Clec4f C-type lectin domain family 4, member f [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Clec4fprovided by MGI
Official Full Name: C-type lectin domain family 4, member fprovided by MGI
Primary source: MGI:MGI:1859834
See related: Ensembl:ENSMUSG00000014542 AllianceGenome:MGI:1859834
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Kclr; Clecsf13; KUCR_MOUSE
Summary: Enables galactose binding activity and glycolipid binding activity. Acts upstream of or within NK T cell activation. Located in plasma membrane. Is expressed in liver; liver lobe; and liver sinusoid. Orthologous to human CLEC4F (C-type lectin domain family 4 member F). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in liver E18 (RPKM 25.8), liver adult (RPKM 17.1) and 2 other tissues See more
Orthologs: human all
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Genomic context

Location:: 6 C3; 6 35.94 cM

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	6	NC_000072.7 (83621524..83633098, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	6	NC_000072.6 (83644542..83656116, complement)

Chromosome 6 - NC_000072.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Mucins Shed from the Laminated Layer in Cystic Echinococcosis Are Captured by Kupffer Cells via the Lectin Receptor Clec4F.
Title: Mucins Shed from the Laminated Layer in Cystic Echinococcosis Are Captured by Kupffer Cells via the Lectin Receptor Clec4F.
Kupffer cell receptor CLEC4F is important for the destruction of desialylated platelets in mice.
Title: Kupffer cell receptor CLEC4F is important for the destruction of desialylated platelets in mice.
The CLEC4f protein is expressed in spleen in non-human primates and the close evolutionary relationship of the CLEC4f protein to langerin (CD207) suggest that it may function in the immune system, possibly as a pathogen receptor.
Title: Absence of a human ortholog of rodent Kupffer cell galactose-binding receptor encoded by the CLEC4f gene.
CLEC4F is an inducible C-type lectin in F4/80-positive cells and is involved in alpha-galactosylceramide presentation in liver.
Title: CLEC4F is an inducible C-type lectin in F4/80-positive cells and is involved in alpha-galactosylceramide presentation in liver.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (12) 1 citation
Targeted (3) 1 citation

General gene information

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Markers

D6Mit69 (e-PCR), detects polymorphism
- UniSTS:130971

D18063 (e-PCR)
- UniSTS:179400

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables carbohydrate binding	IBA Inferred from Biological aspect of Ancestor more info
enables galactose binding	IDA Inferred from Direct Assay more info	PubMed
enables glycolipid binding	IDA Inferred from Direct Assay more info	PubMed
enables pattern recognition receptor activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within NK T cell activation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in endocytosis	IEA Inferred from Electronic Annotation more info
involved_in immune response	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in external side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: C-type lectin domain family 4 member F

Names: C-type (calcium dependent, carbohydrate recognition domain) lectin, superfamily member 13; C-type lectin 13; C-type lectin superfamily member 13; Kupffer cell c-type lectin receptor; kupffer cell receptor

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_016751.3 → NP_058031.2 C-type lectin domain family 4 member F

See identical proteins and their annotated locations for NP_058031.2

Status: PROVISIONAL

Source sequence(s)

AK040696

Consensus CDS

CCDS20281.1

UniProtKB/Swiss-Prot

P70194, Q8BLZ8

UniProtKB/TrEMBL

A0A0R4IZZ5

Related

ENSMUSP00000014686.3, ENSMUST00000014686.3

Conserved Domains (3) summary

cd03590
Location:414 → 538

CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)

pfam12795
Location:222 → 415

MscS_porin; Mechanosensitive ion channel porin domain

cl21711
Location:144 → 411

PhageMin_Tail; Phage-related minor tail protein

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000072.7 Reference GRCm39 C57BL/6J

Range

83621524..83633098 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036166277.1 → XP_036022170.1 C-type lectin domain family 4 member F isoform X1

UniProtKB/Swiss-Prot

P70194, Q8BLZ8

Conserved Domains (2) summary

cd03590
Location:313 → 437

CLECT_DC-SIGN_like; C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR)

TIGR02168
Location:6 → 302

SMC_prok_B; chromosome segregation protein SMC, common bacterial type