This gene encodes a member of the transmembrane 4 superfamily, also known as the tetraspanin family. Tetraspanins are cell surface glycoproteins with four transmembrane domains that form multimeric complexes with other cell surface proteins. The encoded protein functions in many cellular processes including differentiation, adhesion, and signal transduction, and expression of t... See more...

Aliases for CD9 Gene

Aliases for CD9 Gene

  • CD9 Molecule 2 3 5
  • TSPAN29 2 3 4
  • MRP-1 2 3 4
  • Cell Growth-Inhibiting Gene 2 Protein 3 4
  • Motility Related Protein-1 2 3
  • Leukocyte Antigen MIC3 3 4
  • CD9 Antigen (P24) 2 3
  • Tetraspanin-29 3 4
  • CD9 Antigen 3 4
  • 5H9 Antigen 3 4
  • MIC3 3 4
  • P24 2 4
  • Motility-Related Protein 4
  • BA-2/P24 Antigen 3
  • Antigen CD9 3
  • TSPAN-29 3
  • Tspan-29 4
  • DRAP-27 3
  • BTCC-1 3
  • CD9 5
  • BA2 2

External Ids for CD9 Gene

Previous HGNC Symbols for CD9 Gene

  • MIC3

Previous GeneCards Identifiers for CD9 Gene

  • GC12P006164
  • GC12P006284
  • GC12P006179
  • GC12P006308
  • GC12P006271
  • GC12P006313
  • GC12P006594

Summaries for CD9 Gene

Entrez Gene Summary for CD9 Gene

  • This gene encodes a member of the transmembrane 4 superfamily, also known as the tetraspanin family. Tetraspanins are cell surface glycoproteins with four transmembrane domains that form multimeric complexes with other cell surface proteins. The encoded protein functions in many cellular processes including differentiation, adhesion, and signal transduction, and expression of this gene plays a critical role in the suppression of cancer cell motility and metastasis. [provided by RefSeq, Jan 2011]

GeneCards Summary for CD9 Gene

CD9 (CD9 Molecule) is a Protein Coding gene. Diseases associated with CD9 include Diphtheria and Human Immunodeficiency Virus Infectious Disease. Among its related pathways are Fertilization and Response to elevated platelet cytosolic Ca2+. Gene Ontology (GO) annotations related to this gene include integrin binding. An important paralog of this gene is TSPAN2.

UniProtKB/Swiss-Prot Summary for CD9 Gene

  • Integral membrane protein associated with integrins, which regulates different processes, such as sperm-egg fusion, platelet activation and aggregation, and cell adhesion (PubMed:8478605, PubMed:14575715, PubMed:18541721). Present at the cell surface of oocytes and plays a key role in sperm-egg fusion, possibly by organizing multiprotein complexes and the morphology of the membrane required for the fusion (By similarity). In myoblasts, associates with CD81 and PTGFRN and inhibits myotube fusion during muscle regeneration (By similarity). In macrophages, associates with CD81 and beta-1 and beta-2 integrins, and prevents macrophage fusion into multinucleated giant cells specialized in ingesting complement-opsonized large particles (PubMed:12796480). Also prevents the fusion between mononuclear cell progenitors into osteoclasts in charge of bone resorption (By similarity). Acts as a receptor for PSG17 (By similarity). Involved in platelet activation and aggregation (PubMed:18541721). Regulates paranodal junction formation (By similarity). Involved in cell adhesion, cell motility and tumor metastasis (PubMed:8478605, PubMed:7511626).

Gene Wiki entry for CD9 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for CD9 Gene

Genomics for CD9 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for CD9 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CD9 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for CD9

Top Transcription factor binding sites by QIAGEN in the CD9 gene promoter:
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5
  • Egr-4
  • NF-kappaB1
  • STAT3

Genomic Locations for CD9 Gene

Genomic Locations for CD9 Gene
chr12:6,199,715-6,238,271
(GRCh38/hg38)
Size:
38,557 bases
Orientation:
Plus strand
chr12:6,308,881-6,347,437
(GRCh37/hg19)
Size:
38,557 bases
Orientation:
Plus strand

Genomic View for CD9 Gene

Genes around CD9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CD9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CD9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CD9 Gene

Proteins for CD9 Gene

  • Protein details for CD9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P21926-CD9_HUMAN
    Recommended name:
    CD9 antigen
    Protein Accession:
    P21926
    Secondary Accessions:
    • D3DUQ9
    • Q5J7W6
    • Q96ES4

