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

Gene ID: 348174, updated on 2-Nov-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 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

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

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

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

  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

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

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

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

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

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

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

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

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

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

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