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Aliases for IGSF3 Gene

Aliases for IGSF3 Gene

  • Immunoglobulin Superfamily, Member 3 2 3
  • Glu-Trp-Ile EWI Motif-Containing Protein 3 3 4
  • EWI-3 3 4
  • Immunoglobulin Superfamily Member 3 3
  • Immunoglobin Superfamily, Member 3 3
  • KIAA0466 4
  • IgSF3 4
  • LCDD 3
  • EWI3 4
  • V8 3

External Ids for IGSF3 Gene

Previous GeneCards Identifiers for IGSF3 Gene

  • GC01M117619
  • GC01M115999
  • GC01M116264
  • GC01M116466
  • GC01M116829
  • GC01M116918
  • GC01M117117
  • GC01M114976

Summaries for IGSF3 Gene

GeneCards Summary for IGSF3 Gene

IGSF3 (Immunoglobulin Superfamily, Member 3) is a Protein Coding gene. Diseases associated with IGSF3 include lacrimal duct defect and nasolacrimal duct cyst. An important paralog of this gene is PTGFRN.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for IGSF3 Gene

Genomics for IGSF3 Gene

Regulatory Elements for IGSF3 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for IGSF3 Gene

116,574,398 bp from pter
116,667,755 bp from pter
93,358 bases
Minus strand

Genomic View for IGSF3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for IGSF3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for IGSF3 Gene

Proteins for IGSF3 Gene

  • Protein details for IGSF3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Immunoglobulin superfamily member 3
    Protein Accession:
    Secondary Accessions:
    • A6NJZ6
    • A6NMC7

    Protein attributes for IGSF3 Gene

    1194 amino acids
    Molecular mass:
    135196 Da
    Quaternary structure:
    No Data Available
    • Likely interchromosomal Alu-mediated fusion between IGSF3 on 1p13.1 and GGT on 22q11.2. Breakpoints occurred inside Alu elements as well as in the 5 or 3 ends of them
    • Sequence=AAC72013.1; Type=Frameshift; Positions=829, 861; Evidence={ECO:0000305}; Sequence=BAA32311.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for IGSF3 Gene


neXtProt entry for IGSF3 Gene

Proteomics data for IGSF3 Gene at MOPED

Post-translational modifications for IGSF3 Gene

  • Glycosylation at Asn43, Asn418, Asn655, Asn842, Asn961, and Asn1077
  • Modification sites at PhosphoSitePlus

Other Protein References for IGSF3 Gene

Antibody Products

No data available for DME Specific Peptides for IGSF3 Gene

Domains for IGSF3 Gene

Gene Families for IGSF3 Gene

  • IGD :Immunoglobulin superfamily / Immunoglobulin-like domain containing
  • VSET :Immunoglobulin superfamily / V-set domain containing

Protein Domains for IGSF3 Gene

Suggested Antigen Peptide Sequences for IGSF3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • O75054
  • Contains 8 Ig-like C2-type (immunoglobulin-like) domains.
genes like me logo Genes that share domains with IGSF3: view

Function for IGSF3 Gene

Molecular function for IGSF3 Gene

GENATLAS Biochemistry:
immunoglobulin superfamily member 3,highly expressed in placenta,kidney and lung

Gene Ontology (GO) - Molecular Function for IGSF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0005515 protein binding --
genes like me logo Genes that share ontologies with IGSF3: view

Phenotypes for IGSF3 Gene

GenomeRNAi human phenotypes for IGSF3:
genes like me logo Genes that share phenotypes with IGSF3: view

Animal Model Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for IGSF3

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for IGSF3 Gene

Localization for IGSF3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for IGSF3 Gene

Membrane; Single-pass type I membrane protein.

Subcellular locations from

Jensen Localization Image for IGSF3 Gene COMPARTMENTS Subcellular localization image for IGSF3 gene
Compartment Confidence
plasma membrane 3
cytosol 1
endoplasmic reticulum 1
extracellular 1
golgi apparatus 1
lysosome 1
nucleus 1

Gene Ontology (GO) - Cellular Components for IGSF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0009986 cell surface IDA 19581412
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with IGSF3: view

Pathways for IGSF3 Gene

SuperPathways for IGSF3 Gene

No Data Available

Interacting Proteins for IGSF3 Gene

Gene Ontology (GO) - Biological Process for IGSF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0032808 lacrimal gland development IMP 24372406
genes like me logo Genes that share ontologies with IGSF3: view

No data available for Pathways by source for IGSF3 Gene

Transcripts for IGSF3 Gene

Unigene Clusters for IGSF3 Gene

Immunoglobulin superfamily, member 3:
Representative Sequences:

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for IGSF3

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for IGSF3 Gene

No ASD Table

Relevant External Links for IGSF3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for IGSF3 Gene

mRNA expression in normal human tissues for IGSF3 Gene

mRNA differential expression in normal tissues according to GTEx for IGSF3 Gene

This gene is overexpressed in Esophagus - Mucosa (5.5).