    Protein attributes for CD9 Gene

    Size:
    228 amino acids
    Molecular mass:
    25416 Da
    Quaternary structure:
    • Forms both disulfide-linked homodimers and higher homooligomers as well as heterooligomers with other members of the tetraspanin family (PubMed:14556650). Interacts (via the second extracellular domain) with integrin ITGAV:ITGB3 (PubMed:19640571, PubMed:27993971). Interacts with integrin ITGA6:ITGB1; interaction takes place in oocytes and is involved in sperm-egg fusion (By similarity). Part of integrin-tetraspanin complexes composed of CD81, beta-1 and beta-2 integrins in the membrane of monocyte/macrophages (PubMed:12796480). Interacts with CD63; identified in a complex with CD63 and ITGB3 (PubMed:19640571). Associates with CR2/CD21 and with PTGFRN/CD9P1 (PubMed:11278880). Part of a complex composed of CD9, CD81, PTGFRN and IGSF8 (By similarity). Interacts directly with IGSF8 (PubMed:11504738). Interacts with PDPN; this interaction is homophilic and attenuates platelet aggregation and pulmonary metastasis induced by PDPN (PubMed:18541721). Interacts (on T cell side) with CD81 at immunological synapses between antigen-presenting cells and T cells (PubMed:23858057).

neXtProt entry for CD9 Gene

Post-translational modifications for CD9 Gene

  • Palmitoylated at a low, basal level in unstimulated platelets. The level of palmitoylation increases when platelets are activated by thrombin (in vitro). The protein exists in three forms with molecular masses between 22 and 27 kDa, and is known to carry covalently linked fatty acids (PubMed:11959120). Palmitoylation by ZDHHC2 regulates CD9 expression, association with other tetraspanin family proteins and function in cell adhesion (PubMed:18508921).
  • Glycosylation at Asn52 and Asn53
  • Modification sites at PhosphoSitePlus

Antibody Products

  • Abcam antibodies for CD9

Protein Products

  • Signalway Proteins for CD9
  • Abcam proteins for CD9

No data available for DME Specific Peptides for CD9 Gene

Domains & Families for CD9 Gene

Gene Families for CD9 Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • CD markers
  • Plasma proteins
  • Predicted membrane proteins
  • Transporters

Protein Domains for CD9 Gene

InterPro:
Blocks:
  • Transmembrane four family signature
ProtoNet:

Suggested Antigen Peptide Sequences for CD9 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ51032, highly similar to CD9 antigen (B4DPP0_HUMAN)
  • p24 (CD9_HUMAN)
  • Bladder cancer related CD9 variant (Q56CY1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P21926

UniProtKB/Swiss-Prot:

CD9_HUMAN :
  • Belongs to the tetraspanin (TM4SF) family.
Family:
  • Belongs to the tetraspanin (TM4SF) family.
genes like me logo Genes that share domains with CD9: view

Function for CD9 Gene

Molecular function for CD9 Gene

UniProtKB/Swiss-Prot Function:
Integral membrane protein associated with integrins, which regulates different processes, such as sperm-egg fusion, platelet activation and aggregation, and cell adhesion (PubMed:8478605, PubMed:14575715, PubMed:18541721). Present at the cell surface of oocytes and plays a key role in sperm-egg fusion, possibly by organizing multiprotein complexes and the morphology of the membrane required for the fusion (By similarity). In myoblasts, associates with CD81 and PTGFRN and inhibits myotube fusion during muscle regeneration (By similarity). In macrophages, associates with CD81 and beta-1 and beta-2 integrins, and prevents macrophage fusion into multinucleated giant cells specialized in ingesting complement-opsonized large particles (PubMed:12796480). Also prevents the fusion between mononuclear cell progenitors into osteoclasts in charge of bone resorption (By similarity). Acts as a receptor for PSG17 (By similarity). Involved in platelet activation and aggregation (PubMed:18541721). Regulates paranodal junction formation (By similarity). Involved in cell adhesion, cell motility and tumor metastasis (PubMed:8478605, PubMed:7511626).
GENATLAS Biochemistry:
cell differentiation antigen CD9 (p34),24kDa,membrane glycoprotein,single chain,identified by monoclonal antibodies ALB6,BLI16,FMC56

