embryogenesis. Development. 1995 Apr;121(4):1099-110
Latest

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

TSS for Npas3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr113461	Chr12:53295000-53295023 (+)	72 bp
Tssr113462	Chr12:53295182-53295204 (+)	253 bp
Tssr113463	Chr12:53295206-53295257 (+)	292 bp
Tssr3842	Chr12:53784499-53784536 (+)	489,578 bp
Tssr113465	Chr12:53830388-53830392 (+)	535,450 bp
Tssr113466	Chr12:53885622-53885659 (+)	590,701 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 11/12/2024 MGI 6.24