Nkx3-2 MGI Mouse Gene Detail - MGI:108015

Symbol

Nkx3-2
Name

NK3 homeobox 2
Synonyms

Bapx1, Nkx-3.2

Feature Type

protein coding gene
IDs

MGI:108015
NCBI Gene: 12020
Alliance

gene page
Transcription Start Sites

3 TSS

Sequence Map

Chr5:41918826-41921563 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 5, 22.58 cM
Mapping Data

3 experiments

SNPs within 2kb

146 from dbSNP Build 142
Strain Annotations

18
RFLP

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_108015	protein coding gene	Chr5:41918826-41921844 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0029518	protein coding gene	Chr5:40342974-40346000 (-)
A/J	MGP_AJ_G0029484	protein coding gene	Chr5:38994407-38997425 (-)
AKR/J	MGP_AKRJ_G0029434	protein coding gene	Chr5:40383841-40386859 (-)
BALB/cJ	MGP_BALBcJ_G0029495	protein coding gene	Chr5:39431060-39434078 (-)
C3H/HeJ	MGP_C3HHeJ_G0029218	protein coding gene	Chr5:40379169-40382187 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0029949	protein coding gene	Chr5:42376580-42379598 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0027187	protein coding gene	Chr5:36379174-36382201 (-)
CAST/EiJ	MGP_CASTEiJ_G0028626	protein coding gene	Chr5:39461969-39492639 (-)
CBA/J	MGP_CBAJ_G0029185	protein coding gene	Chr5:43431639-43434657 (-)
DBA/2J	MGP_DBA2J_G0029332	protein coding gene	Chr5:39062728-39065746 (-)
FVB/NJ	MGP_FVBNJ_G0029291	protein coding gene	Chr5:38504765-38507783 (-)
LP/J	MGP_LPJ_G0029418	protein coding gene	Chr5:40785129-40788155 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0029321	protein coding gene	Chr5:44269765-44272783 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0029982	protein coding gene	Chr5:39871375-39874401 (-)
PWK/PhJ	MGP_PWKPhJ_G0028350	protein coding gene	Chr5:38236837-38239875 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0028184	protein coding gene	Chr5:39380007-39383043 (-)
WSB/EiJ	MGP_WSBEiJ_G0028707	protein coding gene	Chr5:39936092-39939118 (-)

Human Ortholog

NKX3-2, NK3 homeobox 2

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

NKX3-2, NK3 homeobox 2
Synonyms

BAPX1, NKX3.2, NKX3B, SMMD
Links

HGNC:951

NCBI Gene ID: 579

neXtProt AC: NX_P78367

UniProt: P78367
Chr Location

4p15.33; chr4:13540830-13547744 (-) GRCh38

MGI Vertebrate Homology

Nkx3-2 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: NKX3-2
Gene Tree

Nkx3-2

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Mutations/Alleles

1 with disease annotations

References

2 with disease annotations

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Phenotype Summary

75 phenotypes from 7 alleles in 5 genetic backgrounds
31 phenotypes from multigenic genotypes
5 images
59 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

22
Chemically induced (ENU)

1
Chemically induced (other)

2
Endonuclease-mediated

2
Radiation induced

2
Spontaneous

1
Targeted

14
Genomic Mutations

6 involving Nkx3-2
Incidental Mutations

CvDC
Find Mice (IMSR)

21 strains or lines available
Comparison Matrix

Gene Expression + Phenotype
Recombinase Activity

Comparison Matrix Gene Expression + Recombinase Activity

Homozygous null mutants are perinatal lethal, lack a spleen, and display skeletal dysplasia of the vertebral column and cranium.

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All GO Annotations

25
GO References

11

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	non-membrane-bounded 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

1093
Tissues

232
cDNA Data

14
Literature Summary

51

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase nkx3-2

ZFIN nkx3-2

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All Sequences

31
RefSeq

2
UniProt

2
CCDS

CCDS19259.1

Ensembl

ENSMUSG00000049691 (Evidence)
NCBI Gene

12020

			Length	Strain/Species	Flank
genomic	12020	NCBI Gene Model \| MGI Sequence Detail	2738	C57BL/6J	± kb
transcript	NM_007524	RefSeq \| MGI Sequence Detail	1437	Not Specified
polypeptide	P97503	UniProt \| EBI \| MGI Sequence Detail	333	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000011249 homeobox protein Nkx-3.2

(term hierarchy)
InterPro Domains

IPR017970 Homeobox, conserved site

IPR001356 Homeobox domain

IPR020479 Homeobox domain, metazoa

IPR009057 Homeobox-like domain superfamily

IPR050394 Homeobox NK-like transcription regulators

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All nucleic 29

Genomic 3

cDNA 15

Primer pair 8

Other 3

Microarray probesets 3

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MGD-MRK-37050

Summaries

All 128

Developmental Gene Expression 51

Diseases 2

Gene Ontology 11

Phenotypes 59
Earliest

J:5021 Batchelor AL, et al., A comparison of the mutagenic effectiveness of chronic neutron- and gamma-irradiation of mouse spermatogonia. Mutat Res. 1966 Jun;3(3):218-29
Latest

J:334948 Burganova G, et al., Pericytes modulate islet immune cells and insulin secretion through Interleukin-33 production in mice. Front Endocrinol (Lausanne). 2023;14:1142988

TSS for Nkx3-2:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr50846	Chr5:41921892-41921904 (-)	-335 bp
Tssr50845	Chr5:41921836-41921837 (-)	-274 bp
Tssr50844	Chr5:41921381-41921385 (-)	180 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 10/29/2024 MGI 6.24