Phenotypes From GWAS Catalog for CD9 Gene

Gene Ontology (GO) - Molecular Function for CD9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005178 integrin binding IDA 12796480
GO:0005515 protein binding IPI 11278880
genes like me logo Genes that share ontologies with CD9: view
genes like me logo Genes that share phenotypes with CD9: view

Animal Models for CD9 Gene

MGI Knock Outs for CD9:
  • Cd9 Cd9<tm1Mek>
  • Cd9 Cd9<tm1Bcx>
  • Cd9 Cd9<tm1Kudo>

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CD9

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CD9 Gene

Localization for CD9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CD9 Gene

Cell membrane. Multi-pass membrane protein. Membrane. Multi-pass membrane protein. Secreted, extracellular exosome. Note=Present at the cell surface of oocytes. Accumulates in the adhesion area between the sperm and egg following interaction between IZUMO1 and its receptor IZUMO1R/JUNO. {ECO:0000250 UniProtKB:P40240}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CD9 gene
Compartment Confidence
plasma membrane 5
extracellular 5
endosome 3
cytoskeleton 2
mitochondrion 2
nucleus 2
endoplasmic reticulum 2
cytosol 2
lysosome 2
golgi apparatus 2
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Plasma membrane (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CD9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005615 extracellular space HDA 16502470
GO:0005886 plasma membrane NAS,TAS --
GO:0005887 integral component of plasma membrane TAS,NAS 2037603
GO:0005925 focal adhesion HDA 21423176
genes like me logo Genes that share ontologies with CD9: view

Pathways & Interactions for CD9 Gene

genes like me logo Genes that share pathways with CD9: view

Pathways by source for CD9 Gene

1 KEGG pathway for CD9 Gene

Gene Ontology (GO) - Biological Process for CD9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002576 platelet degranulation TAS --
GO:0007155 cell adhesion IEA,IDA 7511626
GO:0007338 single fertilization IEA --
GO:0007342 fusion of sperm to egg plasma membrane involved in single fertilization TAS --
GO:0007420 brain development IEA --
genes like me logo Genes that share ontologies with CD9: view

No data available for SIGNOR curated interactions for CD9 Gene

Drugs & Compounds for CD9 Gene

(39) Drugs for CD9 Gene - From: DrugBank and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
C31G Investigational Pharma Target 0

(29) Additional Compounds for CD9 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CD9: view

Transcripts for CD9 Gene

mRNA/cDNA for CD9 Gene

2 REFSEQ mRNAs :
18 NCBI additional mRNA sequence :
16 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for CD9

Alternative Splicing Database (ASD) splice patterns (SP) for CD9 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b · 9c ^ 10 ^ 11a · 11b ^ 12
SP1: - - - -
SP2: - - -
SP3: - - - - -
SP4: - - -
SP5: - -
SP6: - - - - - - -
SP7: - - - -
SP8: - - - - -

Relevant External Links for CD9 Gene

GeneLoc Exon Structure for
CD9

Expression for CD9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CD9 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CD9 Gene

This gene is overexpressed in Esophagus - Mucosa (x4.0).

Protein differential expression in normal tissues from HIPED for CD9 Gene

This gene is overexpressed in Nasal epithelium (12.9), Spinal cord (8.1), and Urine (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CD9 Gene



Protein tissue co-expression partners for CD9 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for CD9

SOURCE GeneReport for Unigene cluster for CD9 Gene:

Hs.114286

mRNA Expression by UniProt/SwissProt for CD9 Gene:

P21926-CD9_HUMAN
Tissue specificity: Detected in platelets (at protein level) (PubMed:19640571). Expressed by a variety of hematopoietic and epithelial cells (PubMed:19640571).

Evidence on tissue expression from TISSUES for CD9 Gene

  • Blood(4.7)
  • Nervous system(4.6)
  • Intestine(4.3)
  • Skin(4.1)
  • Lung(4.1)
  • Stomach(3.6)
  • Pancreas(3.6)
  • Kidney(3.5)
  • Spleen(3.4)
  • Heart(3.4)
  • Muscle(3.3)
  • Lymph node(3.2)
  • Liver(3.2)
  • Bone marrow(3.1)
  • Eye(3)
  • Thyroid gland(2.9)
  • Adrenal gland(2.9)
  • Urine(2.4)
  • Gall bladder(2.4)
  • Saliva(2.3)
  • Bone(2.2)
genes like me logo Genes that share expression patterns with CD9: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for CD9 Gene

Orthologs for CD9 Gene

This gene was present in the common ancestor of animals.

