Clec4a4 MGI Mouse Gene Detail - MGI:3624119 - C-type lectin domain family 4, member a4

Symbol

Clec4a4
Name

C-type lectin domain family 4, member a4
Synonyms

Dcir2

Feature Type

protein coding gene
IDs

MGI:3624119
NCBI Gene: 474145
Alliance

genome feature page
Transcription Start Sites

2 TSS

Sequence Map

Chr6:122967326-123001064 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 6, 58.07 cM
Mapping Data

1 experiment

SNPs within 2kb

854 from dbSNP Build 142
Strain Annotations

19

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_3624119	protein coding gene	Chr6:122967326-123001380 (+)
129S1/SvImJ	ENSMUSG00200050216	protein coding gene	Chr6:120143764-120177498 (+)
A/J	ENSMUSG00195036141	protein coding gene	Chr6:119601492-119635224 (+)
AKR/J	ENSMUSG00220031222	protein coding gene	Chr6:118444756-118478494 (+)
BALB/cJ	ENSMUSG00180041921	protein coding gene	Chr6:119932510-119966250 (+)
C3H/HeJ	ENSMUSG00175040879	protein coding gene	Chr6:119596430-119630168 (+)
C57BL/6NJ	ENSMUSG00215041985	protein coding gene	Chr6:119946287-119980021 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0028832	protein coding gene	Chr6:117920247-118044048 (+)
CAST/EiJ	ENSTCUG00005049399	protein coding gene	Chr6:119615795-119647518 (+)
CBA/J	ENSMUSG00210030307	protein coding gene	Chr6:119698953-119732699 (+)
DBA/2J	ENSMUSG00185038184	protein coding gene	Chr6:120340300-120374034 (+)
FVB/NJ	ENSMUSG00205048203	protein coding gene	Chr6:118628338-118662036 (+)
JF1/MsJ	ENSUMUG00000051049	protein coding gene	Chr6:118944915-118976637 (+)
LP/J	ENSMUSG00230038391	protein coding gene	Chr6:121536528-121570260 (+)
NOD/ShiLtJ	ENSMUSG00190040333	protein coding gene	Chr6:119311585-119345325 (+)
NZO/HlLtJ	ENSMUSG00225015604	protein coding gene	Chr6:123436090-123469828 (+)
PWK/PhJ	ENSLUMG00010045454	protein coding gene	Chr6:118257412-118289780 (+)
SPRET/EiJ	ENSMSPG00010036660	protein coding gene	Chr6:120737145-120776339 (+)
WSB/EiJ	ENSIUOG00005035041	protein coding gene	Chr6:119946435-119978794 (+)

Human Ortholog

CLEC4A, C-type lectin domain family 4 member A

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CLEC4A, C-type lectin domain family 4 member A
Synonyms

CD367, CLECSF6, DCIR, DDB27, HDCGC13P, hDCIR, LLIR
Links

HGNC:13257

NCBI Gene ID: 50856

UniProt: Q9UMR7
Chr Location

12p13.31; chr12:8102907-8138607 (+) GRCh38

MGI Vertebrate Homology

Clec4a4 stringent orthology
1 human;1 mouse;2 rat;1 zebrafish
HCOP

vertebrate homology predictions: CLEC4A
Gene Tree

Clec4a4

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Phenotype Summary

3 phenotypes from 1 allele in 2 genetic backgrounds
11 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

8
Endonuclease-mediated

5
Targeted

3
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

31 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

12
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

600
Tissues

3
cDNA Data

3
Literature Summary

1

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

GEO

Expression Atlas

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All Sequences

31
RefSeq

2
UniProt

2
CCDS

CCDS20509.1

Ensembl

ENSMUSG00000059639 (Evidence)
NCBI Gene

474145

			Length	Strain/Species	Flank
genomic	ENSMUSG00000059639	Ensembl Gene Model \| MGI Sequence Detail	33739	C57BL/6J	± kb
transcript	ENSMUST00000079379	Ensembl \| MGI Sequence Detail	776	Not Applicable
polypeptide	ENSMUSP00000078351	Ensembl \| MGI Sequence Detail	236	Not Applicable

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UniProt

2 Sequences
PDB

3VYJ, 3VYK
InterPro Domains

IPR033989 CD209-like, C-type lectin-like domain

IPR050111 C-type lectin and snaclec domain-containing protein

IPR018378 C-type lectin, conserved site

IPR016187 C-type lectin fold

IPR001304 C-type lectin-like

IPR016186 C-type lectin-like/link domain superfamily

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All nucleic 3

cDNA 3

Microarray probesets 1

Summaries

All 31

Developmental Gene Expression 1

Gene Ontology 4

Phenotypes 11
Earliest

J:93065 Flornes LM, et al., Identification of lectin-like receptors expressed by antigen presenting cells and neutrophils and their mapping to a novel gene complex. Immunogenetics. 2004 Oct;56(7):506-17
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Clec4a4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr58744	Chr6:122967254-122967267 (+)	-65 bp
Tssr58745	Chr6:122967309-122967324 (+)	-9 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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