Aliases for OLFM3 Gene

Aliases for OLFM3 Gene

  • Olfactomedin 3 2 3 5
  • NOE3 2 3 4
  • Optimedin 2 4
  • Noelin-3 3 4
  • Olfactomedin Related ER Localized Protein 3 3
  • Olfactomedin-3 4
  • NOELIN3 3
  • OLFM3 5

External Ids for OLFM3 Gene

Previous GeneCards Identifiers for OLFM3 Gene

  • GC01M103097
  • GC01M101449
  • GC01M101559
  • GC01M101731
  • GC01M101980
  • GC01M102040
  • GC01M102268
  • GC01M100394

Summaries for OLFM3 Gene

GeneCards Summary for OLFM3 Gene

OLFM3 (Olfactomedin 3) is a Protein Coding gene. Diseases associated with OLFM3 include Renal Pelvis Carcinoma and Glaucoma, Primary Open Angle. An important paralog of this gene is OLFM1.

Gene Wiki entry for OLFM3 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for OLFM3 Gene

Genomics for OLFM3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for OLFM3 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
GH01J101845 Promoter/Enhancer 1.2 EPDnew Ensembl ENCODE 260.1 +149.1 149058 4.4 POLR2A CTCF OLFM3 RF00026-060 RNU6-352P RPSAP19 S1PR1
GH01J101996 Promoter 1 EPDnew Ensembl 250.7 +0.3 325 1.6 REST SIN3A MIER2 GLIS1 SPI1 ZNF143 OLFM3 HSALNG0005596 lnc-OLFM3-3 S1PR1
GH01J101842 Enhancer 0.4 Ensembl 10.1 +153.4 153425 1.8 EGR1 RAD21 NANOG OLFM3 RF00026-060 RNU6-352P RPSAP19 S1PR1
GH01J102107 Enhancer 0.6 Ensembl ENCODE 5.3 -109.6 -109575 3.4 FOXA2 SP1 NANOG EZH2 RF00004-005 OLFM3 piR-39655-001 lnc-S1PR1-5 lnc-OLFM3-3
GH01J102118 Enhancer 0.4 Ensembl 5.3 -121.4 -121375 0.2 JUND ATF2 CREB1 ATF7 OLFM3 HSALNG0005599 RF00004-005 lnc-S1PR1-5 lnc-OLFM3-3 COL11A1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around OLFM3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for OLFM3

Top Transcription factor binding sites by QIAGEN in the OLFM3 gene promoter:
  • CBF(2)
  • CBF-A
  • CBF-B
  • CP1A
  • CUTL1
  • NRSF form 1
  • NRSF form 2
  • Pbx1a
  • S8

Genomic Locations for OLFM3 Gene

Latest Assembly
196,899 bases
Minus strand

Previous Assembly
(GRCh37/hg19 by Entrez Gene)
194,367 bases
Minus strand

(GRCh37/hg19 by Ensembl)
194,457 bases
Minus strand

Genomic View for OLFM3 Gene

Genes around OLFM3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
OLFM3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for OLFM3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for OLFM3 Gene

Proteins for OLFM3 Gene

  • Protein details for OLFM3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • Q5T3V6
    • Q6IMI7
    • Q6IMI8
    • Q6IMI9
    • Q6IMJ1
    • Q8TBG1
    • Q96PB2
    • Q96PB3
    • Q96PB4
    • Q96PB5
    • Q96PB6

    Protein attributes for OLFM3 Gene

    478 amino acids
    Molecular mass:
    54930 Da
    Quaternary structure:
    • Peripherally associated with AMPAR complex. AMPAR complex consists of an inner core made of 4 pore-forming GluA/GRIA proteins (GRIA1, GRIA2, GRIA3 and GRIA4) and 4 major auxiliary subunits arranged in a twofold symmetry. One of the two pairs of distinct binding sites is occupied either by CNIH2, CNIH3 or CACNG2, CACNG3. The other harbors CACNG2, CACNG3, CACNG4, CACNG8 or GSG1L. This inner core of AMPAR complex is complemented by outer core constituents binding directly to the GluA/GRIA proteins at sites distinct from the interaction sites of the inner core constituents. Outer core constituents include at least PRRT1, PRRT2, CKAMP44/SHISA9, FRRS1L and NRN1. The proteins of the inner and outer core serve as a platform for other, more peripherally associated AMPAR constituents, including OLFM3. Alone or in combination, these auxiliary subunits control the gating and pharmacology of the AMPAR complex and profoundly impact their biogenesis and protein processing. Homodimer. Interacts with MYOC (By similarity). Interacts with OLFM2 (PubMed:21228389).

