Ms4a3 MGI Mouse Gene Detail - MGI:2158468 - membrane-spanning 4-domains, subfamily A, member 3

Symbol

Ms4a3
Name

membrane-spanning 4-domains, subfamily A, member 3
Synonyms

haematopoietic cell-specific transmembrane-4, HTm4

Feature Type

protein coding gene
IDs

MGI:2158468
NCBI Gene: 170813
Member of

Ms4ac cluster
Alliance

gene page
Transcription Start Sites

6 TSS

Sequence Map

Chr19:11606863-11618215 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 19, 8.47 cM, cytoband B
Mapping Data

1 experiment

SNPs within 2kb

488 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2158468	protein coding gene	Chr19:11606860-11618215 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0024880	protein coding gene	Chr19:9021435-9032790 (-)
A/J	MGP_AJ_G0024854	protein coding gene	Chr19:8507096-8518451 (-)
AKR/J	MGP_AKRJ_G0024829	protein coding gene	Chr19:8832683-8844038 (-)
BALB/cJ	MGP_BALBcJ_G0024854	protein coding gene	Chr19:8509977-8521324 (-)
C3H/HeJ	MGP_C3HHeJ_G0024620	protein coding gene	Chr19:8733984-8745339 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0025302	protein coding gene	Chr19:9469488-9480843 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0022726	protein coding gene	Chr19:8865405-8876406 (-)
CAST/EiJ	MGP_CASTEiJ_G0024093	protein coding gene	Chr19:8316629-8327975 (-)
CBA/J	MGP_CBAJ_G0024594	protein coding gene	Chr19:9523004-9534357 (-)
DBA/2J	MGP_DBA2J_G0024721	protein coding gene	Chr19:8475593-8486952 (-)
FVB/NJ	MGP_FVBNJ_G0024688	protein coding gene	Chr19:8508936-8520324 (-)
LP/J	MGP_LPJ_G0024808	protein coding gene	Chr19:9019835-9031190 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0024715	protein coding gene	Chr19:9423562-9439495 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0025350	protein coding gene	Chr19:8813849-8825204 (-)
PWK/PhJ	MGP_PWKPhJ_G0023837	protein coding gene	Chr19:7930591-7942760 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0023643	protein coding gene	Chr19:7970128-7981471 (-)
WSB/EiJ	MGP_WSBEiJ_G0024155	protein coding gene	Chr19:8664136-8679062 (-)

Human Ortholog

MS4A3, membrane spanning 4-domains A3

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

MS4A3, membrane spanning 4-domains A3
Synonyms

CD20L, HTM4
Links

HGNC:7317

NCBI Gene ID: 932

UniProt: Q96HJ5
Chr Location

11q12.1; chr11:60056587-60071115 (+) GRCh38

MGI Vertebrate Homology

Ms4a3 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: MS4A3
Gene Tree

Ms4a3

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Phenotype Summary

1 phenotype from 1 allele in 1 genetic background
45 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

10
Endonuclease-mediated

5
Targeted

5
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

16 strains or lines available
Comparison Matrix

Gene Expression + Phenotype
Recombinase Activity

Comparison Matrix Gene Expression + Recombinase Activity

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All GO Annotations

4
GO References

3

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

827
Tissues

89
cDNA Data

12
Literature Summary

3

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas

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All Sequences

39
RefSeq

2
UniProt

4
CCDS

CCDS29605.1

Ensembl

ENSMUSG00000024681 (Evidence)
NCBI Gene

170813

			Length	Strain/Species	Flank
genomic	170813	NCBI Gene Model \| MGI Sequence Detail	11353	C57BL/6J	± kb
transcript	NM_133246	RefSeq \| MGI Sequence Detail	1009	C57BL/6
polypeptide	Q920C4	UniProt \| EBI \| MGI Sequence Detail	213	Not Applicable

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UniProt

4 Sequences
Protein Ontology

PR:000010657 membrane-spanning 4-domains subfamily A member 3

(term hierarchy)
InterPro Domains

IPR007237 CD20-like family

IPR030417 Membrane-spanning 4-domains subfamily A

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All nucleic 12

cDNA 12

Microarray probesets 2

Summaries

All 64

Developmental Gene Expression 3

Gene Ontology 3

Phenotypes 45
Earliest

J:68334 Liang Y, et al., Identification of a CD20-, FcepsilonRIbeta-, and HTm4-related gene family: sixteen new MS4A family members expressed in human and mouse. Genomics. 2001 Mar 1;72(2):119-27
Latest

J:364467 Solomon A, et al., Early and delayed STAT1-dependent responses drive local trained immunity of macrophages in the spleen. Elife. 2025 Jan 16;13

TSS for Ms4a3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr158393	Chr19:11618208-11618220 (-)	1 bp
Tssr158392	Chr19:11618192-11618204 (-)	17 bp
Tssr158391	Chr19:11618167-11618172 (-)	45 bp
Tssr158390	Chr19:11618136-11618137 (-)	78 bp
Tssr158389	Chr19:11618091-11618108 (-)	115 bp
Tssr158388	Chr19:11618077-11618090 (-)	131 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 03/25/2025 MGI 6.24