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Aliases for MS4A3 Gene

Aliases for MS4A3 Gene

  • Membrane Spanning 4-Domains A3 2 3 5
  • Membrane-Spanning 4-Domains, Subfamily A, Member 3 (Hematopoietic Cell-Specific) 2 3
  • Hematopoietic-Specific Transmembrane Protein 4 3 4
  • CD20 Antigen-Like Protein 3 4
  • CD20L 3 4
  • HTM4 3 4
  • Membrane-Spanning 4-Domains Subfamily A Member 3 3
  • Hematopoietic Cell 4 Transmembrane Protein 3
  • IgE Receptor Beta Subunit 3
  • IgE Receptor Beta Chain 3
  • CD20 Antigen Homolog 3

External Ids for MS4A3 Gene

Previous HGNC Symbols for MS4A3 Gene

  • CD20L

Previous GeneCards Identifiers for MS4A3 Gene

  • GC11P062218
  • GC11P061337
  • GC11P059599
  • GC11P059580
  • GC11P059824
  • GC11P056172

Summaries for MS4A3 Gene

Entrez Gene Summary for MS4A3 Gene

  • This gene encodes a member of the membrane-spanning 4A gene family. Members of this protein family are characterized by common structural features and similar intron/exon splice boundaries and display unique expression patterns among hematopoietic cells and nonlymphoid tissues. This family member likely plays a role in signal transduction and may function as a subunit associated with receptor complexes. The gene encoding this protein is localized to 11q12, among a cluster of related family members. Alternative splicing may result in multiple transcript variants; however, not all variants have been fully described. [provided by RefSeq, Jul 2008]

GeneCards Summary for MS4A3 Gene

MS4A3 (Membrane Spanning 4-Domains A3) is a Protein Coding gene. Among its related pathways are Innate Immune System. An important paralog of this gene is MS4A2.

UniProtKB/Swiss-Prot for MS4A3 Gene

  • Hematopoietic modulator for the G1-S cell cycle transition. Modulates the level of phosphorylation of cyclin-dependent kinase 2 (CDK2) through its direct binding to cyclin-dependent kinase inhibitor 3 (CDKN3/KAP).

Gene Wiki entry for MS4A3 Gene

Additional gene information for MS4A3 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for MS4A3 Gene

Genomics for MS4A3 Gene

GeneHancer (GH) Regulatory Elements for MS4A3 Gene

Promoters and enhancers for MS4A3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH11I060056 Promoter/Enhancer 1.3 EPDnew Ensembl 550.8 +0.4 400 1.6 HDAC1 HDGF SMAD1 TCF12 ZNF766 GATA2 ATF7 CREM CEBPB NCOA1 MS4A3 YWHAZP9
GH11I060055 Enhancer 0.2 Ensembl 550.8 -1.0 -986 0.4 MS4A3 OOSP2
GH11I059968 Enhancer 1 FANTOM5 11.1 -88.3 -88316 0.3 PKNOX1 ATF1 ARNT TCF12 ZNF766 GATA2 ATF7 NCOA1 REST MBD2 OOSP2 MS4A3 MS4A2 MRPL16 OOSP1 LOC105369444
GH11I060100 Enhancer 0.7 FANTOM5 ENCODE 2.2 +44.5 44544 1.7 TCF12 TEAD4 TAL1 CBFA2T3 ZBTB33 MS4A6A LOC105369318 MS4A3 MRPL16 MS4A2 LOC105369319
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around MS4A3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the MS4A3 gene promoter:

Genomic Locations for MS4A3 Gene

Genomic Locations for MS4A3 Gene
14,542 bases
Plus strand

Genomic View for MS4A3 Gene

Genes around MS4A3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
MS4A3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for MS4A3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for MS4A3 Gene

Proteins for MS4A3 Gene

  • Protein details for MS4A3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Membrane-spanning 4-domains subfamily A member 3
    Protein Accession:
    Secondary Accessions:
    • A8MTP8
    • Q8NHW2

    Protein attributes for MS4A3 Gene

    214 amino acids
    Molecular mass:
    22933 Da
    Quaternary structure:
    • Interacts with CDKN3. Interacts with CDKN3-CDK2 complexes through its binding to CDKN3; this interaction facilitates dissociation of cyclin A from CDKN3-CDK2 complexes.

