OLFML3 Gene (Protein Coding)

Olfactomedin Like 3

GC01P113979
GIFtS:
37
This gene encodes a member of the olfactomedin-like gene family which also includes genes encoding noelin, tiarin, myocilin, amassin, optimedin, photomedin, and latrophilin. The encoded protein is a secreted extracellular matrix glycoprotein with a C-terminal olfactomedin domain that facilitates protein-protein interactions, cell adhesion, and intercellular interactions. It ser... See more...

Aliases for OLFML3 Gene

Aliases for OLFML3 Gene

  • Olfactomedin Like 3 2 3 5
  • Olfactomedin-Like Protein 3 3 4
  • HNOEL-Iso 3 4
  • Olfactomedin, 44-Kd 3
  • Olfactomedin-Like 3 2
  • HOLF44 4
  • OLF44 3

External Ids for OLFML3 Gene

Previous GeneCards Identifiers for OLFML3 Gene

  • GC01P113821
  • GC01P114234
  • GC01P114323
  • GC01P114522
  • GC01P112380

Summaries for OLFML3 Gene

Entrez Gene Summary for OLFML3 Gene

  • This gene encodes a member of the olfactomedin-like gene family which also includes genes encoding noelin, tiarin, myocilin, amassin, optimedin, photomedin, and latrophilin. The encoded protein is a secreted extracellular matrix glycoprotein with a C-terminal olfactomedin domain that facilitates protein-protein interactions, cell adhesion, and intercellular interactions. It serves as both a scaffold protein that recruits bone morphogenetic protein 1 to its substrate chordin, and as a vascular tissue remodeler with pro-angiogenic properties. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Feb 2017]

GeneCards Summary for OLFML3 Gene

OLFML3 (Olfactomedin Like 3) is a Protein Coding gene. An important paralog of this gene is OLFML1.

UniProtKB/Swiss-Prot Summary for OLFML3 Gene

  • Secreted scaffold protein that plays an essential role in dorsoventral patterning during early development. Stabilizes axial formation by restricting chordin (CHRD) activity on the dorsal side. Acts by facilitating the association between the tolloid proteases and their substrate chordin (CHRD), leading to enhance chordin (CHRD) degradation (By similarity). May have matrix-related function involved in placental and embryonic development, or play a similar role in other physiological processes.

Gene Wiki entry for OLFML3 Gene

Additional gene information for OLFML3 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for OLFML3 Gene

Genomics for OLFML3 Gene

GeneHancer (GH) Regulatory Elements for OLFML3 Gene

Promoters and enhancers for OLFML3 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH01J113978 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 767.2 +2.4 2371 7.6 PPP1R10 CTCF MLX RBPJ ZNF362 CC2D1A HLF RAD21 ZNF652 SP1 OLFML3 TRIM33 ENSG00000232499 LRIG2 SIKE1 RSBN1 SYT6 DCLRE1B piR-48759-020
GH01J113977 Enhancer 0.6 UCNEbase dbSUPER 750.6 -1.7 -1697 0.2 COPS2 OLFML3 RF00017-300 HIPK1
GH01J113927 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 16.4 -47.5 -47483 8.4 ZNF785 ZNF24 SP1 ZBTB40 SIX5 ZBTB6 FOXA1 MLX SMARCE1 POLR2A HIPK1 TRIM33 ENSG00000232499 RSBN1 LRIG2 SIKE1 SLC16A1-AS1 BCAS2 LRIG2-DT DCLRE1B
GH01J114580 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas 16.6 +602.1 602109 2.6 ZBTB40 SIX5 LCORL FOXA1 POLR2A ATF1 CREB1 HCFC1 MIXL1 ZNF362 BCAS2 LOC105378914 lnc-SYCP1-2 TRIM33 HIPK1 RSBN1 SIKE1 OLFML3 AMPD1 PTPN22
GH01J113944 Enhancer 1.1 ENCODE dbSUPER 26.3 -32.2 -32199 4.4 LCORL SMARCE1 NR2F1 NR2F6 MIXL1 HLF L3MBTL2 RAD21 TEAD4 ZNF652 OLFML3 AP4B1 DCLRE1B RSBN1 PHTF1 TRIM33 RF00017-299 piR-52079-016 HIPK1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around OLFML3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the OLFML3 gene promoter:
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5
  • Evi-1
  • MAZR
  • RORalpha1
  • YY1

