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CD84 CD84 molecule [ Homo sapiens (human) ]

Gene ID: 8832, updated on 3-Nov-2024

Summary

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Official Symbol
CD84provided by HGNC
Official Full Name
CD84 moleculeprovided by HGNC
Primary source
HGNC:HGNC:1704
See related
Ensembl:ENSG00000066294 MIM:604513; AllianceGenome:HGNC:1704
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LY9B; hCD84; mCD84; SLAMF5
Summary
This gene encodes a membrane glycoprotein that is a member of the signaling lymphocyte activation molecule (SLAM) family. This family forms a subset of the larger CD2 cell-surface receptor Ig superfamily. The encoded protein is a homophilic adhesion molecule that is expressed in numerous immune cells types and is involved in regulating receptor-mediated signaling in those cells. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Oct 2011]
Expression
Broad expression in lymph node (RPKM 12.0), appendix (RPKM 11.0) and 19 other tissues See more
Orthologs
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Genomic context

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See CD84 in Genome Data Viewer
Location:
1q23.3
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (160541098..160579496, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (159678187..159716598, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (160510888..160549286, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105371467 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1924 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1925 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1926 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1927 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1928 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr1:160460168-160461367 Neighboring gene SLAM family member 6 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1929 Neighboring gene uncharacterized LOC105371468 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1930 Neighboring gene Sharpr-MPRA regulatory region 7182 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1931 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1461 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1932 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1933 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1934 Neighboring gene NANOG hESC enhancer GRCh37_chr1:160567464-160567965 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1935 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1936 Neighboring gene signaling lymphocytic activation molecule family member 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1937 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1938 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1939 Neighboring gene uncharacterized LOC107985220 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1940 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:160621837-160622647 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:160622648-160623458 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1942 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:160635284-160635845 Neighboring gene SET pseudogene 9

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 macrophage maturation and heterogeneity: analysis with a newly generated set of monoclonal antibodies to differentiation antigens. Andreesen R, et al. Blood, 1986 May. PMID 3008886
  2. CD84 functions as a homophilic adhesion molecule and enhances IFN-gamma secretion: adhesion is mediated by Ig-like domain 1. Martin M, et al. J Immunol, 2001 Oct 1. PMID 11564780
  3. CD84 expression on human hematopoietic progenitor cells. Zaiss M, et al. Exp Hematol, 2003 Sep. PMID 12962726
  4. Bone marrow dendritic cells support the survival of chronic lymphocytic leukemia cells in a CD84 dependent manner. Barak AF, et al. Oncogene, 2020 Feb. PMID 31772329
  5. Differential expression of SAP and EAT-2-binding leukocyte cell-surface molecules CD84, CD150 (SLAM), CD229 (Ly9) and CD244 (2B4). Romero X, et al. Tissue Antigens, 2004 Aug. PMID 15245368

See all (40) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Terminal deoxynucleotidyl transferase and CD84 identify human multi-potent lymphoid progenitors.
    Title: Terminal deoxynucleotidyl transferase and CD84 identify human multi-potent lymphoid progenitors.
  2. CD84 is a regulator of the immunosuppressive microenvironment in multiple myeloma.
    Title: CD84 is a regulator of the immunosuppressive microenvironment in multiple myeloma.
  3. Bone marrow dendritic cells support the survival of chronic lymphocytic leukemia cells in a CD84 dependent manner.
    Title: Bone marrow dendritic cells support the survival of chronic lymphocytic leukemia cells in a CD84 dependent manner.
  4. Among 29 immune and inflammatory proteins, CXCL1, CD84 and TNFRSF10A were associated with early post-acute coronary syndrome (ACS) after initial ACS-admission
    Title: The temporal pattern of immune and inflammatory proteins prior to a recurrent coronary event in post-acute coronary syndrome patients.
  5. our experiments identified SLAMF5 as a novel cell surface receptor modulator of autophagy and revealed an unexpected link between the SLAMF and IRF8 signaling pathways, both implicated in multiple human pathologies.
    Title: Signaling Lymphocyte Activation Molecule Family 5 Enhances Autophagy and Fine-Tunes Cytokine Response in Monocyte-Derived Dendritic Cells via Stabilization of Interferon Regulatory Factor 8.
  6. Results show that CD84 expressed on CLL cells interact with CD84 expressed on cells in their microenvironment, inducing cell survival in both sides.
    Title: CD84 mediates CLL-microenvironment interactions.
  7. up-regulated in Kawasaki disease arteriopathy
    Title: CD84 is markedly up-regulated in Kawasaki disease arteriopathy.
  8. data show that overexpression of CD84 in CLL is an important survival mechanism that appears to be an early event in the pathogenesis of the disease
    Title: CD84 is a survival receptor for CLL cells.
  9. These findings support a model in which CD84 genotypes and/or expression may serve as a useful biomarker for response to etanercept treatment in RA patients of European ancestry
    Title: Genome-wide association study and gene expression analysis identifies CD84 as a predictor of response to etanercept therapy in rheumatoid arthritis.
  10. CD84 is highly expressed in mast cells and that it contributes to the regulation of FcepsilonRI signaling
    Title: CD84 negatively regulates IgE high-affinity receptor signaling in human mast cells.
Submit: New GeneRIF Correction See all GeneRIFs (13)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study and gene expression analysis identifies CD84 as a predictor of response to etanercept therapy in rheumatoid arthritis.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • DKFZp781E2378

