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CD84 CD84 molecule [ Homo sapiens (human) ]

Gene ID: 8832, updated on 1-Jun-2020

Summary

Official Symbol
CD84provided by HGNC
Official Full Name
CD84 moleculeprovided by HGNC
Primary source
HGNC:HGNC:1704
See related
Ensembl:ENSG00000066294 MIM:604513
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

Genomic context

See CD84 in Genome Data Viewer
Location:
1q23.3
Exon count:
9
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (160541094..160579516, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (160510884..160549306, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene SLAM family member 6 Neighboring gene uncharacterized LOC105371468 Neighboring gene Sharpr-MPRA regulatory region 7182 Neighboring gene signaling lymphocytic activation molecule family member 1 Neighboring gene uncharacterized LOC107985220 Neighboring gene SET pseudogene 9

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?

Phenotypes

NHGRI GWAS Catalog

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • DKFZp781E2378

Gene Ontology Provided by GOA

Function Evidence Code Pubs
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
integral component of plasma membrane TAS
Traceable Author Statement
more info
PubMed 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
plasma membrane IDA
Inferred from Direct Assay
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

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)

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_001184879.2NP_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
    Q9UIB8
    Related
    ENSP00000312367.4, ENST00000311224.8
    Conserved Domains (2) summary
    cd05775
    Location:31129
    Ig_SLAM-CD84_like_N; N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family, CD84_like
    pfam13927
    Location:134197
    Ig_3; Immunoglobulin domain
  2. NM_001184881.2NP_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:31129
    Ig_SLAM-CD84_like_N; N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family, CD84_like
    pfam13927
    Location:134197
    Ig_3; Immunoglobulin domain
  3. NM_001184882.1NP_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:2083
    Ig_3; Immunoglobulin domain
  4. NM_001330742.2NP_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_003874.4NP_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
    ENSP00000357033.3, ENST00000368054.7
    Conserved Domains (2) summary
    cd05775
    Location:31129
    Ig_SLAM-CD84_like_N; N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family, CD84_like
    pfam13927
    Location:134197
    Ig_3; Immunoglobulin domain

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_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    160541094..160579516 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011510095.2XP_011508397.1  SLAM family member 5 isoform X1

    Conserved Domains (1) summary
    pfam13927
    Location:2083
    Ig_3; Immunoglobulin domain

RNA

  1. XR_002957960.1 RNA Sequence

  2. XR_921991.3 RNA Sequence

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