U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Clec1b C-type lectin domain family 1, member b [ Mus musculus (house mouse) ]

    Gene ID: 56760, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Clec1bprovided by MGI
    Official Full Name
    C-type lectin domain family 1, member bprovided by MGI
    Primary source
    MGI:MGI:1913287
    See related
    Ensembl:ENSMUSG00000030159 AllianceGenome:MGI:1913287
    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
    Clec2; Clec-2; 1810061I13Rik
    Summary
    Predicted to enable transmembrane signaling receptor activity. Acts upstream of or within platelet formation. Located in cell surface and plasma membrane. Is expressed in dorsal root ganglion; liver; lung; and spinal cord. Orthologous to human CLEC1B (C-type lectin domain family 1 member B). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in liver E18 (RPKM 7.3), liver E14 (RPKM 6.1) and 8 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Clec1b in Genome Data Viewer
    Location:
    6 F3; 6 63.3 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (129374260..129382376)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (129397297..129405413)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene C-type lectin domain family 2, member m Neighboring gene STARR-positive B cell enhancer ABC_E9103 Neighboring gene STARR-seq mESC enhancer starr_17478 Neighboring gene C-type lectin domain family 12, member a Neighboring gene STARR-seq mESC enhancer starr_17479 Neighboring gene STARR-positive B cell enhancer ABC_E6498 Neighboring gene C-type lectin domain family 12, member B Neighboring gene STARR-positive B cell enhancer ABC_E4872 Neighboring gene C-type lectin domain family 9, member a Neighboring gene STARR-positive B cell enhancer mm9_chr6:129384284-129384585 Neighboring gene C-type lectin domain family 1, member a Neighboring gene STARR-seq mESC enhancer starr_17480

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Platelet regulates neuroinflammation and restores blood-brain barrier integrity in a mouse model of traumatic brain injury. Gao C, et al. J Neurochem, 2020 Jul. PMID 32048302
    2. CLEC-2 is required for development and maintenance of lymph nodes. Bénézech C, et al. Blood, 2014 May 15. PMID 24532804, Free PMC Article
    3. Molecular characterization of two novel isoforms and a soluble form of mouse CLEC-2. Xie J, et al. Biochem Biophys Res Commun, 2008 Jun 27. PMID 18361921
    4. Origin-Specific Adhesive Interactions of Mesenchymal Stem Cells with Platelets Influence Their Behavior After Infusion. Sheriff L, et al. Stem Cells, 2018 Jul. PMID 29488279, Free PMC Article
    5. Transforming growth factor-β1 impairs lymph node homing of dendritic cells by downregulating C-type lectin receptor-2 expression. Gujar R, et al. Cytokine, 2018 Oct. PMID 29702464

    See all (89) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Endothelial CLEC-1b plays a protective role against cancer hematogenous metastasis.
      Title: Endothelial CLEC-1b plays a protective role against cancer hematogenous metastasis.
    2. The podoplanin-CLEC-2 interaction promotes platelet-mediated melanoma pulmonary metastasis.
      Title: The podoplanin-CLEC-2 interaction promotes platelet-mediated melanoma pulmonary metastasis.
    3. CLEC-2 Supports Platelet Aggregation in Mouse but not Human Blood at Arterial Shear.
      Title: CLEC-2 Supports Platelet Aggregation in Mouse but not Human Blood at Arterial Shear.
    4. C-type lectin-like receptor 2 specifies a functionally distinct subpopulation within phenotypically defined hematopoietic stem cell population that contribute to emergent megakaryopoiesis.
      Title: C-type lectin-like receptor 2 specifies a functionally distinct subpopulation within phenotypically defined hematopoietic stem cell population that contribute to emergent megakaryopoiesis.
    5. CLEC-2-dependent platelet subendothelial accumulation by flow disturbance contributes to atherogenesis in mice.
      Title: CLEC-2-dependent platelet subendothelial accumulation by flow disturbance contributes to atherogenesis in mice.
    6. Heightened activation of embryonic megakaryocytes causes aneurysms in the developing brain of mice lacking podoplanin.
      Title: Heightened activation of embryonic megakaryocytes causes aneurysms in the developing brain of mice lacking podoplanin.
    7. A Role of the Podoplanin-CLEC-2 Axis in Promoting Inflammatory Response After Ischemic Stroke in Mice.
      Title: A Role of the Podoplanin-CLEC-2 Axis in Promoting Inflammatory Response After Ischemic Stroke in Mice.
    8. CLEC-2 stimulates IGF-1 secretion from podoplanin-positive stromal cells and positively regulates erythropoiesis in mice.
      Title: CLEC-2 stimulates IGF-1 secretion from podoplanin-positive stromal cells and positively regulates erythropoiesis in mice.
    9. Heme induces human and mouse platelet activation through C-type-lectin-like receptor-2.
      Title: Heme induces human and mouse platelet activation through C-type-lectin-like receptor-2.
    10. Blocking platelet CLEC-2 signalling enhances liver recovery from acute toxic liver injuries by increasing tumour necrosis factor-alpha production which then enhances reparative hepatic neutrophil recruitment.
      Title: The platelet receptor CLEC-2 blocks neutrophil mediated hepatic recovery in acetaminophen induced acute liver failure.
    Submit: New GeneRIF Correction See all GeneRIFs (50)

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Targeted (10)  1 citation

    Pathways from PubChem

    Go to the top of the page

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transmembrane signaling receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transmembrane signaling receptor activity ISA
    Inferred from Sequence Alignment
    more info
    		 PubMed 
    enables transmembrane signaling receptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transmembrane signaling receptor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within cell surface receptor signaling pathway TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in platelet formation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within platelet formation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in signal transduction ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in cell surface IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    C-type lectin domain family 1 member B
    Names
    C-type lectin-like receptor 2

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001204239.1 → NP_001191168.1  C-type lectin domain family 1 member B isoform 2

      See identical proteins and their annotated locations for NP_001191168.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an exon in the 5' coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC138620
      Consensus CDS
      CCDS57452.1
      UniProtKB/Swiss-Prot
      Q9JL99
      Related
      ENSMUSP00000107712.3, ENSMUST00000112081.9
      Conserved Domains (1) summary
      cd03593
      Location:70 → 186
      CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)

    2. NM_001204253.1 → NP_001191182.1  C-type lectin domain family 1 member B isoform 3

      See identical proteins and their annotated locations for NP_001191182.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks two exons in the coding region, which results in a frameshift and an early stop codon, compared to variant 1. The encoded isoform (3) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AC138620
      Consensus CDS
      CCDS57453.1
      UniProtKB/TrEMBL
      A0T1G3
      Related
      ENSMUSP00000107710.3, ENSMUST00000112079.3

    3. NM_019985.3 → NP_064369.1  C-type lectin domain family 1 member B isoform 1

      See identical proteins and their annotated locations for NP_064369.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC138620, BC064054
      Consensus CDS
      CCDS20586.1
      UniProtKB/Swiss-Prot
      A0T1G2, Q9JL99
      Related
      ENSMUSP00000032262.8, ENSMUST00000032262.14
      Conserved Domains (1) summary
      cd03593
      Location:102 → 218
      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
      129374260..129382376
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9JL99.1 GenPept UniProtKB/Swiss-Prot:Q9JL99

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous