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    Clec5a C-type lectin domain family 5, member a [ Mus musculus (house mouse) ]

    Gene ID: 23845, updated on 9-Dec-2024

    Summary

    Official Symbol
    Clec5aprovided by MGI
    Official Full Name
    C-type lectin domain family 5, member aprovided by MGI
    Primary source
    MGI:MGI:1345151
    See related
    Ensembl:ENSMUSG00000029915 AllianceGenome:MGI:1345151
    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
    Mdl1; Ly100; MDL-1; Clecsf5
    Summary
    Enables virus receptor activity. Involved in several processes, including innate immune response; osteoblast development; and positive regulation of cytokine production. Acts upstream of or within myeloid cell differentiation and negative regulation of myeloid cell apoptotic process. Located in cell surface. Orthologous to human CLEC5A (C-type lectin domain containing 5A). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in liver E18 (RPKM 1.9), liver E14 (RPKM 1.1) and 8 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Clec5a in Genome Data Viewer
    Location:
    6 B1; 6 18.82 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (40551832..40562739, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (40574898..40585805, complement)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_15686 Neighboring gene olfactory receptor family 9 subfamily A member 7 Neighboring gene olfactory receptor family 9 subfamily A member 4 Neighboring gene taste receptor, type 2, member 138 Neighboring gene STARR-seq mESC enhancer starr_15687 Neighboring gene maltase-glucoamylase Neighboring gene STARR-seq mESC enhancer starr_15688 Neighboring gene STARR-seq mESC enhancer starr_15689

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (7) 
    • Targeted (4)  1 citation

    Pathways from PubChem

    General gene information

    Markers

    Clone Names

    • MGC129446, MGC129447

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables virus receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables virus receptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables virus receptor activity ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in cell surface IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    C-type lectin domain family 5 member A
    Names
    C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 5
    C-type lectin superfamily member 5
    myeloid DAP12-associating lectin 1
    type II transmembrane protein MDL-1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001038604.1NP_001033693.1  C-type lectin domain family 5 member A isoform 1

      See identical proteins and their annotated locations for NP_001033693.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AK036697, AK137482, BY205833, CN670295
      Consensus CDS
      CCDS20036.1
      UniProtKB/Swiss-Prot
      Q3SXC9, Q3UV97, Q8BL24, Q9R007
      UniProtKB/TrEMBL
      A0A0R4J269
      Related
      ENSMUSP00000121848.3, ENSMUST00000129948.9
      Conserved Domains (1) summary
      cd03593
      Location:73186
      CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)
    2. NM_021364.2NP_067339.1  C-type lectin domain family 5 member A isoform 2

      See identical proteins and their annotated locations for NP_067339.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (2) lacks an exon in the coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.
      Source sequence(s)
      AK036697, AK137482, BY205833
      Consensus CDS
      CCDS20037.1
      UniProtKB/TrEMBL
      A0A0R4J269
      Related
      ENSMUSP00000099030.5, ENSMUST00000101491.11
      Conserved Domains (1) summary
      cd03593
      Location:48161
      CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)

    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
      40551832..40562739 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)