Genomic Locations for OLFML3 Gene

Genomic Locations for OLFML3 Gene
chr1:113,979,391-114,035,572
(GRCh38/hg38)
Size:
56,182 bases
Orientation:
Plus strand
chr1:114,522,030-114,524,876
(GRCh37/hg19)
Size:
2,847 bases
Orientation:
Plus strand

Genomic View for OLFML3 Gene

Genes around OLFML3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
OLFML3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for OLFML3 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for OLFML3 Gene

Proteins for OLFML3 Gene

Products:

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  • Protein details for OLFML3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NRN5-OLFL3_HUMAN
    Recommended name:
    Olfactomedin-like protein 3
    Protein Accession:
    Q9NRN5
    Secondary Accessions:
    • Q53FR1
    • Q53HV9
    • Q5SQL6
    • Q69AX9
    • Q8NBJ2

    Protein attributes for OLFML3 Gene

    Size:
    406 amino acids
    Molecular mass:
    46010 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for OLFML3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for OLFML3 Gene

Protein Expression for OLFML3 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for OLFML3 Gene

  • Glycosylation at Asn177 and Asn248
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect
    • OLFL3_HUMAN (1587)

Other Protein References for OLFML3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for OLFML3 Gene

Domains & Families for OLFML3 Gene

Gene Families for OLFML3 Gene

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

Protein Domains for OLFML3 Gene

Blocks:
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for OLFML3 Gene

GenScript: Design optimal peptide antigens:
  • hOLF44 (OLFL3_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9NRN5

UniProtKB/Swiss-Prot:

OLFL3_HUMAN :
  • Belongs to the OLFML3 family.
Family:
  • Belongs to the OLFML3 family.
genes like me logo Genes that share domains with OLFML3: view

Function for OLFML3 Gene

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  2. CRISPR
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Molecular function for OLFML3 Gene

UniProtKB/Swiss-Prot Function:
Secreted scaffold protein that plays an essential role in dorsoventral patterning during early development. Stabilizes axial formation by restricting chordin (CHRD) activity on the dorsal side. Acts by facilitating the association between the tolloid proteases and their substrate chordin (CHRD), leading to enhance chordin (CHRD) degradation (By similarity). May have matrix-related function involved in placental and embryonic development, or play a similar role in other physiological processes.

Phenotypes From GWAS Catalog for OLFML3 Gene

genes like me logo Genes that share phenotypes with OLFML3: view

Animal Models for OLFML3 Gene

MGI Knock Outs for OLFML3:

Animal Model Products

  • Taconic Biosciences Mouse Models for OLFML3

CRISPR Products

miRNA for OLFML3 Gene

miRTarBase miRNAs that target OLFML3

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for OLFML3

Clone Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for OLFML3 Gene

Localization for OLFML3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for OLFML3 Gene

Secreted.

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 OLFML3 gene
Compartment Confidence
extracellular 2
nucleus 2
endoplasmic reticulum 1
mitochondrion 0
cytosol 0
lysosome 0

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for OLFML3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:1903561 extracellular vesicle HDA 24769233
genes like me logo Genes that share ontologies with OLFML3: view

Pathways & Interactions for OLFML3 Gene

PathCards logo

SuperPathways for OLFML3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for OLFML3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007275 multicellular organism development IEA --
genes like me logo Genes that share ontologies with OLFML3: view

No data available for Pathways by source and SIGNOR curated interactions for OLFML3 Gene

Drugs & Compounds for OLFML3 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for OLFML3 Gene

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  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for OLFML3 Gene

(3) REFSEQ mRNAs :
(16) Additional mRNA sequences :
(360) Selected AceView cDNA sequences:
(5) 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 OLFML3

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for OLFML3 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b · 3c ^ 4a · 4b · 4c ^ 5a · 5b
SP1: - -
SP2: - - -
SP3: - -
SP4:
SP5: -
SP6: - -

Relevant External Links for OLFML3 Gene

GeneLoc Exon Structure for
OLFML3
ECgene alternative splicing isoforms for
OLFML3

Expression for OLFML3 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for OLFML3 Gene

mRNA expression in normal human tissues for OLFML3 Gene
mRNA expression by BioGPS for OLFML3 GenemRNA expression by GTEx for OLFML3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for OLFML3 Gene