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in T cell activation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in adaptive immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in autophagy IEA
Inferred from Electronic Annotation
more info
  
involved_in defense response TAS
Traceable Author Statement
more info
 PubMed 
involved_in homophilic cell adhesion via plasma membrane adhesion molecules TAS
Traceable Author Statement
more info
 PubMed 
involved_in immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in innate immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of granulocyte macrophage colony-stimulating factor production IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of interleukin-18 production IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of mast cell activation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of mast cell degranulation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of store-operated calcium entry IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
  
located_in plasma membrane IDA
Inferred from Direct Assay
more info
  
located_in plasma membrane TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
SLAM family member 5
Names
CD84 antigen (leukocyte antigen)
cell surface antigen MAX.3
hly9-beta
leucocyte differentiation antigen CD84
leukocyte antigen CD84
leukocyte differentiation antigen CD84
signaling lymphocytic activation molecule 5

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_001184879.2 → NP_001171808.1  SLAM family member 5 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001171808.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and it encodes the longest protein (isoform 1). This variant has also been called CD84a.
    Source sequence(s)
    AF054816, AL138930, CA448708
    Consensus CDS
    CCDS53396.1
    UniProtKB/Swiss-Prot
    B2R8T1, B7Z3R8, O15430, O95266, O95660, Q5H9R1, Q6FHA8, Q8WLP1, Q8WWI8, Q9UF04, Q9UIB6, Q9UIB7, Q9UIB8, Q9UIT7
    Related
    ENSP00000312367.4, ENST00000311224.8
    Conserved Domains (2) summary
    cd05775
    Location:31 → 129
    Ig_SLAM-CD84_like_N; N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family, CD84_like
    pfam13927
    Location:134 → 197
    Ig_3; Immunoglobulin domain

  2. NM_001184881.2 → NP_001171810.1  SLAM family member 5 isoform 3 precursor

    See identical proteins and their annotated locations for NP_001171810.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks two alternate segments, one of which shifts the reading frame, compared to variant 1. The resulting protein (isoform 3) has a shorter and distinct C-terminus when it is compared to isoform 1. This variant has also been called CD84d.
    Source sequence(s)
    AF054817, AL138930, CA448708
    Consensus CDS
    CCDS53397.1
    UniProtKB/Swiss-Prot
    Q9UIB8
    Related
    ENSP00000357030.3, ENST00000368051.3
    Conserved Domains (2) summary
    cd05775
    Location:31 → 129
    Ig_SLAM-CD84_like_N; N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family, CD84_like
    pfam13927
    Location:134 → 197
    Ig_3; Immunoglobulin domain

  3. NM_001184882.2 → NP_001171811.1  SLAM family member 5 isoform 4 precursor

    See identical proteins and their annotated locations for NP_001171811.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks two alternate segments, compared to variant 1. The resulting protein (isoform 4) is shorter when it is compared to isoform 1.
    Source sequence(s)
    AK296290, AL138930, CA448708
    Consensus CDS
    CCDS53395.1
    UniProtKB/Swiss-Prot
    Q9UIB8
    Related
    ENSP00000442845.1, ENST00000534968.5
    Conserved Domains (1) summary
    pfam13927
    Location:20 → 83
    Ig_3; Immunoglobulin domain

  4. NM_001330742.2 → NP_001317671.1  SLAM family member 5 isoform 5 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (5) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AL138930
    Consensus CDS
    CCDS81388.1
    UniProtKB/Swiss-Prot
    Q9UIB8
    Related
    ENSP00000357027.3, ENST00000368048.7

  5. NM_003874.4 → NP_003865.1  SLAM family member 5 isoform 2 precursor

    See identical proteins and their annotated locations for NP_003865.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate, in-frame segment, compared to variant 1. The resulting protein (isoform 2) is shorter when it is compared to isoform 1. This variant has also been called CD84c.
    Source sequence(s)
    AL138930, BC020063, CA448708
    Consensus CDS
    CCDS1206.1
    UniProtKB/Swiss-Prot
    Q9UIB8
    Related
    ENSP00000357033.4, ENST00000368054.8
    Conserved Domains (2) summary
    cd05775
    Location:31 → 129
    Ig_SLAM-CD84_like_N; N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family, CD84_like
    pfam13927
    Location:134 → 197
    Ig_3; Immunoglobulin domain

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    160541098..160579496 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011510095.3 → XP_011508397.1  SLAM family member 5 isoform X1

    Conserved Domains (1) summary
    cl11960
    Location:36 → 86
    Ig; Immunoglobulin domain

RNA

  1. XR_921991.4 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    159678187..159716598 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054339420.1 → XP_054195395.1  SLAM family member 5 isoform X1

RNA

  1. XR_008486188.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9UIB8.1 GenPept UniProtKB/Swiss-Prot:Q9UIB8

Gene LinkOut

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