    Alternative splice isoforms for OLFM3 Gene

neXtProt entry for OLFM3 Gene

Post-translational modifications for OLFM3 Gene

  • Glycosylation at Asn33, Asn95, Asn179, Asn299, and Asn465
  • Modification sites at PhosphoSitePlus

Other Protein References for OLFM3 Gene

No data available for DME Specific Peptides for OLFM3 Gene

Domains & Families for OLFM3 Gene

Gene Families for OLFM3 Gene

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

Protein Domains for OLFM3 Gene

  • Olfactomedin-like

Suggested Antigen Peptide Sequences for OLFM3 Gene

GenScript: Design optimal peptide antigens:
  • Optimedin (NOE3_HUMAN)
  • cDNA FLJ38405 fis, clone FEBRA2008662, highly similar to Noelin-3 (Q5T3V6_HUMAN)
  • cDNA FLJ52769, highly similar to Noelin-3 (Q6IMJ0_HUMAN)
genes like me logo Genes that share domains with OLFM3: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for OLFM3 Gene

Function for OLFM3 Gene

Phenotypes From GWAS Catalog for OLFM3 Gene

Gene Ontology (GO) - Molecular Function for OLFM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 12019210
genes like me logo Genes that share ontologies with OLFM3: view
genes like me logo Genes that share phenotypes with OLFM3: view

Animal Models for research

  • Taconic Biosciences Mouse Models for OLFM3

miRNA for OLFM3 Gene

miRTarBase miRNAs that target OLFM3

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for OLFM3

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for OLFM3 Gene

Localization for OLFM3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for OLFM3 Gene

Secreted. Cell junction, synapse.

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 OLFM3 gene
Compartment Confidence
extracellular 4
plasma membrane 3
endoplasmic reticulum 2
golgi apparatus 2
cytoskeleton 1
mitochondrion 1
nucleus 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for OLFM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005615 extracellular space IEA --
GO:0005794 Golgi apparatus IEA --
GO:0030054 cell junction IEA --
GO:0032281 AMPA glutamate receptor complex IEA --
genes like me logo Genes that share ontologies with OLFM3: view

Pathways & Interactions for OLFM3 Gene

PathCards logo

SuperPathways for OLFM3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for OLFM3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0042462 eye photoreceptor cell development IEA --
genes like me logo Genes that share ontologies with OLFM3: view

No data available for Pathways by source and SIGNOR curated interactions for OLFM3 Gene

Drugs & Compounds for OLFM3 Gene

No Compound Related Data Available

Transcripts for OLFM3 Gene

mRNA/cDNA for OLFM3 Gene

14 NCBI additional mRNA sequence :
6 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for OLFM3

Alternative Splicing Database (ASD) splice patterns (SP) for OLFM3 Gene

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

Relevant External Links for OLFM3 Gene

GeneLoc Exon Structure for

Expression for OLFM3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for OLFM3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for OLFM3 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (x10.1), Brain - Anterior cingulate cortex (BA24) (x8.0), Brain - Cortex (x6.1), and Brain - Cerebellar Hemisphere (x5.1).

Protein differential expression in normal tissues from HIPED for OLFM3 Gene

This gene is overexpressed in Frontal cortex (65.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for OLFM3 Gene

Protein tissue co-expression partners for OLFM3 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for OLFM3

SOURCE GeneReport for Unigene cluster for OLFM3 Gene:


mRNA Expression by UniProt/SwissProt for OLFM3 Gene:

Tissue specificity: In the eye, expressed in trabecular meshwork and neural retina; in non-ocular tissues, expressed in brain and lung.

