Ms4a6c MGI Mouse Gene Detail - MGI:2385644 - membrane-spanning 4-domains, subfamily A, member 6C

Symbol

Ms4a6c
Name

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

2200009H22Rik, 2210417N07Rik

Feature Type

protein coding gene
IDs

MGI:2385644
NCBI Gene: 73656
Member of

Ms4ac cluster
Alliance

genome feature page
Transcription Start Sites

17 TSS

Sequence Map

Chr19:11446730-11459556 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 19, 8.44 cM, cytoband B
Mapping Data

2 experiments

SNPs within 2kb

435 from dbSNP Build 142
Strain Annotations

19

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2385644	protein coding gene	Chr19:11446718-11464433 (+)
129S1/SvImJ	ENSMUSG00200044214	protein coding gene	Chr19:8126728-8139567 (+)
A/J	ENSMUSG00195050499	protein coding gene	Chr19:8331085-8343926 (+)
AKR/J	ENSMUSG00220044329	protein coding gene	Chr19:8241851-8254685 (+)
BALB/cJ	ENSMUSG00180037680	protein coding gene	Chr19:8695669-8708505 (+)
C3H/HeJ	ENSMUSG00175010928	protein coding gene	Chr19:7972427-7985251 (+)
C57BL/6NJ	ENSMUSG00215039174	protein coding gene	Chr19:8044039-8056872 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0022722	protein coding gene	Chr19:8714773-8727041 (+)
CAST/EiJ	ENSTCUG00005029762	protein coding gene	Chr19:7819909-7889406 (+)
CBA/J	ENSMUSG00210038579	protein coding gene	Chr19:8170949-8183772 (+)
DBA/2J	ENSMUSG00185048650	protein coding gene	Chr19:8580973-8593792 (+)
FVB/NJ	ENSMUSG00205049103	protein coding gene	Chr19:8037920-8050715 (+)
JF1/MsJ	ENSUMUG00000054537	protein coding gene	Chr19:8700675-8732769 (+)
LP/J	ENSMUSG00230053484	protein coding gene	Chr19:9501306-9514143 (+)
NOD/ShiLtJ	ENSMUSG00190049971	protein coding gene	Chr19:7793741-7806578 (+)
NZO/HlLtJ	ENSMUSG00225045242	protein coding gene	Chr19:13210232-13223066 (+)
PWK/PhJ	ENSLUMG00010007744	protein coding gene	Chr19:8101617-8133931 (+)
SPRET/EiJ	ENSMSPG00010042148	protein coding gene	Chr19:7925030-7937472 (+)
WSB/EiJ	ENSIUOG00005050039	protein coding gene	Chr19:7660773-7673537 (+)

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

Ms4a6c stringent orthology
2 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: MS4A6A, MS4A6E
Gene Tree

Ms4a6c

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Phenotype Summary

6 phenotype references

All Mutations and Alleles

7
Endonuclease-mediated

6
Targeted

1
Genomic Mutations

1 involving Ms4a6c
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

15 strains or lines available

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All GO Annotations

6
GO References

4

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

621
Tissues

15
cDNA Data

10
Literature Summary

1

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas

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All Sequences

44
RefSeq

7
UniProt

2
CCDS

CCDS50395.1

Ensembl

ENSMUSG00000079419 (Evidence)
NCBI Gene

73656

			Length	Strain/Species	Flank
genomic	ENSMUSG00000079419	Ensembl Gene Model \| MGI Sequence Detail	12827	C57BL/6J	± kb
transcript	ENSMUST00000165310	Ensembl \| MGI Sequence Detail	1841	Not Applicable
polypeptide	ENSMUSP00000132425	Ensembl \| MGI Sequence Detail	217	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000010921 membrane-spanning 4-domains subfamily A member 6C

(term hierarchy)
InterPro Domains

IPR007237 CD20-like, transmembrane domain

IPR030417 Membrane-spanning 4-domains subfamily A

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All nucleic 10

cDNA 10

Microarray probesets 3

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MGI:1920906, MGI:1925737

Summaries

All 32

Developmental Gene Expression 1

Gene Ontology 4

Phenotypes 6
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 Ms4a6c:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr155221	Chr19:11446717-11446745 (+)	1 bp
Tssr155222	Chr19:11446751-11446767 (+)	29 bp
Tssr155223	Chr19:11446770-11446783 (+)	47 bp
Tssr155224	Chr19:11446833-11446866 (+)	120 bp
Tssr155225	Chr19:11448043-11448072 (+)	1,328 bp
Tssr155226	Chr19:11448104-11448118 (+)	1,381 bp
Tssr155227	Chr19:11448149-11448166 (+)	1,428 bp
Tssr155228	Chr19:11449977-11449997 (+)	3,257 bp
Tssr155229	Chr19:11455015-11455030 (+)	8,293 bp
Tssr155230	Chr19:11455111-11455124 (+)	8,388 bp
Tssr155231	Chr19:11455284-11455302 (+)	8,563 bp
Tssr155232	Chr19:11455608-11455624 (+)	8,886 bp
Tssr155233	Chr19:11455645-11455683 (+)	8,934 bp
Tssr155234	Chr19:11457653-11457680 (+)	10,937 bp
Tssr155235	Chr19:11457693-11457722 (+)	10,978 bp
Tssr155236	Chr19:11458376-11458385 (+)	11,651 bp
Tssr155237	Chr19:11458555-11458654 (+)	11,875 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)
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