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

    Gene ID: 10462, updated on 5-Aug-2018

    Summary

    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; Vega:OTTHUMG00000177939
    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

    Genomic context

    See CLEC10A in Genome Data Viewer
    Location:
    17p13.1
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    109 current GRCh38.p12 (GCF_000001405.38) 17 NC_000017.11 (7074537..7080307, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (6977856..6983626, complement)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene solute carrier family 16 member 13 Neighboring gene solute carrier family 16 member 11 Neighboring gene asialoglycoprotein receptor 2 Neighboring gene uncharacterized LOC105371512

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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 Jun 15 11:32:44 2016

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    HIV-1 interactions

    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 BioSystems

    • C-type lectin receptors (CLRs), organism-specific biosystem (from REACTOME)
      C-type lectin receptors (CLRs), organism-specific biosystemPathogen recognition is central to the induction of T cell differentiation. Groups of pathogens share similar structures known as pathogen-associated molecular patterns (PAMPs), which are recognised ...
    • Dectin-2 family, organism-specific biosystem (from REACTOME)
      Dectin-2 family, organism-specific biosystemDendritic cell-associated C-type lectin-2 (Dectin-2) family of C-type lectin receptors (CLRs) includes Dectin-2 (CLEC6A), blood dendritic antigen 2 (BDCA2/CLEC4C), macrophage C-type lectin (MCL/CLEC4...
    • Immune System, organism-specific biosystem (from REACTOME)
      Immune System, organism-specific biosystemHumans are exposed to millions of potential pathogens daily, through contact, ingestion, and inhalation. Our ability to avoid infection depends on the adaptive immune system and during the first crit...
    • Innate Immune System, organism-specific biosystem (from REACTOME)
      Innate Immune System, organism-specific biosystemInnate immunity encompases the nonspecific part of immunity tha are part of an individual's natural biologic makeup

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    adaptive immune response IEA
    Inferred from Electronic Annotation
    more info
     
    endocytosis IEA
    Inferred from Electronic Annotation
    more info
     
    innate immune response IEA
    Inferred from Electronic Annotation
    more info
     
    stimulatory C-type lectin receptor signaling pathway TAS
    Traceable Author Statement
    more info
     
    Component Evidence Code Pubs
    integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    plasma membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    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)

    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
      4975..10745
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001330070.1NP_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, ENST00000416562.6
      Conserved Domains (2) summary
      cd03590
      Location:154278
      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:18143
      Lectin_N; Hepatic lectin, N-terminal domain
    2. NM_006344.3NP_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, OTTHUMP00000258169, ENST00000571664.1, OTTHUMT00000439893
      Conserved Domains (2) summary
      cd03590
      Location:157281
      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:18143
      Lectin_N; Hepatic lectin, N-terminal domain
    3. NM_182906.3NP_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
      Q8IUN9
      Related
      ENSP00000254868.4, OTTHUMP00000258129, ENST00000254868.8, OTTHUMT00000439837
      Conserved Domains (2) summary
      cd03590
      Location:181305
      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:18170
      Lectin_N; Hepatic lectin, N-terminal domain

    RefSeqs of Annotated Genomes: Homo sapiens 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 GRCh38.p12 Primary Assembly

    Genomic

    1. NC_000017.11 Reference GRCh38.p12 Primary Assembly

      Range
      7074537..7080307 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

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

      Conserved Domains (2) summary
      cd03590
      Location:184304
      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:18170
      Lectin_N; Hepatic lectin, N-terminal domain
    2. XM_011523613.1XP_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:184308
      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:18170
      Lectin_N; Hepatic lectin, N-terminal domain
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