Protein differential expression in normal tissues for IGSF3 Gene

This gene is overexpressed in Fetal Brain (55.3) and Placenta (6.5).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for IGSF3 Gene

SOURCE GeneReport for Unigene cluster for IGSF3 Gene Hs.171057

mRNA Expression by UniProt/SwissProt for IGSF3 Gene

Tissue specificity: Expressed in a wide range of tissues with High expression in Placenta, kidney and lung.
genes like me logo Genes that share expressions with IGSF3: view

In Situ Assay Products

No data available for Expression partners for IGSF3 Gene

Orthologs for IGSF3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for IGSF3 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia IGSF3 35
  • 88.19 (n)
  • 89.62 (a)
IGSF3 36
  • 87 (a)
(Canis familiaris)
Mammalia IGSF3 35
  • 89.87 (n)
  • 93.38 (a)
IGSF3 36
  • 94 (a)
(Mus musculus)
Mammalia Igsf3 35
  • 87.72 (n)
  • 92.63 (a)
Igsf3 16
Igsf3 36
  • 93 (a)
(Pan troglodytes)
Mammalia IGSF3 35
  • 99.04 (n)
  • 99.34 (a)
IGSF3 36
  • 100 (a)
(Rattus norvegicus)
Mammalia Igsf3 35
  • 87.41 (n)
  • 92.13 (a)
(Monodelphis domestica)
Mammalia IGSF3 36
  • 79 (a)
(Ornithorhynchus anatinus)
Mammalia IGSF3 36
  • 55 (a)
(Gallus gallus)
Aves IGSF3 35
  • 75.87 (n)
  • 75.71 (a)
IGSF3 36
  • 74 (a)
(Anolis carolinensis)
Reptilia IGSF3 36
  • 68 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia igsf3 35
  • 62.79 (n)
  • 56.82 (a)
Str.5486 35
African clawed frog
(Xenopus laevis)
Amphibia Xl.16592 35
(Danio rerio)
Actinopterygii si:ch211-247j6.1 35
  • 58.79 (n)
  • 51.81 (a)
IGSF3 36
  • 54 (a)
Species with no ortholog for IGSF3:
  • A. gosspyii yeast (Ashbya 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for IGSF3 Gene

Gene Tree for IGSF3 (if available)
Gene Tree for IGSF3 (if available)

Paralogs for IGSF3 Gene

Paralogs for IGSF3 Gene

Selected SIMAP similar genes for IGSF3 Gene using alignment to 1 proteins: Pseudogenes for IGSF3 Gene

genes like me logo Genes that share paralogs with IGSF3: view

Variants for IGSF3 Gene

Sequence variations from dbSNP and Humsavar for IGSF3 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type MAF
rs482724 -- 116,585,702(+) GGATC(A/G)CTTGA intron-variant
rs484888 -- 116,663,162(+) CTCTT(C/G)CTGGC intron-variant
rs489058 -- 116,611,838(+) ATTGG(C/T)TCTCA intron-variant
rs494559 -- 116,612,435(+) AAGAA(C/T)CACCT intron-variant
rs517857 -- 116,664,443(+) CATTG(C/T)CTTGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for IGSF3 Gene

Variant ID Type Subtype PubMed ID
nsv482103 CNV Gain 20164927
nsv831148 CNV Gain 17160897
esv28283 CNV Gain+Loss 19812545
nsv824309 CNV Gain 20364138
nsv10661 CNV Gain+Loss 18304495
dgv89e1 CNV Complex 17122850
nsv428190 CNV Gain 18775914
esv33190 CNV Gain+Loss 17666407
esv32882 CNV Gain 17666407

Relevant External Links for IGSF3 Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for IGSF3 Gene

Disorders for IGSF3 Gene

MalaCards: The human disease database

MalaCards: The human disease database.

Search for IGSF3 Gene in MalaCards »

(2) Diseases for IGSF3 Gene including...


  • Lacrimal duct defect (LCDD) [MIM:149700]: A condition resulting in the imbalance between tear production and tear drainage. Infants typically manifest persistent epiphora and/or recurrent infections of the lacrimal pathway, such as conjunctivitis. LCDD is caused by failure of the nasolacrimal duct to open into the inferior meatus. {ECO:0000269 PubMed:24372406}. Note=The disease is caused by mutations affecting the gene represented in this entry.

(1) Novoseek inferred disease relationships for IGSF3 Gene

Disease -log(P) Hits PubMed IDs
periodontal diseases 44.4 1
genes like me logo Genes that share disorders with IGSF3: view

No data available for OMIM , University of Copenhagen DISEASES , Genatlas and External Links for IGSF3 Gene

Publications for IGSF3 Gene

  1. Molecular cloning of a human cDNA IGSF3 encoding an immunoglobulin- like membrane protein: expression and mapping to chromosome band 1p13. (PMID: 9790749) Saupe S. … De Sario A. (Genomics 1998) 2 3 4
  2. Identification of an IGSF3 mutation in a family with congenital nasolacrimal duct obstruction. (PMID: 24372406) Foster J. … Tekin M. (Clin. Genet. 2014) 3 4
  3. EWI-2 is a major CD9 and CD81 partner and member of a novel Ig protein subfamily. (PMID: 11504738) Stipp C.S. … Hemler M.E. (J. Biol. Chem. 2001) 4 23
  4. Characterization of cDNA clones in size-fractionated cDNA libraries from human brain. (PMID: 9455484) Seki N. … Ohara O. (DNA Res. 1997) 3 4
  5. Laboratory testing for the antibodies that cause heparin-induced thrombocytopenia: how much class do we need? (PMID: 16310517) Warkentin T.E. … Kelton J.G. (J. Lab. Clin. Med. 2005) 23

Products for IGSF3 Gene

Sources for IGSF3 Gene

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