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Clec4a3 C-type lectin domain family 4, member a3 [ Mus musculus (house mouse) ]

Gene ID: 73149, updated on 18-Sep-2024

Summary

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Official Symbol
Clec4a3provided by MGI
Official Full Name
C-type lectin domain family 4, member a3provided by MGI
Primary source
MGI:MGI:1920399
See related
Ensembl:ENSMUSG00000043832 AllianceGenome:MGI:1920399
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Dcir3; 3110037K17Rik
Summary
Predicted to enable calcium ion binding activity and mannose binding activity. Predicted to be involved in several processes, including antifungal innate immune response; negative regulation of tumor necrosis factor production; and plasmacytoid dendritic cell antigen processing and presentation. Predicted to be active in external side of plasma membrane. Orthologous to human CLEC4A (C-type lectin domain family 4 member A). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in bladder adult (RPKM 1.7), mammary gland adult (RPKM 1.6) and 19 other tissues See more
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Genomic context

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See Clec4a3 in Genome Data Viewer
Location:
6 F2; 6 58.04 cM
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (122929474..122946837)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (122952515..122969878)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene predicted gene 5316 Neighboring gene C-type lectin domain family 4, member a1 Neighboring gene STARR-seq mESC enhancer starr_17264 Neighboring gene C-type lectin domain family 4, member a4 Neighboring gene STARR-seq mESC enhancer starr_17268 Neighboring gene STARR-seq mESC enhancer starr_17269 Neighboring gene C-type lectin domain family 4, member b1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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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Related articles in PubMed

  1. DCIR3 and DCIR4 are co-expressed on inflammatory and patrolling monocytes. Hsu Y, et al. Biochem Biophys Res Commun, 2017 Dec 16. PMID 29042196
  2. Identification of lectin-like receptors expressed by antigen presenting cells and neutrophils and their mapping to a novel gene complex. Flornes LM, et al. Immunogenetics, 2004 Oct. PMID 15368084
  3. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
  4. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
  5. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (2) 

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables D-mannose binding ISO
Inferred from Sequence Orthology
more info
  
enables calcium ion binding ISO
Inferred from Sequence Orthology
more info
  
enables carbohydrate binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables carbohydrate binding ISO
Inferred from Sequence Orthology
more info
  
enables pattern recognition receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in CD8-positive, alpha-beta T cell activation ISO
Inferred from Sequence Orthology
more info
  
involved_in antifungal innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in antigen processing and presentation of exogenous peptide antigen via MHC class I ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of cytokine production ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of tumor necrosis factor production ISO
Inferred from Sequence Orthology
more info
  
involved_in plasmacytoid dendritic cell antigen processing and presentation ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
dendritic cell inhibitory receptor 3

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)

  1. NM_001204241.1 → NP_001191170.1  dendritic cell inhibitory receptor 3

    See identical proteins and their annotated locations for NP_001191170.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    BC034893
    Consensus CDS
    CCDS20508.1
    UniProtKB/TrEMBL
    Q5YIR7, Q8JZX6
    Related
    ENSMUSP00000112716.2, ENSMUST00000117173.8
    Conserved Domains (2) summary
    cd03590
    Location:107 → 230
    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)
    pfam10332
    Location:41 → 82
    DUF2418; Protein of unknown function (DUF2418)

  2. NM_153197.4 → NP_694877.2  dendritic cell inhibitory receptor 3

    See identical proteins and their annotated locations for NP_694877.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK156040, BC034893
    Consensus CDS
    CCDS20508.1
    UniProtKB/TrEMBL
    Q5YIR7, Q8JZX6
    Related
    ENSMUSP00000085816.5, ENSMUST00000088468.7
    Conserved Domains (2) summary
    cd03590
    Location:107 → 230
    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)
    pfam10332
    Location:41 → 82
    DUF2418; Protein of unknown function (DUF2418)

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

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    122929474..122946837
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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