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

Gene ID: 23845, updated on 24-Jan-2023

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; negative regulation of apoptotic process; and osteoblast development. 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, Apr 2022]
Expression
Biased expression in liver E18 (RPKM 1.9), liver E14 (RPKM 1.1) and 8 other tissues See more
Orthologs
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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)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes 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 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 (5) 

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 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)

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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_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
    Q8BL24, 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)