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

    Gene ID: 10462, updated on 28-Oct-2024

    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; 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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    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

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What'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 PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    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

    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)

    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.

    Genomic

    1. NG_029878.1 RefSeqGene

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

    mRNA and Protein(s)

    1. NM_001330070.2NP_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: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_006344.4NP_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: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_182906.4NP_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: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: 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_011523615.2XP_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_011523613.2XP_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

    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_054314701.1XP_054170676.1  C-type lectin domain family 10 member A isoform X2

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