Orthologs for CD9 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia CD9 30 31
  • 99.56 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia CD9 30 31
  • 88.41 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia CD9 30 31
  • 87.32 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Cd9 30
  • 86.43 (n)
Oppossum
(Monodelphis domestica)
Mammalia -- 31
  • 86 (a)
OneToMany
-- 31
  • 70 (a)
OneToMany
-- 31
  • 55 (a)
OneToMany
Mouse
(Mus musculus)
Mammalia Cd9 30 17 31
  • 85.99 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia CD9 31
  • 75 (a)
OneToOne
Chicken
(Gallus gallus)
Aves CD9 30 31
  • 72.2 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia CD9 31
  • 50 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia cd9 30
  • 70.06 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.24740 30
Zebrafish
(Danio rerio)
Actinopterygii cd9a 30 31
  • 67.11 (n)
OneToMany
cd9b 31
  • 55 (a)
OneToMany
Dr.27131 30
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.9244 30
Fruit Fly
(Drosophila melanogaster)
Insecta Tsp96F 31
  • 24 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea tsp-9 31
  • 26 (a)
OneToMany
Species where no ortholog for CD9 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for CD9 Gene

ENSEMBL:
Gene Tree for CD9 (if available)
TreeFam:
Gene Tree for CD9 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CD9: view image

Paralogs for CD9 Gene

(14) SIMAP similar genes for CD9 Gene using alignment to 4 proteins:

  • CD9_HUMAN
  • A6NNI4_HUMAN
  • F5GXT1_HUMAN
  • G8JLH6_HUMAN
genes like me logo Genes that share paralogs with CD9: view

Variants for CD9 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for CD9 Gene

SNP ID Clinical significance and condition Chr 12 pos Variation AA Info Type
716173 Benign: not provided 6,235,335(+) G/A INTRON_VARIANT
722139 Benign: not provided 6,235,220(+) C/G INTRON_VARIANT
736570 Benign: not provided 6,232,684(+) G/A SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for CD9 Gene

Structural Variations from Database of Genomic Variants (DGV) for CD9 Gene

Variant ID Type Subtype PubMed ID
nsv470263 CNV gain 18288195
nsv557253 CNV gain 21841781
nsv832320 CNV loss 17160897
nsv832321 CNV gain+loss 17160897

Variation tolerance for CD9 Gene

Residual Variation Intolerance Score: 47.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.28; 6.17% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CD9 Gene

Human Gene Mutation Database (HGMD)
CD9
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CD9

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CD9 Gene

Disorders for CD9 Gene

MalaCards: The human disease database

(16) MalaCards diseases for CD9 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
diphtheria
  • corynebacterium infection
human immunodeficiency virus infectious disease
  • hiv infections
malignant hypertensive renal disease
benign hypertensive renal disease
  • hypertensive renal disease, benign
cytomegalovirus retinitis
  • cmv retinitis
- elite association - COSMIC cancer census association via MalaCards
Search CD9 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CD9

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
genes like me logo Genes that share disorders with CD9: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CD9 Gene

Publications for CD9 Gene

  1. DHHC2 affects palmitoylation, stability, and functions of tetraspanins CD9 and CD151. (PMID: 18508921) Sharma C … Hemler ME (Molecular biology of the cell 2008) 3 4 23
  2. Tetraspanin family member CD9 inhibits Aggrus/podoplanin-induced platelet aggregation and suppresses pulmonary metastasis. (PMID: 18541721) Nakazawa Y … Fujita N (Blood 2008) 3 4 23
  3. Evidence for specific tetraspanin homodimers: inhibition of palmitoylation makes cysteine residues available for cross-linking. (PMID: 14556650) Kovalenko OV … Hemler ME (The Biochemical journal 2004) 3 4 23
  4. Differential stability of tetraspanin/tetraspanin interactions: role of palmitoylation. (PMID: 11959120) Charrin S … Rubinstein E (FEBS letters 2002) 3 4 23
  5. Organization of the human CD9 gene. (PMID: 8486348) Rubinstein E … Boucheix C (Genomics 1993) 3 4 23

Products for CD9 Gene

  • Signalway Proteins for CD9

Sources for CD9 Gene