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

Gene ID: 10462, updated on 21-Dec-2019

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
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
109.20191205 current GRCh38.p13 (GCF_000001405.39) 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 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

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
    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, ENST00000416562.6
    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_006344.4NP_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
    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: Homo sapiens Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p13 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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