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CLEC5A C-type lectin domain containing 5A [ Homo sapiens (human) ]

Gene ID: 23601, updated on 1-Jun-2020

Summary

Official Symbol
CLEC5Aprovided by HGNC
Official Full Name
C-type lectin domain containing 5Aprovided by HGNC
Primary source
HGNC:HGNC:2054
See related
Ensembl:ENSG00000258227 MIM:604987
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
MDL1; MDL-1; CLECSF5
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 II transmembrane protein interacts with dnax-activation protein 12 and may play a role in cell activation. Alternative splice variants have been described but their full-length sequence has not been determined. [provided by RefSeq, Jul 2008]
Expression
Biased expression in bone marrow (RPKM 12.6), appendix (RPKM 4.1) and 6 other tissues See more
Orthologs

Genomic context

See CLEC5A in Genome Data Viewer
Location:
7q34
Exon count:
7
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (141927356..141947009, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (141627157..141646783, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene olfactory receptor family 9 subfamily N member 1 pseudogene Neighboring gene olfactory receptor family 9 subfamily A member 4 Neighboring gene taste 2 receptor member 38 Neighboring gene maltase-glucoamylase

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?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC138304

Gene Ontology Provided by GOA

Function Evidence Code Pubs
carbohydrate binding IEA
Inferred from Electronic Annotation
more info
 
virus receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
virus receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
cellular defense response TAS
Traceable Author Statement
more info
PubMed 
innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
innate immune response IDA
Inferred from Direct Assay
more info
PubMed 
innate immune response TAS
Traceable Author Statement
more info
 
myeloid cell differentiation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of apoptotic process ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of myeloid cell apoptotic process IEA
Inferred from Electronic Annotation
more info
 
neutrophil degranulation TAS
Traceable Author Statement
more info
 
osteoblast development ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of cytokine secretion IEA
Inferred from Electronic Annotation
more info
 
signal transduction TAS
Traceable Author Statement
more info
PubMed 
viral entry into host cell IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cell surface ISS
Inferred from Sequence or Structural Similarity
more info
 
cytosol IDA
Inferred from Direct Assay
more info
 
integral component of plasma membrane TAS
Traceable Author Statement
more info
PubMed 
plasma membrane IDA
Inferred from Direct Assay
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 
specific granule membrane TAS
Traceable Author Statement
more info
 
tertiary granule membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
C-type lectin domain family 5 member A
Names
C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 5
C-type lectin superfamily member 5
myeloid DAP12-associating lectin-1

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.

mRNA and Protein(s)

  1. NM_001301167.2NP_001288096.1  C-type lectin domain family 5 member A isoform 2

    See identical proteins and their annotated locations for NP_001288096.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the central coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.
    Source sequence(s)
    AC073647, AK295200, AK307095
    Consensus CDS
    CCDS75670.1
    UniProtKB/TrEMBL
    Q14DL9
    Related
    ENSP00000446890.2, ENST00000551012.6
    Conserved Domains (1) summary
    cd03593
    Location:48162
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)
  2. NM_013252.3NP_037384.1  C-type lectin domain family 5 member A isoform 1

    See identical proteins and their annotated locations for NP_037384.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AI418484, AJ271684, BQ005467, BQ446122
    Consensus CDS
    CCDS5870.1
    UniProtKB/Swiss-Prot
    Q9NY25
    UniProtKB/TrEMBL
    A4D1U7
    Related
    ENSP00000449999.1, ENST00000546910.6
    Conserved Domains (1) summary
    cd03593
    Location:71185
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

    Range
    141927356..141947009 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017011917.1XP_016867406.1  C-type lectin domain family 5 member A isoform X4

  2. XM_017011915.1XP_016867404.1  C-type lectin domain family 5 member A isoform X1

  3. XM_011515995.2XP_011514297.1  C-type lectin domain family 5 member A isoform X3

    See identical proteins and their annotated locations for XP_011514297.1

    Conserved Domains (1) summary
    cd03593
    Location:28142
    CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)
  4. XM_017011916.2XP_016867405.1  C-type lectin domain family 5 member A isoform X2

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