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

    Gene ID: 73149, updated on 28-Oct-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 D-mannose binding activity; calcium ion binding activity; and pattern recognition receptor 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, Oct 2024]
    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. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article
    4. 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
    5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

    See all (13) 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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