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    CLEC18A C-type lectin domain family 18 member A [ Homo sapiens (human) ]

    Gene ID: 348174, updated on 10-Dec-2024

    Summary

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    Official Symbol
    CLEC18Aprovided by HGNC
    Official Full Name
    C-type lectin domain family 18 member Aprovided by HGNC
    Primary source
    HGNC:HGNC:30388
    See related
    Ensembl:ENSG00000157322 MIM:616571; AllianceGenome:HGNC:30388
    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
    MRCL; MRCL1; MRLP2
    Summary
    This is one of three closely related paralogous genes on chromosome 16 encoding secreted proteins containing C-type lectin domains. These domains bind to carbohydrates in the presence of calcium, and may be involved in cell adhesion, immune response and apoptosis. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Sep 2012]
    Expression
    Biased expression in kidney (RPKM 14.8), testis (RPKM 4.0) and 1 other tissue See more
    Orthologs
    all
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    Genomic context

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    See CLEC18A in Genome Data Viewer
    Location:
    16q22.1
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (69943519..69966623)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (75749365..75773415)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (69984420..69997889)

    Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:69796040-69796618 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7667 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11045 Neighboring gene non-POU domain containing, octamer-binding pseudogene 1 Neighboring gene WW domain containing E3 ubiquitin protein ligase 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11046 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11047 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr16:69924551-69925074 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr16:69950984-69952183 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:69964206-69964363 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:69967565-69967755 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:69983944-69984557 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:69984558-69985170 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:69986397-69987010 Neighboring gene microRNA 140 Neighboring gene PDXDC2P-NPIPB14P readthrough, transcribed pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:70006369-70006869 Neighboring gene MPRA-validated peak2633 silencer Neighboring gene nuclear pore complex interacting protein family member B14, pseudogene Neighboring gene pyridoxal dependent decarboxylase domain containing 2, pseudogene Neighboring gene microRNA 1972-2

    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
    • 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. Human rs75776403 polymorphism links differential phenotypic and clinical outcomes to a CLEC18A p.T151M-driven multiomics. Hsu YW, et al. J Biomed Sci, 2022 Jun 18. PMID 35717171, Free PMC Article
    2. Association of C-type lectin 18 levels with extrahepatic manifestations in chronic HCV infection. Liao TL, et al. Sci Rep, 2018 Nov 23. PMID 30470801, Free PMC Article
    3. The human C-type lectin 18 is a potential biomarker in patients with chronic hepatitis B virus infection. Tsai TY, et al. J Biomed Sci, 2018 Jul 28. PMID 30055605, Free PMC Article
    4. Endosomal TLR3 co-receptor CLEC18A enhances host immune response to viral infection. Huang YL, et al. Commun Biol, 2021 Feb 18. PMID 33603190, Free PMC Article
    5. Human CLEC18 Gene Cluster Contains C-type Lectins with Differential Glycan-binding Specificity. Huang YL, et al. J Biol Chem, 2015 Aug 28. PMID 26170455, Free PMC Article

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Human rs75776403 polymorphism links differential phenotypic and clinical outcomes to a CLEC18A p.T151M-driven multiomics.
      Title: Human rs75776403 polymorphism links differential phenotypic and clinical outcomes to a CLEC18A p.T151M-driven multiomics.
    2. Endosomal TLR3 co-receptor CLEC18A enhances host immune response to viral infection.
      Title: Endosomal TLR3 co-receptor CLEC18A enhances host immune response to viral infection.
    3. High CLEC18 serum levels were associated with chronic HCV infection in rheumatic diseases.
      Title: Association of C-type lectin 18 levels with extrahepatic manifestations in chronic HCV infection.
    4. The human C-type lectin 18 (clec18) gene cluster, which contains three clec18a, clec18b, and clec18c loci, is located in human chromosome 16q22.
      Title: Human CLEC18 Gene Cluster Contains C-type Lectins with Differential Glycan-binding Specificity.
    5. Plasma CLEC18 levels were correlated with the stage of HBV infection and could predict HBeAg loss and seroconversion in the patients with chronic hepatitis B (CHB) undergoing NUC therapy
      Title: The human C-type lectin 18 is a potential biomarker in patients with chronic hepatitis B virus infection.
    Submit: New GeneRIF Correction

    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)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ77955, MGC164804

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables polysaccharide binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables polysaccharide binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in Golgi apparatus TAS
    Traceable Author Statement
    more info
    		 PubMed 
    located_in endoplasmic reticulum TAS
    Traceable Author Statement
    more info
    		 PubMed 
    located_in endosome TAS
    Traceable Author Statement
    more info
    		 PubMed 
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular space IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    C-type lectin domain family 18 member A
    Names
    mannose receptor-like 1
    mannose receptor-like protein 2
    mannose receptor-like protein 3

    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.

    mRNA and Protein(s)

    1. NM_001136214.4 → NP_001129686.1  C-type lectin domain family 18 member A precursor

      See identical proteins and their annotated locations for NP_001129686.1

      Status: REVIEWED

      Source sequence(s)
      AC026468
      Consensus CDS
      CCDS10886.1
      UniProtKB/Swiss-Prot
      A5D8T8, A8K1G9, Q6DCB3, Q7Z5K9, Q96HH2
      UniProtKB/TrEMBL
      F8W692
      Related
      ENSP00000484176.1, ENST00000615430.4
      Conserved Domains (2) summary
      cd00037
      Location:310 → 434
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
      cd05380
      Location:50 → 183
      CAP_euk; Eukaryotic CAP (cysteine-rich secretory proteins, antigen 5, and pathogenesis-related 1 proteins) domain proteins

