Nkx2-9 MGI Mouse Gene Detail - MGI:1270158

Symbol

Nkx2-9
Name

NK2 homeobox 9
Synonyms

Nkx-2.9, Nkx2.9, tinman

Feature Type

protein coding gene
IDs

MGI:1270158
NCBI Gene: 18094
Alliance

gene page
Transcription Start Sites

4 TSS

Sequence Map

Chr12:56658174-56660069 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 12, 24.47 cM
Mapping Data

2 experiments

SNPs within 2kb

181 from dbSNP Build 142
Strain Annotations

18
RFLP

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1270158	protein coding gene	Chr12:56658174-56660354 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0019756	protein coding gene	Chr12:55732649-55734533 (-)
A/J	MGP_AJ_G0019715	protein coding gene	Chr12:53705810-53707709 (-)
AKR/J	MGP_AKRJ_G0019690	protein coding gene	Chr12:55404732-55406631 (-)
BALB/cJ	MGP_BALBcJ_G0019695	protein coding gene	Chr12:54055977-54057872 (-)
C3H/HeJ	MGP_C3HHeJ_G0019500	protein coding gene	Chr12:55473910-55475805 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0020147	protein coding gene	Chr12:57378866-57380747 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0017767	protein coding gene	Chr12:52174236-52176118 (-)
CAST/EiJ	MGP_CASTEiJ_G0019052	protein coding gene	Chr12:50360885-50362788 (-)
CBA/J	MGP_CBAJ_G0019469	protein coding gene	Chr12:59407299-59409198 (-)
DBA/2J	MGP_DBA2J_G0019585	protein coding gene	Chr12:53610821-53612718 (-)
FVB/NJ	MGP_FVBNJ_G0019573	protein coding gene	Chr12:52908786-52910670 (-)
LP/J	MGP_LPJ_G0019657	protein coding gene	Chr12:55709691-55711575 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0019611	protein coding gene	Chr12:60964604-60966483 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0020181	protein coding gene	Chr12:54843191-54845084 (-)
PWK/PhJ	MGP_PWKPhJ_G0018819	protein coding gene	Chr12:47975238-47977137 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0018612	protein coding gene	Chr12:49276364-49278254 (-)
WSB/EiJ	MGP_WSBEiJ_G0019103	protein coding gene	Chr12:55364674-55366563 (-)

Human Ortholog

NKX2-8, NK2 homeobox 8

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

NKX2-8, NK2 homeobox 8
Synonyms

NKX2.8, Nkx2-9, NKX2H
Links

HGNC:16364

NCBI Gene ID: 26257

neXtProt AC: NX_O15522

UniProt: O15522
Chr Location

14q13.3; chr14:36580004-36582614 (-) GRCh38

MGI Vertebrate Homology

Nkx2-9 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: NKX2-8
Gene Tree

Nkx2-9

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Phenotype Summary

15 phenotypes from 2 alleles in 2 genetic backgrounds
11 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

4
Chemically induced (other)

1
Endonuclease-mediated

1
Targeted

2
Genomic Mutations

1 involving Nkx2-9
Incidental Mutations

CvDC
Find Mice (IMSR)

8 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mutant mice lacking both functional copies of the gene are viable and fertile but display abnormal development of the spinal accessory nerve. Another mutant exhibits progressive bronchial dysplasia leading to lung cancer in aged mutants.

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All GO Annotations

25
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

1018
Tissues

199
cDNA Data

11
Literature Summary

31

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase nkx2-8

ZFIN nkx2.9

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All Sequences

30
RefSeq

4
UniProt

1
CCDS

CCDS25923.1

Ensembl

ENSMUSG00000058669 (Evidence)
NCBI Gene

18094

			Length	Strain/Species	Flank
genomic	ENSMUSG00000058669	Ensembl Gene Model \| MGI Sequence Detail	1896	C57BL/6J	± kb
transcript	ENSMUST00000072631	Ensembl \| MGI Sequence Detail	1264	Not Applicable
polypeptide	ENSMUSP00000072425	Ensembl \| MGI Sequence Detail	235	Not Applicable

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UniProt

1 Sequence
Protein Ontology

PR:000011247 homeobox protein Nkx-2.8

(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 16

Genomic 2

cDNA 11

Primer pair 2

Other 1

Microarray probesets 3

Summaries

All 56

Developmental Gene Expression 31

Gene Ontology 7

Phenotypes 11
Earliest

J:44018 Yoshiura KI, et al., Sequence and chromosomal assignment of human BAPX1, a bagpipe-related gene, to 4p16.1: a candidate gene for skeletal dysplasia. Genomics. 1997 Oct 15;45(2):425-8
Latest

J:342640 Sampath Kumar A, et al., Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis. Nat Genet. 2023 Jul;55(7):1176-1185

TSS for Nkx2-9:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr116409	Chr12:56660086-56660103 (-)	-26 bp
Tssr116408	Chr12:56660055-56660076 (-)	3 bp
Tssr116407	Chr12:56660018-56660032 (-)	44 bp
Tssr116406	Chr12:56659958-56659966 (-)	107 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