Ms4a1 MGI Mouse Gene Detail - MGI:88321 - membrane-spanning 4-domains, subfamily A, member 1

Symbol

Ms4a1
Name

membrane-spanning 4-domains, subfamily A, member 1
Synonyms

Cd20, Ly-44

Feature Type

protein coding gene
IDs

MGI:88321
NCBI Gene: 12482
Member of

Ms4ac cluster
Alliance

gene page
Transcription Start Sites

3 TSS

Sequence Map

Chr19:11227043-11243513 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 19, 8.19 cM, cytoband B
Mapping Data

8 experiments

SNPs within 2kb

487 from dbSNP Build 142
Strain Annotations

18
RFLP

6

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_88321	protein coding gene	Chr19:11227039-11243605 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0024873	protein coding gene	Chr19:8628796-8645254 (-)
A/J	MGP_AJ_G0024841	protein coding gene	Chr19:8068389-8085691 (-)
AKR/J	MGP_AKRJ_G0024816	protein coding gene	Chr19:8365473-8382979 (-)
BALB/cJ	MGP_BALBcJ_G0024841	protein coding gene	Chr19:8103233-8120262 (-)
C3H/HeJ	MGP_C3HHeJ_G0024607	protein coding gene	Chr19:8255220-8275613 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0025289	protein coding gene	Chr19:9020807-9039416 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0022716	protein coding gene	Chr19:8473676-8490167 (-)
CAST/EiJ	MGP_CASTEiJ_G0024080	protein coding gene	Chr19:7896182-7914219 (-)
CBA/J	MGP_CBAJ_G0024581	protein coding gene	Chr19:9070783-9089943 (-)
DBA/2J	MGP_DBA2J_G0024708	protein coding gene	Chr19:8058694-8081691 (-)
FVB/NJ	MGP_FVBNJ_G0024675	protein coding gene	Chr19:8091425-8107844 (-)
LP/J	MGP_LPJ_G0024795	protein coding gene	Chr19:8585547-8603886 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0024702	protein coding gene	Chr19:8957163-8973787 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0025337	protein coding gene	Chr19:8397533-8415486 (-)
PWK/PhJ	MGP_PWKPhJ_G0023824	protein coding gene	Chr19:7503750-7520761 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0023630	protein coding gene	Chr19:7591007-7607995 (-)
WSB/EiJ	MGP_WSBEiJ_G0024142	protein coding gene	Chr19:8286925-8309529 (-)

Human Ortholog

MS4A1, membrane spanning 4-domains A1

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

MS4A1, membrane spanning 4-domains A1
Synonyms

B1, Bp35, CD20, CVID5, FMC7, LEU-16, S7
Links

HGNC:7315

NCBI Gene ID: 931

neXtProt AC: NX_P11836

UniProt: P11836
Chr Location

11q12.2; chr11:60455846-60470752 (+) GRCh38

MGI Vertebrate Homology

Ms4a1 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: MS4A1
Gene Tree

Ms4a1

Diseases

1 with human MS4A1 associations

				Human Disease	Mouse Models
				common variable immunodeficiency 5 IDs common variable immunodeficiency 5 DOID:0081148 OMIM:613495

Click on a disease name to see all genes associated with that disease.

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Phenotype Summary

6 phenotypes from 2 alleles in 2 genetic backgrounds
12 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

4
Transgenic

1
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

24 strains or lines available

Homozygous inactivation of this locus affects B cell physiology but does not impair B cell development or overall immune function.

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All GO Annotations

29
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

805
Tissues

72
cDNA Data

96
Literature Summary

5

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase ms4a1

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All Sequences

50
RefSeq

2
UniProt

3
CCDS

CCDS37923.1

Ensembl

ENSMUSG00000024673 (Evidence)
NCBI Gene

12482

			Length	Strain/Species	Flank
genomic	12482	NCBI Gene Model \| MGI Sequence Detail	16471	C57BL/6J	± kb
transcript	NM_007641	RefSeq \| MGI Sequence Detail	2984	ZRU/MplStud
polypeptide	P19437	UniProt \| EBI \| MGI Sequence Detail	291	Not Applicable

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UniProt

3 Sequences
Protein Ontology

PR:000001289 membrane-spanning 4-domains subfamily A member 1

(term hierarchy)
InterPro Domains

IPR007237 CD20-like family

IPR030417 Membrane-spanning 4-domains subfamily A

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All nucleic 98

cDNA 96

Primer pair 2

Microarray probesets 6

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MGD-MRK-11986, MGD-MRK-1838, MGI:2147465

Summaries

All 58

Developmental Gene Expression 5

Gene Ontology 7

Phenotypes 12
Earliest

J:9496 Tedder TF, et al., Cloning of a complementary DNA encoding a new mouse B lymphocyte differentiation antigen, homologous to the human B1 (CD20) antigen, and localization of the gene to chromosome 19. J Immunol. 1988 Dec 15;141(12):4388-94
Latest

J:326541 Cyagen Biosciences Inc., Cyagen Biosciences Website. 2022;

TSS for Ms4a1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr158304	Chr19:11243532-11243561 (-)	-34 bp
Tssr158303	Chr19:11243486-11243525 (-)	7 bp
Tssr158302	Chr19:11243469-11243478 (-)	39 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 11/19/2024 MGI 6.24