Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

    Gene ID: 23845, updated on 23-Jun-2021

    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
    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
    Ly10; MDL-; Mdl1; Clecs; Ly100; MDL-1; Clecsf5
    Expression
    Biased expression in liver E18 (RPKM 1.9), liver E14 (RPKM 1.1) and 8 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Clec5a in Genome Data Viewer
    Location:
    6; 6 B1
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    109 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)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 6 NC_000072.5 (40524897..40535804, complement)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene olfactory receptor 461 Neighboring gene olfactory receptor 460 Neighboring gene taste receptor, type 2, member 138 Neighboring gene maltase-glucoamylase

    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)
    • Targeted (4)  1 citation
    • Endonuclease-mediated (1) 

    Pathways from PubChem

    General gene information

    Markers

    Homology

    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
    PubMed 
    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 ISO
    Inferred from Sequence Orthology
    more info
     
    located_in integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in 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
      Q9R007
      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/Swiss-Prot
      Q9R007
      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: Mus musculus Annotation Release 109 details...Open this link in a new tab

    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)
    Support Center