Slc9a4 MGI Mouse Gene Detail - MGI:105074 - solute carrier family 9 (sodium/hydrogen exchanger), member 4

Symbol

Slc9a4
Name

solute carrier family 9 (sodium/hydrogen exchanger), member 4
Synonyms

D730009J23Rik, NHE4

Feature Type

protein coding gene
IDs

MGI:105074
NCBI Gene: 110895
Alliance

genome feature page
Transcription Start Sites

11 TSS

Sequence Map

Chr1:40619241-40669885 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 1, 19.51 cM
Mapping Data

3 experiments

SNPs within 2kb

1477 from dbSNP Build 142
Strain Annotations

19
RFLP

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_105074	protein coding gene	Chr1:40619146-40670188 (+)
129S1/SvImJ	ENSMUSG00200002618	protein coding gene	Chr1:38226170-38276775 (+)
A/J	ENSMUSG00195040869	protein coding gene	Chr1:37897918-37948502 (+)
AKR/J	ENSMUSG00220009179	protein coding gene	Chr1:37882924-37933520 (+)
BALB/cJ	ENSMUSG00180011453	protein coding gene	Chr1:37958853-38009494 (+)
C3H/HeJ	ENSMUSG00175001145	protein coding gene	Chr1:37900870-37951454 (+)
C57BL/6NJ	ENSMUSG00215019369	protein coding gene	Chr1:37933979-37984621 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0014083	protein coding gene	Chr1:35185079-35234884 (+)
CAST/EiJ	ENSTCUG00005002713	protein coding gene	Chr1:37983384-38034138 (+)
CBA/J	ENSMUSG00210005826	protein coding gene	Chr1:37695589-37746222 (+)
DBA/2J	ENSMUSG00185009741	protein coding gene	Chr1:38797860-38848490 (+)
FVB/NJ	ENSMUSG00205022846	protein coding gene	Chr1:37905762-37956365 (+)
JF1/MsJ	ENSUMUG00000014496	protein coding gene	Chr1:38002073-38052855 (+)
LP/J	ENSMUSG00230021294	protein coding gene	Chr1:38825841-38876437 (+)
NOD/ShiLtJ	ENSMUSG00190036057	protein coding gene	Chr1:37915045-37965638 (+)
NZO/HlLtJ	ENSMUSG00225000311	protein coding gene	Chr1:42086891-42137556 (+)
PWK/PhJ	ENSLUMG00010031191	protein coding gene	Chr1:37522307-37573088 (+)
SPRET/EiJ	ENSMSPG00010025293	protein coding gene	Chr1:39014619-39062741 (+)
WSB/EiJ	ENSIUOG00005036990	protein coding gene	Chr1:37831457-37882058 (+)

Human Ortholog

SLC9A4, solute carrier family 9 member A4

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

SLC9A4, solute carrier family 9 member A4
Synonyms

NHE4
Links

HGNC:11077

NCBI Gene ID: 389015

UniProt: Q6AI14
Chr Location

2q12.1; chr2:102473226-102533972 (+) GRCh38

MGI Vertebrate Homology

Slc9a4 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: SLC9A4
Gene Tree

Slc9a4

less

Phenotype Summary

14 phenotypes from 2 alleles in 2 genetic backgrounds
5 images
14 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

5
Chemically induced (other)

1
Endonuclease-mediated

1
Targeted

3
Genomic Mutations

1 involving Slc9a4
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

41 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygous null mice display normal growth and survival but have gastric secretions with reduced acidity, mild gastric necrosis and apoptosis, and abnormal gastric mucosa with reduced numbers of parietal and chief cells.

less

All GO Annotations

28
GO References

8

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.

less

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

756
Tissues

141
cDNA Data

16
Literature Summary

6

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase slc9a4

less

All Sequences

43
RefSeq

8
UniProt

1
CCDS

CCDS14913.1

Ensembl

ENSMUSG00000026065 (Evidence)
NCBI Gene

110895

			Length	Strain/Species	Flank
genomic	ENSMUSG00000026065	Ensembl Gene Model \| MGI Sequence Detail	50645	C57BL/6J	± kb
transcript	ENSMUST00000027233	Ensembl \| MGI Sequence Detail	3962	Not Applicable
polypeptide	ENSMUSP00000027233	Ensembl \| MGI Sequence Detail	797	Not Applicable

less

UniProt

1 Sequence
Protein Ontology

PR:000015216 sodium/hydrogen exchanger 4

(term hierarchy)
InterPro Domains

IPR018422 Cation/H+ exchanger, CPA1 family

IPR006153 Cation/H+ exchanger, transmembrane domain

IPR004709 Na+/H+ exchanger

IPR001953 Sodium/hydrogen exchanger 2/4

IPR032103 Sodium/hydrogen exchanger, regulatory region
GlyGen

Q8BUE1 1 site

less

All nucleic 20

cDNA 18

Primer pair 2

Microarray probesets 1

less

MGD-MRK-32114, MGI:2138630, MGI:2443484

Summaries

All 49

Developmental Gene Expression 6

Gene Ontology 8

Phenotypes 14
Earliest

J:31188 Pathak BG, et al., Mouse chromosomal location of four Na/H exchanger isoform genes. Genomics. 1996 Jan 15;31(2):261-3
Latest

J:369781 Lee HW, et al., Lack of a role of NHE4 in renal ammonia metabolism. Am J Physiol Renal Physiol. 2025 Jun 1;328(6):F752-F765

TSS for Slc9a4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr6485	Chr1:40619228-40619252 (+)	-1 bp
Tssr6486	Chr1:40619453-40619462 (+)	217 bp
Tssr6487	Chr1:40619472-40619494 (+)	242 bp
Tssr6488	Chr1:40619500-40619509 (+)	264 bp
Tssr6489	Chr1:40619523-40619534 (+)	288 bp
Tssr6490	Chr1:40619631-40619641 (+)	395 bp
Tssr6491	Chr1:40619652-40619670 (+)	420 bp
Tssr6492	Chr1:40619681-40619691 (+)	445 bp
Tssr6493	Chr1:40640073-40640109 (+)	20,850 bp
Tssr6494	Chr1:40645415-40645421 (+)	26,177 bp
Tssr6495	Chr1:40645479-40645490 (+)	26,244 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