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    CLEC10A C-type lectin domain containing 10A [ Homo sapiens (human) ]

    Gene ID: 10462, updated on 2-Nov-2024

    Summary

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    Official Symbol
    CLEC10Aprovided by HGNC
    Official Full Name
    C-type lectin domain containing 10Aprovided by HGNC
    Primary source
    HGNC:HGNC:16916
    See related
    Ensembl:ENSG00000132514 MIM:605999; AllianceGenome:HGNC:16916
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    HML; MGL; HML2; CD301; CLECSF13; CLECSF14
    Summary
    This gene encodes a member of the C-type lectin/C-type lectin-like domain (CTL/CTLD) superfamily. Members of this family share a common protein fold and have diverse functions, such as cell adhesion, cell-cell signalling, glycoprotein turnover, and roles in inflammation and immune response. The encoded type 2 transmembrane protein may function as a cell surface antigen. Two transcript variants encoding distinct isoforms have been identified for this gene. [provided by RefSeq, Jul 2008]
    Expression
    Broad expression in appendix (RPKM 13.9), small intestine (RPKM 10.3) and 21 other tissues See more
    Orthologs
    all
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    Genomic context

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    See CLEC10A in Genome Data Viewer
    Location:
    17p13.1
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (7074537..7080251, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (6975209..6980923, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (6977856..6983570, complement)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11596 Neighboring gene solute carrier family 16 member 13 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8082 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8083 Neighboring gene uncharacterized LOC124903909 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8084 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8085 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11597 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11598 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11599 Neighboring gene solute carrier family 16 member 11 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11600 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11601 Neighboring gene asialoglycoprotein receptor 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:7015987-7016487 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:7018293-7019079 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8086 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:7034277-7034814 Neighboring gene uncharacterized LOC105371512 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11602

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. High expression of CLEC10A in head and neck squamous cell carcinoma indicates favorable prognosis and high-level immune infiltration status. Zou M, et al. Cell Immunol, 2022 Feb. PMID 35093731
    2. Molecular cloning and expression of cDNA encoding human macrophage C-type lectin. Its unique carbohydrate binding specificity for Tn antigen. Suzuki N, et al. J Immunol, 1996 Jan 1. PMID 8598452
    3. Variation of Neisseria gonorrhoeae lipooligosaccharide directs dendritic cell-induced T helper responses. van Vliet SJ, et al. PLoS Pathog, 2009 Oct. PMID 19834553, Free PMC Article
    4. Targeting of macrophage galactose-type C-type lectin (MGL) induces DC signaling and activation. Napoletano C, et al. Eur J Immunol, 2012 Apr. PMID 22531918
    5. Protein domain histochemistry (PDH): binding of the carbohydrate recognition domain (CRD) of recombinant human glycoreceptor CLEC10A (CD301) to formalin-fixed, paraffin-embedded breast cancer tissues. Nollau P, et al. J Histochem Cytochem, 2013 Mar. PMID 23275449, Free PMC Article

    See all (32) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. High expression of CLEC10A in head and neck squamous cell carcinoma indicates favorable prognosis and high-level immune infiltration status.
      Title: High expression of CLEC10A in head and neck squamous cell carcinoma indicates favorable prognosis and high-level immune infiltration status.
    2. N-Glycoproteins Have a Major Role in MGL Binding to Colorectal Cancer Cell Lines: Associations with Overall Proteome Diversity.
      Title: N-Glycoproteins Have a Major Role in MGL Binding to Colorectal Cancer Cell Lines: Associations with Overall Proteome Diversity.
    3. The C-type lectin receptor MGL senses N-acetylgalactosamine on the unique Staphylococcus aureus ST395 wall teichoic acid.
      Title: The C-type lectin receptor MGL senses N-acetylgalactosamine on the unique Staphylococcus aureus ST395 wall teichoic acid.
    4. The MGL can be used to discriminate tumor from the corresponding healthy tissues.
      Title: Characterization of Macrophage Galactose-type Lectin (MGL) ligands in colorectal cancer cell lines.
    5. our data provide new insight into the identification and structure of novel MGL ligands that presumably act as modulatory molecules in cancer immune responses.
      Title: Glycoproteomic Analysis of MGL-Binding Proteins on Acute T-Cell Leukemia Cells.
    6. CLEC10A represents not only a candidate to better define CD1c(+) dendritic cells-due to its high endocytic potential-CLEC10A also exhibits an interesting candidate receptor for future antigen-targeting approaches.
      Title: CLEC10A Is a Specific Marker for Human CD1c(+) Dendritic Cells and Enhances Their Toll-Like Receptor 7/8-Induced Cytokine Secretion.
    7. this paper shows that key gene of intermediate proinflammatory monocytes, such as CLEC10A, is expressed three- to fourfold more in juvenile idiopathic arthritis-enthesitis-related arthritis
      Title: Intermediate monocytes are increased in enthesitis-related arthritis, a category of juvenile idiopathic arthritis.
    8. BRAF(V600E) mutation induces MGL ligand expression, thereby providing a direct link between oncogenic transformation and aberrant expression of immunosuppressive glycans in colorectal neoplasms.
      Title: MGL ligand expression is correlated to BRAF mutation and associated with poor survival of stage III colon cancer patients.
    9. These results indicate a role of MGL as an immunomodulator within the tumour microenvironment interfering with Treg functions, suggesting its possible use in the design of anticancer vaccines.
      Title: The Macrophage Galactose-Type C-Type Lectin (MGL) Modulates Regulatory T Cell Functions.
    10. expression of GalNAc moieties mirrors the T cell activation status, and thus only highly stimulated T cells are prone to the suppressive action of MGL.
      Title: Human T cell activation results in extracellular signal-regulated kinase (ERK)-calcineurin-dependent exposure of Tn antigen on the cell surface and binding of the macrophage galactose-type lectin (MGL).
    Submit: New GeneRIF Correction See all GeneRIFs (14)