This gene is overexpressed in Ovary (16.9), Gallbladder (11.5), and Skin (8.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for OLFML3 Gene



Protein tissue co-expression partners for OLFML3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of OLFML3 Gene:

OLFML3

SOURCE GeneReport for Unigene cluster for OLFML3 Gene:

Hs.9315

mRNA Expression by UniProt/SwissProt for OLFML3 Gene:

Q9NRN5-OLFL3_HUMAN
Tissue specificity: Abundant in placenta, moderate in liver and heart, whereas fairly weak in other tissues examined. On term placenta, mainly localized extracellularly surrounding the syncytiotrophoblastic cells and very rarely expressed in the maternal decidua layer.

Evidence on tissue expression from TISSUES for OLFML3 Gene

  • Muscle(4.3)
  • Lymph node(4.2)
  • Spleen(4.2)
  • Stomach(4.2)
  • Blood(4)
  • Nervous system(3.7)
  • Lung(2.2)
genes like me logo Genes that share expression patterns with OLFML3: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for OLFML3 Gene

Orthologs for OLFML3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for OLFML3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia OLFML3 33 32
  • 99.75 (n)
 OneToOne
cow
(Bos Taurus)
 Mammalia OLFML3 33 32
  • 91.3 (n)
 OneToOne
rat
(Rattus norvegicus)
 Mammalia Olfml3 32
  • 89.33 (n)
dog
(Canis familiaris)
 Mammalia OLFML3 33 32
  • 89.24 (n)
 OneToOne
mouse
(Mus musculus)
 Mammalia Olfml3 17 33 32
  • 89 (n)
oppossum
(Monodelphis domestica)
 Mammalia OLFML3 33
  • 85 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves OLFML3 33 32
  • 67.01 (n)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia OLFML3 33
  • 65 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia olfml3 32
  • 63.87 (n)
zebrafish
(Danio rerio)
 Actinopterygii olfml3b 33 32
  • 59.67 (n)
 OneToMany
olfml3a 33
  • 44 (a)
 OneToMany
wufb02c05 32
Species where no ortholog for OLFML3 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)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • 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 OLFML3 Gene

ENSEMBL:
Gene Tree for OLFML3 (if available)
TreeFam:
Gene Tree for OLFML3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for OLFML3: view image

Paralogs for OLFML3 Gene

Paralogs for OLFML3 Gene

(2) SIMAP similar genes for OLFML3 Gene using alignment to 2 proteins:

  • OLFL3_HUMAN
  • M1LAK4_HUMAN
genes like me logo Genes that share paralogs with OLFML3: view

Variants for OLFML3 Gene

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  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for OLFML3 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs193920761 uncertain-significance, Malignant tumor of prostate 113,980,950(+) C/A/G coding_sequence_variant, missense_variant
rs1000038435 -- 113,980,831(+) T/C intron_variant
rs1000215173 -- 113,978,876(+) C/G upstream_transcript_variant
rs1002292470 -- 113,980,203(+) G/T 5_prime_UTR_variant, intron_variant
rs1002949728 -- 113,978,967(+) A/C/G upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for OLFML3 Gene

Variant ID Type Subtype PubMed ID
esv23869 CNV loss 19812545
esv3587240 CNV loss 21293372

Variation tolerance for OLFML3 Gene

Residual Variation Intolerance Score: 30.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.90; 35.36% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for OLFML3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
OLFML3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for OLFML3 Gene

Disorders for OLFML3 Gene

Additional Disease Information for OLFML3

Genetic Association Database
(GAD)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for OLFML3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for OLFML3 Gene

Publications for OLFML3 Gene

  1. hOLF44, a secreted glycoprotein with distinct expression pattern, belongs to an uncharacterized olfactomedin-like subfamily newly identified by phylogenetic analysis. (PMID: 15280020) Zeng LC … Ma WJ (FEBS letters 2004) 3 4 23 56
  2. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 56
  3. Signal sequence and keyword trap in silico for selection of full-length human cDNAs encoding secretion or membrane proteins from oligo-capped cDNA libraries. (PMID: 16303743) Otsuki T … Isogai T (DNA research : an international journal for rapid publication of reports on genes and genomes 2005) 3 4 56
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 56
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 56

ExternalLinks

View latest publications for OLFML3 gene in Mastermind

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