    Alternative splice isoforms for MS4A3 Gene


neXtProt entry for MS4A3 Gene

Post-translational modifications for MS4A3 Gene

No Post-translational modifications

No data available for DME Specific Peptides for MS4A3 Gene

Domains & Families for MS4A3 Gene

Gene Families for MS4A3 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Predicted secreted proteins

Protein Domains for MS4A3 Gene


Suggested Antigen Peptide Sequences for MS4A3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • The C-terminal region is required for binding to CDKN3-CDK2 complexes and the modulation of CDKN3 activity.
  • Belongs to the MS4A family.
  • The C-terminal region is required for binding to CDKN3-CDK2 complexes and the modulation of CDKN3 activity.
  • Belongs to the MS4A family.
genes like me logo Genes that share domains with MS4A3: view

Function for MS4A3 Gene

Molecular function for MS4A3 Gene

GENATLAS Biochemistry:
membrane-spanning 4-domains,subfamily A,member 3,hematopoietic cell-specific
UniProtKB/Swiss-Prot Function:
Hematopoietic modulator for the G1-S cell cycle transition. Modulates the level of phosphorylation of cyclin-dependent kinase 2 (CDK2) through its direct binding to cyclin-dependent kinase inhibitor 3 (CDKN3/KAP).

Phenotypes From GWAS Catalog for MS4A3 Gene

Gene Ontology (GO) - Molecular Function for MS4A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 15671017
genes like me logo Genes that share ontologies with MS4A3: view
genes like me logo Genes that share phenotypes with MS4A3: view

miRNA for MS4A3 Gene

miRTarBase miRNAs that target MS4A3

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for MS4A3 Gene

Localization for MS4A3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for MS4A3 Gene

Endomembrane system; Multi-pass membrane protein. Cytoplasm, perinuclear region. Note=Located in the perinuclear area.

Subcellular locations from

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 MS4A3 gene
Compartment Confidence
plasma membrane 5
peroxisome 1
cytosol 1

Gene Ontology (GO) - Cellular Components for MS4A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005886 plasma membrane TAS --
GO:0012505 endomembrane system IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with MS4A3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for MS4A3 Gene

Pathways & Interactions for MS4A3 Gene

genes like me logo Genes that share pathways with MS4A3: view

Pathways by source for MS4A3 Gene

3 Reactome pathways for MS4A3 Gene

Interacting Proteins for MS4A3 Gene

Gene Ontology (GO) - Biological Process for MS4A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0043312 neutrophil degranulation TAS --
GO:0051726 regulation of cell cycle IEA --
genes like me logo Genes that share ontologies with MS4A3: view

No data available for SIGNOR curated interactions for MS4A3 Gene

Drugs & Compounds for MS4A3 Gene

No Compound Related Data Available

Transcripts for MS4A3 Gene

Unigene Clusters for MS4A3 Gene

Membrane-spanning 4-domains, subfamily A, member 3 (hematopoietic cell-specific):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for MS4A3 Gene

ExUns: 1a · 1b · 1c · 1d · 1e · 1f ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8a · 8b · 8c
SP1: - -
SP2: - -
SP3: - - - - -
SP4: - - - -
SP5: - - - -
SP6: - - -
SP7: -

Relevant External Links for MS4A3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for MS4A3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for MS4A3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for MS4A3 Gene

This gene is overexpressed in Whole Blood (x45.8).

