Ms4a6d MGI Mouse Gene Detail - MGI:1916024 - membrane-spanning 4-domains, subfamily A, member 6D

About Help FAQ

Ms4a6d Gene Detail

Symbol

Ms4a6d
Name

membrane-spanning 4-domains, subfamily A, member 6D
Synonyms

Ms4a11

Feature Type

protein coding gene
IDs

MGI:1916024
NCBI Gene: 68774
Member of

Ms4ac cluster
Alliance

genome feature page
Transcription Start Sites

31 TSS

more

Sequence Map

Chr19:11563970-11582150 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 19, 8.45 cM, cytoband B
Mapping Data

3 experiments

more

SNPs within 2kb

463 from dbSNP Build 142
Strain Annotations

19

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates	Select Strains
C57BL/6J	MGI_C57BL6J_1916024	protein coding gene	Chr19:11563968-11582213 (-)
129S1/SvImJ	ENSMUSG00200045218	protein coding gene	Chr19:8244821-8269832 (-)
A/J	ENSMUSG00195051063	protein coding gene	Chr19:8454637-8467566 (-)
AKR/J	ENSMUSG00220036432	protein coding gene	Chr19:8359944-8378189 (-)
BALB/cJ	ENSMUSG00180039362	protein coding gene	Chr19:8819197-8832127 (-)
C3H/HeJ	ENSMUSG00175008728	protein coding gene	Chr19:8090515-8108760 (-)
C57BL/6NJ	ENSMUSG00215043493	protein coding gene	Chr19:8162127-8180370 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0022724	protein coding gene	Chr19:8831351-8842564 (-)
CAST/EiJ	ENSTCUG00005025230	protein coding gene	Chr19:7947824-7959297 (-)
CBA/J	ENSMUSG00210042283	protein coding gene	Chr19:8289035-8307280 (-)
DBA/2J	ENSMUSG00185049532	protein coding gene	Chr19:8699042-8717287 (-)
FVB/NJ	ENSMUSG00205046738	protein coding gene	Chr19:8162266-8175187 (-)
JF1/MsJ	ENSUMUG00000054677	protein coding gene	Chr19:8817579-8828988 (-)
LP/J	ENSMUSG00230053501	protein coding gene	Chr19:9619388-9637633 (-)
NOD/ShiLtJ	ENSMUSG00190050783	protein coding gene	Chr19:7917270-7930197 (-)
NZO/HlLtJ	ENSMUSG00225043774	protein coding gene	Chr19:13328304-13346549 (-)
PWK/PhJ	ENSLUMG00010007676	protein coding gene	Chr19:8218516-8229964 (-)
SPRET/EiJ	ENSMSPG00010043793	protein coding gene	Chr19:8040220-8051630 (-)
WSB/EiJ	ENSIUOG00005049538	protein coding gene	Chr19:7785684-7798613 (-)

more

Human Ortholog

MS4A6A, membrane spanning 4-domains A6A

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

MS4A6A, membrane spanning 4-domains A6A
Synonyms

4SPAN3, 4SPAN3.2, CD20L3, CDA01, MS4A6, MST090, MSTP090
Links

HGNC:13375

NCBI Gene ID: 64231

UniProt: Q9H2W1
Chr Location

11q12.2; chr11:60170074-60184666 (-) GRCh38

Human Ortholog

MS4A6E, membrane spanning 4-domains A6E
Links

HGNC:14285

NCBI Gene ID: 245802

UniProt: Q96DS6
Chr Location

11q12.2; chr11:60327251-60396596 (+) GRCh38

MGI Vertebrate Homology

Ms4a6d stringent orthology
2 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: MS4A6A, MS4A6E
Gene Tree

Ms4a6d

less

Phenotype Summary

1 phenotype from 3 alleles in 3 genetic backgrounds
13 phenotype references

Phenotype Overview

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

14
Endonuclease-mediated

10
Gene trapped

1
Targeted

3
Genomic Mutations

1 involving Ms4a6d
Incidental Mutations

APF
Find Mice (IMSR)

31 strains or lines available

Homozygous null mice exhibit decreased susceptibility to LPS-induced endotoxin lethality with lower proinflammatory cytokine levels.

less

All GO Annotations

6
GO References

4

Molecular Function

No experimental evidence to support Molecular Function annotation, following literature review. See J:73796.