    2. NM_001271197.3 → NP_001258126.1  C-type lectin domain family 18 member A precursor

      See identical proteins and their annotated locations for NP_001258126.1

      Status: REVIEWED

      Source sequence(s)
      AC026468
      Consensus CDS
      CCDS10886.1
      UniProtKB/Swiss-Prot
      A5D8T8, A8K1G9, Q6DCB3, Q7Z5K9, Q96HH2
      UniProtKB/TrEMBL
      F8W692
      Related
      ENSP00000454685.1, ENST00000568461.5
      Conserved Domains (2) summary
      cd00037
      Location:310 → 434
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
      cd05380
      Location:50 → 183
      CAP_euk; Eukaryotic CAP (cysteine-rich secretory proteins, antigen 5, and pathogenesis-related 1 proteins) domain proteins

    3. NM_001370523.4 → NP_001357452.1  C-type lectin domain family 18 member A precursor

      Status: REVIEWED

      Source sequence(s)
      AC026468
      Consensus CDS
      CCDS10886.1
      UniProtKB/Swiss-Prot
      A5D8T8, A8K1G9, Q6DCB3, Q7Z5K9, Q96HH2
      UniProtKB/TrEMBL
      F8W692
      Related
      ENSP00000288040.6, ENST00000288040.11
      Conserved Domains (2) summary
      cd00037
      Location:310 → 434
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
      cd05380
      Location:50 → 183
      CAP_euk; Eukaryotic CAP (cysteine-rich secretory proteins, antigen 5, and pathogenesis-related 1 proteins) domain proteins

    4. NM_182619.5 → NP_872425.2  C-type lectin domain family 18 member A precursor

      See identical proteins and their annotated locations for NP_872425.2

      Status: REVIEWED

      Source sequence(s)
      AC026468
      Consensus CDS
      CCDS10886.1
      UniProtKB/Swiss-Prot
      A5D8T8, A8K1G9, Q6DCB3, Q7Z5K9, Q96HH2
      UniProtKB/TrEMBL
      F8W692
      Related
      ENSP00000377304.2, ENST00000393701.6
      Conserved Domains (2) summary
      cd00037
      Location:310 → 434
      CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
      cd05380
      Location:50 → 183
      CAP_euk; Eukaryotic CAP (cysteine-rich secretory proteins, antigen 5, and pathogenesis-related 1 proteins) domain proteins

    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_000016.10 Reference GRCh38.p14 Primary Assembly

      Range
      69943519..69966623
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047434062.1 → XP_047290018.1  C-type lectin domain family 18 member A isoform X2

      UniProtKB/Swiss-Prot
      A5D8T8, A8K1G9, Q6DCB3, Q7Z5K9, Q96HH2
      UniProtKB/TrEMBL
      F8W692

    2. XM_047434059.1 → XP_047290015.1  C-type lectin domain family 18 member A isoform X1

      UniProtKB/TrEMBL
      F8W692

    3. XM_047434060.1 → XP_047290016.1  C-type lectin domain family 18 member A isoform X1

      UniProtKB/TrEMBL
      F8W692

    4. XM_047434058.1 → XP_047290014.1  C-type lectin domain family 18 member A isoform X1

      UniProtKB/TrEMBL
      F8W692

    5. XM_017023208.3 → XP_016878697.1  C-type lectin domain family 18 member A isoform X3

    6. XM_047434061.1 → XP_047290017.1  C-type lectin domain family 18 member A isoform X1

      UniProtKB/TrEMBL
      F8W692

    7. XM_047434064.1 → XP_047290020.1  C-type lectin domain family 18 member A isoform X5

      UniProtKB/TrEMBL
      F8W692

    8. XM_047434063.1 → XP_047290019.1  C-type lectin domain family 18 member A isoform X4

      UniProtKB/TrEMBL
      B4DPF2

    9. XM_047434065.1 → XP_047290021.1  C-type lectin domain family 18 member A isoform X6

      UniProtKB/TrEMBL
      Q7Z4U9

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060940.1 Alternate T2T-CHM13v2.0

      Range
      75749365..75773415
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047446599.1 → XP_047302555.1  C-type lectin domain family 18 member A isoform X7

      UniProtKB/TrEMBL
      F5H550

    2. XM_047446602.1 → XP_047302558.1  C-type lectin domain family 18 member A isoform X2

      UniProtKB/TrEMBL
      F5H550

    3. XM_047446605.1 → XP_047302561.1  C-type lectin domain family 18 member A isoform X8

      UniProtKB/TrEMBL
      F5H550

    4. XM_047446600.1 → XP_047302556.1  C-type lectin domain family 18 member A isoform X7

      UniProtKB/TrEMBL
      F5H550

    5. XM_047446601.1 → XP_047302557.1  C-type lectin domain family 18 member A isoform X7

      UniProtKB/TrEMBL
      F5H550
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A5D8T8.3 GenPept UniProtKB/Swiss-Prot:A5D8T8

    Gene LinkOut

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