NURSA nuclear receptor signaling pathways regulating expression of MS4A3 Gene:


SOURCE GeneReport for Unigene cluster for MS4A3 Gene:


mRNA Expression by UniProt/SwissProt for MS4A3 Gene:

Tissue specificity: Expressed specifically in hematopoietic cells and tissues.

Evidence on tissue expression from TISSUES for MS4A3 Gene

  • Bone marrow(4.6)
  • Blood(4.5)
  • Lung(4.1)
genes like me logo Genes that share expression patterns with MS4A3: view

No data available for Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for MS4A3 Gene

Orthologs for MS4A3 Gene

This gene was present in the common ancestor of mammals.

Orthologs for MS4A3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia MS4A3 33 34
  • 95.17 (n)
(Mus musculus)
Mammalia Ms4a3 33 16 34
  • 73.94 (n)
(Rattus norvegicus)
Mammalia Ms4a3 33
  • 72.12 (n)
(Bos Taurus)
Mammalia MS4A3 33 34
  • 63.48 (n)
(Monodelphis domestica)
Mammalia MS4A3 34
  • 45 (a)
(Canis familiaris)
Mammalia -- 34
  • 23 (a)
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 21 (a)
Species where no ortholog for MS4A3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for MS4A3 Gene

Gene Tree for MS4A3 (if available)
Gene Tree for MS4A3 (if available)

Paralogs for MS4A3 Gene

Paralogs for MS4A3 Gene

(1) SIMAP similar genes for MS4A3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with MS4A3: view

Variants for MS4A3 Gene

Sequence variations from dbSNP and Humsavar for MS4A3 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1000264409 -- 60,056,191(+) A/G upstream_transcript_variant
rs1000719154 -- 60,056,538(+) T/C/G upstream_transcript_variant
rs1000851278 -- 60,064,551(+) TCTTCTT/TCTT intron_variant
rs1000919329 -- 60,057,954(+) A/G genic_upstream_transcript_variant, intron_variant
rs1000942018 -- 60,066,539(+) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for MS4A3 Gene

Variant ID Type Subtype PubMed ID
nsv336 CNV insertion 18451855
nsv468579 CNV gain 19166990
nsv509411 CNV insertion 20534489
nsv555150 CNV gain 21841781
nsv832173 CNV gain 17160897

Variation tolerance for MS4A3 Gene

Residual Variation Intolerance Score: 78.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.67; 14.26% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for MS4A3 Gene

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

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for MS4A3 Gene

Disorders for MS4A3 Gene

Additional Disease Information for MS4A3

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for MS4A3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for MS4A3 Gene

Publications for MS4A3 Gene

  1. Cloning of the cDNA for a hematopoietic cell-specific protein related to CD20 and the beta subunit of the high-affinity IgE receptor: evidence for a family of proteins with four membrane-spanning regions. (PMID: 7524084) Adra CN … Lim B (Proceedings of the National Academy of Sciences of the United States of America 1994) 2 3 4 22 58
  2. Binding of HTm4 to cyclin-dependent kinase (Cdk)-associated phosphatase (KAP).Cdk2.cyclin A complex enhances the phosphatase activity of KAP, dissociates cyclin A, and facilitates KAP dephosphorylation of Cdk2. (PMID: 15671017) Chinami M … Adra CN (The Journal of biological chemistry 2005) 3 4 22 58
  3. Human HTm4 is a hematopoietic cell cycle regulator. (PMID: 11781350) Donato JL … Adra CN (The Journal of clinical investigation 2002) 3 4 22 58
  4. Genome-wide association study identifies novel loci associated with serum level of vitamin B12 in Chinese men. (PMID: 22367966) Lin X … Sun J (Human molecular genetics 2012) 3 44 58
  5. An approach based on a genome-wide association study reveals candidate loci for narcolepsy. (PMID: 20677014) Shimada M … Tokunaga K (Human genetics 2010) 3 44 58

Products for MS4A3 Gene

Sources for MS4A3 Gene

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