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

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

597
cDNA Data

24

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas

less

All Sequences

43
RefSeq

2
UniProt

4
CCDS

CCDS29603.1

Ensembl

ENSMUSG00000024679 (Evidence)
NCBI Gene

68774

Representative Sequences				Length	Strain/Species	Flank
	genomic	68774	NCBI Gene Model \| MGI Sequence Detail	18181	C57BL/6J	± kb
	transcript	NM_026835	RefSeq \| MGI Sequence Detail	1353	C57BL/6
	polypeptide	Q99N07	UniProt \| EBI \| MGI Sequence Detail	247	Not Applicable

less

UniProt

4 Sequences
Protein Ontology

PR:000010922 membrane-spanning 4-domains subfamily A member 6D

(term hierarchy)
InterPro Domains

IPR007237 CD20-like, transmembrane domain

IPR030417 Membrane-spanning 4-domains subfamily A

less

All nucleic 24

cDNA 24

Microarray probesets 5

less

MGI:1927659, MGI:2147536

more

Summaries

All 46

Gene Ontology 4

Phenotypes 13
Earliest

J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
Latest

J:360865 Jiang HC, et al., CD20/MS4A1 is a mammalian olfactory receptor expressed in a subset of olfactory sensory neurons that mediates innate avoidance of predators. Nat Commun. 2024 Apr 18;15(1):3360

TSS for Ms4a6d:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr158386	Chr19:11582207-11582228 (-)	-68 bp
Tssr158385	Chr19:11582192-11582197 (-)	-45 bp
Tssr158384	Chr19:11582172-11582181 (-)	-27 bp
Tssr158383	Chr19:11582132-11582157 (-)	5 bp
Tssr158382	Chr19:11582113-11582130 (-)	28 bp
Tssr158381	Chr19:11582097-11582112 (-)	45 bp
Tssr158380	Chr19:11582078-11582088 (-)	67 bp
Tssr158379	Chr19:11581239-11581252 (-)	904 bp
Tssr158378	Chr19:11580790-11580801 (-)	1,354 bp
Tssr158377	Chr19:11580661-11580694 (-)	1,472 bp
Tssr158376	Chr19:11580561-11580660 (-)	1,539 bp
Tssr158375	Chr19:11580398-11580412 (-)	1,745 bp
Tssr158374	Chr19:11580375-11580387 (-)	1,769 bp
Tssr158373	Chr19:11579575-11579586 (-)	2,569 bp
Tssr158372	Chr19:11579552-11579568 (-)	2,590 bp
Tssr158371	Chr19:11579451-11579465 (-)	2,692 bp
Tssr158370	Chr19:11578032-11578053 (-)	4,107 bp
Tssr158369	Chr19:11577773-11577801 (-)	4,363 bp
Tssr158368	Chr19:11570246-11570290 (-)	11,882 bp
Tssr158367	Chr19:11569815-11569828 (-)	12,328 bp
Tssr158366	Chr19:11567516-11567572 (-)	14,606 bp
Tssr158365	Chr19:11567406-11567497 (-)	14,698 bp
Tssr158364	Chr19:11567363-11567405 (-)	14,766 bp
Tssr158363	Chr19:11566649-11566678 (-)	15,486 bp
Tssr158362	Chr19:11566422-11566445 (-)	15,716 bp
Tssr158361	Chr19:11566055-11566103 (-)	16,071 bp
Tssr158360	Chr19:11565369-11565398 (-)	16,766 bp
Tssr158359	Chr19:11565198-11565201 (-)	16,950 bp
Tssr158358	Chr19:11564340-11564405 (-)	17,777 bp
Tssr158357	Chr19:11564121-11564187 (-)	17,996 bp
Tssr158356	Chr19:11564100-11564115 (-)	18,042 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 09/15/2026 MGI 6.29