Nkx2-3 MGI Mouse Gene Detail - MGI:97348

Symbol

Nkx2-3
Name

NK2 homeobox 3
Synonyms

Nkx-2.3, Nkx2.3, tinman

Feature Type

protein coding gene
IDs

MGI:97348
NCBI Gene: 18089
Alliance

genome feature page
Transcription Start Sites

2 TSS

Sequence Map

Chr19:43600764-43604331 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 19, 36.67 cM
Mapping Data

4 experiments

SNPs within 2kb

139 from dbSNP Build 142
Strain Annotations

19
RFLP

4

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_97348	protein coding gene	Chr19:43600764-43604331 (+)
129S1/SvImJ	ENSMUSG00200021505	protein coding gene	Chr19:40323774-40327344 (+)
A/J	ENSMUSG00195016909	protein coding gene	Chr19:40434715-40438288 (+)
AKR/J	ENSMUSG00220018016	protein coding gene	Chr19:40243241-40246810 (+)
BALB/cJ	ENSMUSG00180019600	protein coding gene	Chr19:40687131-40690705 (+)
C3H/HeJ	ENSMUSG00175006233	protein coding gene	Chr19:40233892-40237461 (+)
C57BL/6NJ	ENSMUSG00215013074	protein coding gene	Chr19:40290521-40294089 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0022981	protein coding gene	Chr19:40270257-40273806 (+)
CAST/EiJ	ENSTCUG00005015502	protein coding gene	Chr19:39881991-39885556 (+)
CBA/J	ENSMUSG00210018023	protein coding gene	Chr19:40313572-40317140 (+)
DBA/2J	ENSMUSG00185008775	protein coding gene	Chr19:40810838-40814411 (+)
FVB/NJ	ENSMUSG00205006641	protein coding gene	Chr19:39747227-39750796 (+)
JF1/MsJ	ENSUMUG00000023426	protein coding gene	Chr19:40973963-40977530 (+)
LP/J	ENSMUSG00230020831	protein coding gene	Chr19:41593760-41597329 (+)
NOD/ShiLtJ	ENSMUSG00190010668	protein coding gene	Chr19:40160649-40164222 (+)
NZO/HlLtJ	ENSMUSG00225043806	protein coding gene	Chr19:45181499-45185067 (+)
PWK/PhJ	ENSLUMG00010000985	protein coding gene	Chr19:40140504-40144073 (+)
SPRET/EiJ	ENSMSPG00010022531	protein coding gene	Chr19:39886481-39890046 (+)
WSB/EiJ	ENSIUOG00005034765	protein coding gene	Chr19:39689272-39692837 (+)

Human Ortholog

NKX2-3, NK2 homeobox 3

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

NKX2-3, NK2 homeobox 3
Synonyms

CSX3, NK2.3, NKX2.3, NKX2C, NKX4-3
Links

HGNC:7836

NCBI Gene ID: 159296

UniProt: Q8TAU0
Chr Location

10q24.2; chr10:99532942-99536524 (+) GRCh38

MGI Vertebrate Homology

Nkx2-3 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: NKX2-3
Gene Tree

Nkx2-3

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Phenotype Summary

58 phenotypes from 2 alleles in 3 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

11
Endonuclease-mediated

6
Targeted

5
Incidental Mutations

APF , CvDC
Find Mice (IMSR)

15 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygotes exhibit postnatal lethality due to acute intestinal malabsorption. Survivors recover well but exhibit splenic and Peyer's patch hypoplasia, intestinal villus malformation, gut truncation and distension, abnormal molar and sublingual gland development, and deranged lymphocyte homing.

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All GO Annotations

40
GO References

12

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

846
Tissues

133
cDNA Data

12
Literature Summary

17

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase nkx2-3

ZFIN nkx2-3

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All Sequences

32
RefSeq

2
UniProt

2
CCDS

CCDS29833.1

Ensembl

ENSMUSG00000044220 (Evidence)
NCBI Gene

18089

			Length	Strain/Species	Flank
genomic	18089	NCBI Gene Model \| MGI Sequence Detail	3568	C57BL/6J	± kb
transcript	NM_008699	RefSeq \| MGI Sequence Detail	2145	ZRU/MplStud
polypeptide	P97334	UniProt \| EBI \| MGI Sequence Detail	362	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000011243 homeobox protein Nkx-2.3

(term hierarchy)
InterPro Domains

IPR017970 Homeobox, conserved site

IPR050394 Homeobox NK-like transcription regulators

IPR001356 Homeodomain

IPR009057 Homeodomain-like superfamily

IPR020479 Homeodomain, metazoa
GlyGen

P97334 1 site

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All nucleic 25

Genomic 6

cDNA 12

Primer pair 4

Other 3

Antibodies 1

Microarray probesets 5

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MGD-MRK-12890

Summaries

All 65

Developmental Gene Expression 17

Gene Ontology 12

Phenotypes 21
Earliest

J:2959 Price M, et al., Regional expression of the homeobox gene Nkx-2.2 in the developing mammalian forebrain. Neuron. 1992 Feb;8(2):241-55
Latest

J:391690 Li X, et al., Pericytes promote metastasis by regulating tumor local vascular tone and hemodynamics. Nat Commun. 2025 Aug 2;16(1):7115

TSS for Nkx2-3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr156516	Chr19:43600738-43600760 (+)	-15 bp
Tssr156517	Chr19:43600831-43600855 (+)	79 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 09/01/2026 MGI 6.24