Evidence on tissue expression from TISSUES for OLFM3 Gene

  • Nervous system(4.8)
genes like me logo Genes that share expression patterns with OLFM3: view

Primer products for research

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for OLFM3 Gene

Orthologs for OLFM3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for OLFM3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia OLFM3 29 30
  • 96.94 (n)
(Ornithorhynchus anatinus)
Mammalia OLFM3 30
  • 95 (a)
(Canis familiaris)
Mammalia OLFM3 29 30
  • 94.42 (n)
(Bos Taurus)
Mammalia OLFM3 29 30
  • 93.64 (n)
(Monodelphis domestica)
Mammalia OLFM3 30
  • 92 (a)
(Mus musculus)
Mammalia Olfm3 29 16 30
  • 91.21 (n)
(Rattus norvegicus)
Mammalia Olfm3 29
  • 90.93 (n)
(Gallus gallus)
Aves OLFM3 29 30
  • 86.26 (n)
(Anolis carolinensis)
Reptilia OLFM3 30
  • 98 (a)
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia olfm3 29
  • 74.65 (n)
(Danio rerio)
Actinopterygii olfm3b 30
  • 84 (a)
olfm3a 29 30
  • 75.13 (n)
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 30
  • 25 (a)
Species where no ortholog for OLFM3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • 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 Vase (Ciona intestinalis)
  • 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 OLFM3 Gene

Gene Tree for OLFM3 (if available)
Gene Tree for OLFM3 (if available)
Evolutionary constrained regions (ECRs) for OLFM3: view image
Alliance of Genome Resources:
Additional Orthologs for OLFM3

Paralogs for OLFM3 Gene

Paralogs for OLFM3 Gene

(7) SIMAP similar genes for OLFM3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with OLFM3: view

Variants for OLFM3 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for OLFM3 Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
983485 Uncertain Significance: Susceptibility to strabismus 101,830,669(-) T/C

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for OLFM3 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for OLFM3 Gene

Variant ID Type Subtype PubMed ID
dgv209n100 CNV loss 25217958
dgv379n54 CNV loss 21841781
esv2422183 CNV deletion 17116639
esv2670818 CNV deletion 23128226
esv2673123 CNV deletion 23128226
esv2758953 CNV loss 17122850
esv2762160 CNV loss 21179565
esv2764222 CNV loss 21179565
esv3566614 CNV deletion 23714750
esv3582471 CNV gain 25503493
esv3582582 CNV gain 25503493
esv3586979 CNV loss 21293372
esv3586980 CNV loss 21293372
esv3586981 CNV loss 21293372
esv3586982 CNV loss 21293372
esv3586983 CNV loss 21293372
esv3586984 CNV loss 21293372
esv3586985 CNV loss 21293372
nsv1012053 CNV loss 25217958
nsv2143 CNV insertion 18451855
nsv441701 CNV loss 18776908
nsv508026 OTHER sequence alteration 20534489
nsv520768 CNV loss 19592680
nsv522156 CNV gain 19592680
nsv522921 CNV loss 19592680
nsv546900 CNV loss 21841781
nsv946102 CNV duplication 23825009

Variation tolerance for OLFM3 Gene

Residual Variation Intolerance Score: 15.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.53; 44.09% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for OLFM3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
Leiden Open Variation Database (LOVD)

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for OLFM3 Gene

Disorders for OLFM3 Gene

MalaCards: The human disease database

(3) MalaCards diseases for OLFM3 Gene - From: COP and GCD

Disorder Aliases PubMed IDs
renal pelvis carcinoma
  • carcinoma of kidney pelvis
glaucoma, primary open angle
  • poag
  • strabismus, susceptibility to
- elite association - COSMIC cancer census association via MalaCards
Search OLFM3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for OLFM3

Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with OLFM3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for OLFM3 Gene

Publications for OLFM3 Gene

  1. Optimedin: a novel olfactomedin-related protein that interacts with myocilin. (PMID: 12019210) Torrado M … Tomarev SI (Human molecular genetics 2002) 2 3 4 22
  2. The Optimedin gene is a downstream target of Pax6. (PMID: 16115881) Grinchuk O … Tomarev S (The Journal of biological chemistry 2005) 2 3 22
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 40
  4. Molecular genetics of successful smoking cessation: convergent genome-wide association study results. (PMID: 18519826) Uhl GR … Lerman C (Archives of general psychiatry 2008) 3 40
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4

Products for OLFM3 Gene

Sources for OLFM3 Gene