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Envelope transmembrane glycoprotein gp41 env A synthetic peptide corresponding to the immunosuppressive domain (amino acids 574-592) of HIV-1 gp41 downregulates the expression of C-type lectin domain family 10, member A (CLEC10A) in peptide-treated PBMCs PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables D-mannose binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables carbohydrate binding TAS
    Traceable Author Statement
    more info
    		 PubMed 
    enables fucose binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables pattern recognition receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in adaptive immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in endocytosis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in innate immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in external side of plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    C-type lectin domain family 10 member A
    Names
    C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 13 (macrophage-derived)
    C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 14 (macrophage-derived)
    macrophage lectin 2 (calcium dependent)

    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.

    Genomic

    1. NG_029878.1 RefSeqGene

      Range
      5031..10745
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001330070.2 → NP_001316999.1  C-type lectin domain family 10 member A isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 5' coding region compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
      Source sequence(s)
      AC120057, BM974488
      Consensus CDS
      CCDS82049.1
      UniProtKB/TrEMBL
      J3KR22
      Related
      ENSP00000414938.2, ENST00000416562.7
      Conserved Domains (2) summary
      cd03590
      Location:154 → 278
      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)
      pfam03954
      Location:18 → 143
      Lectin_N; Hepatic lectin, N-terminal domain

    2. NM_006344.4 → NP_006335.2  C-type lectin domain family 10 member A isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an in-frame segment of the coding region, compared to variant 1. It encodes a shorter isoform (2), compared to isoform 1.
      Source sequence(s)
      BC027858, BC039011, BM974488, D50532, DA620172
      Consensus CDS
      CCDS45597.1
      UniProtKB/Swiss-Prot
      Q8IUN9
      Related
      ENSP00000460252.1, ENST00000571664.1
      Conserved Domains (2) summary
      cd03590
      Location:157 → 281
      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)
      pfam03954
      Location:18 → 143
      Lectin_N; Hepatic lectin, N-terminal domain

    3. NM_182906.4 → NP_878910.1  C-type lectin domain family 10 member A isoform 1

      See identical proteins and their annotated locations for NP_878910.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      BC027858, BC039011, BM974488, DA620172
      Consensus CDS
      CCDS11087.1
      UniProtKB/Swiss-Prot
      A8K8J8, Q14538, Q6PIW3, Q8IUN9
      Related
      ENSP00000254868.4, ENST00000254868.8
      Conserved Domains (2) summary
      cd03590
      Location:181 → 305
      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)
      pfam03954
      Location:18 → 170
      Lectin_N; Hepatic lectin, N-terminal domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

      Range
      7074537..7080251 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011523615.2 → XP_011521917.1  C-type lectin domain family 10 member A isoform X2

      Conserved Domains (2) summary
      cd03590
      Location:184 → 304
      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)
      pfam03954
      Location:18 → 170
      Lectin_N; Hepatic lectin, N-terminal domain

    2. XM_011523613.2 → XP_011521915.1  C-type lectin domain family 10 member A isoform X1

      See identical proteins and their annotated locations for XP_011521915.1

      Conserved Domains (2) summary
      cd03590
      Location:184 → 308
      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)
      pfam03954
      Location:18 → 170
      Lectin_N; Hepatic lectin, N-terminal domain

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      6975209..6980923 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054314701.1 → XP_054170676.1  C-type lectin domain family 10 member A isoform X2

    2. XM_054314700.1 → XP_054170675.1  C-type lectin domain family 10 member A isoform X1

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8IUN9.1 GenPept UniProtKB/Swiss-Prot:Q8IUN9

    Gene LinkOut

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

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