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    CLEC4C C-type lectin domain family 4 member C [ Homo sapiens (human) ]

    Gene ID: 170482, updated on 17-Jun-2024

    Summary

    Official Symbol
    CLEC4Cprovided by HGNC
    Official Full Name
    C-type lectin domain family 4 member Cprovided by HGNC
    Primary source
    HGNC:HGNC:13258
    See related
    Ensembl:ENSG00000198178 MIM:606677; AllianceGenome:HGNC:13258
    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
    DLEC; HECL; BDCA2; CD303; BDCA-2; CLECSF7; CLECSF11; PRO34150
    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 play a role in dendritic cell function. Two transcript variants encoding distinct isoforms have been identified for this gene. [provided by RefSeq, Jul 2008]
    Expression
    Biased expression in lymph node (RPKM 1.5), spleen (RPKM 0.9) and 6 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See CLEC4C in Genome Data Viewer
    Location:
    12p13.31
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (7729383..7749541, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (7744033..7766234, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (7881979..7902137, complement)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:7846215-7846852 Neighboring gene growth differentiation factor 3 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:7856907-7857580 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:7860307-7860932 Neighboring gene developmental pluripotency associated 3 Neighboring gene MPRA-validated peak1561 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5920 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5921 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5922 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:7918923-7919522 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:7919523-7920122 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:7924892-7925059 Neighboring gene NANOG neighbor homeobox Neighboring gene NANOG 5' regulatory region Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr12:7950942-7951507 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:7951508-7952074 Neighboring gene Nanog homeobox

    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 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 surface glycoprotein gp120 env HIV-1 gp120-mediated inhibition of IFN-alpha production involves CD4 and BDCA2 in plasmacytoid dendritic cells PubMed
    env HIV-1 gp120 monomers and trimers bind to BDCA2 in transfected cells 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

    Clone Names

    • MGC125789, MGC125791, MGC125792, MGC125793

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables carbohydrate binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    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 antifungal innate immune response IBA
    Inferred from Biological aspect of Ancestor
    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 ficolin-1-rich granule membrane TAS
    Traceable Author Statement
    more info
     
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     
    located_in secretory granule membrane TAS
    Traceable Author Statement
    more info
     
    located_in tertiary granule membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    C-type lectin domain family 4 member C
    Names
    C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 11
    C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 7
    C-type lectin superfamily member 7
    blood dendritic cell antigen 2 protein
    dendritic cell lectin b
    dendritic lectin

    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.

    mRNA and Protein(s)

    1. NM_001371390.1NP_001358319.1  C-type lectin domain family 4 member C isoform 1

      Status: REVIEWED

      Source sequence(s)
      AC006517, AY358223
      Consensus CDS
      CCDS8583.1
      UniProtKB/Swiss-Prot
      D3DUU3, Q3T1C3, Q6UXS8, Q8WTT0, Q8WXX8
      UniProtKB/TrEMBL
      B3KV04
      Related
      ENSP00000353500.3, ENST00000360345.8
      Conserved Domains (1) summary
      cd03590
      Location:83208
      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)
    2. NM_001371391.1NP_001358320.1  C-type lectin domain family 4 member C isoform 3

      Status: REVIEWED

      Source sequence(s)
      AC006517
      UniProtKB/TrEMBL
      B3KV04
      Conserved Domains (1) summary
      cd03590
      Location:46171
      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)
    3. NM_130441.3NP_569708.1  C-type lectin domain family 4 member C isoform 1

      See identical proteins and their annotated locations for NP_569708.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript, and encodes the longest isoform (1).
      Source sequence(s)
      AC006517, AF293615
      Consensus CDS
      CCDS8583.1
      UniProtKB/Swiss-Prot
      D3DUU3, Q3T1C3, Q6UXS8, Q8WTT0, Q8WXX8
      UniProtKB/TrEMBL
      B3KV04
      Related
      ENSP00000440428.1, ENST00000542353.5
      Conserved Domains (1) summary
      cd03590
      Location:83208
      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)
    4. NM_203503.2NP_987099.1  C-type lectin domain family 4 member C isoform 2

      See identical proteins and their annotated locations for NP_987099.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2), also known as DLEC-beta, 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)
      AC006517, AF293615, AF325460
      Consensus CDS
      CCDS8584.1
      UniProtKB/TrEMBL
      B3KV04
      Related
      ENSP00000445338.1, ENST00000540085.5
      Conserved Domains (1) summary
      cd03590
      Location:52177
      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)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      7729383..7749541 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_024448873.2XP_024304641.1  C-type lectin domain family 4 member C isoform X1

      UniProtKB/Swiss-Prot
      D3DUU3, Q3T1C3, Q6UXS8, Q8WTT0, Q8WXX8
      UniProtKB/TrEMBL
      B3KV04
      Conserved Domains (1) summary
      cd03590
      Location:83208
      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)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      7744033..7766234 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054371339.1XP_054227314.1  C-type lectin domain family 4 member C isoform X2

      UniProtKB/TrEMBL
      B3KV04
    2. XM_054371337.1XP_054227312.1  C-type lectin domain family 4 member C isoform X1

      UniProtKB/Swiss-Prot
      D3DUU3, Q3T1C3, Q6UXS8, Q8WTT0, Q8WXX8
      UniProtKB/TrEMBL
      B3KV04
    3. XM_054371338.1XP_054227313.1  C-type lectin domain family 4 member C isoform X1

      UniProtKB/Swiss-Prot
      D3DUU3, Q3T1C3, Q6UXS8, Q8WTT0, Q8WXX8
      UniProtKB/TrEMBL
      B3KV04