This gene encodes a member of the EDG family of receptors, which are G protein-coupled receptors. This protein has been identified as a functional receptor for sphingosine 1-phosphate and likely contributes to the regulation of angiogenesis and vascular endothelial cell function. [provided by RefSeq, Jul 2008] See more...

Aliases for S1PR3 Gene

Aliases for S1PR3 Gene

  • Sphingosine-1-Phosphate Receptor 3 2 3 5
  • Endothelial Differentiation, Sphingolipid G-Protein-Coupled Receptor, 3 2 3
  • Endothelial Differentiation G-Protein Coupled Receptor 3 3 4
  • Sphingosine 1-Phosphate Receptor Edg-3 3 4
  • Sphingosine 1-Phosphate Receptor 3 3 4
  • S1P Receptor Edg-3 3 4
  • S1P Receptor 3 3 4
  • EDG-3 2 3
  • EDG3 3 4
  • S1P3 3 4
  • G Protein-Coupled Receptor, Endothelial Differentiation Gene-3 3
  • S1P Receptor EDG3 3
  • S1PR3 5
  • LPB3 3

External Ids for S1PR3 Gene

Previous HGNC Symbols for S1PR3 Gene

  • EDG3

Previous GeneCards Identifiers for S1PR3 Gene

  • GC09P090797
  • GC09P090799
  • GC09P091606
  • GC09P061439

Summaries for S1PR3 Gene

Entrez Gene Summary for S1PR3 Gene

  • This gene encodes a member of the EDG family of receptors, which are G protein-coupled receptors. This protein has been identified as a functional receptor for sphingosine 1-phosphate and likely contributes to the regulation of angiogenesis and vascular endothelial cell function. [provided by RefSeq, Jul 2008]

GeneCards Summary for S1PR3 Gene

S1PR3 (Sphingosine-1-Phosphate Receptor 3) is a Protein Coding gene. Diseases associated with S1PR3 include Bacterial Sepsis and Second-Degree Atrioventricular Block. Among its related pathways are Signaling by GPCR and Peptide ligand-binding receptors. Gene Ontology (GO) annotations related to this gene include G protein-coupled receptor activity and integrin binding. An important paralog of this gene is S1PR1.

UniProtKB/Swiss-Prot Summary for S1PR3 Gene

  • Receptor for the lysosphingolipid sphingosine 1-phosphate (S1P). S1P is a bioactive lysophospholipid that elicits diverse physiological effect on most types of cells and tissues. When expressed in rat HTC4 hepatoma cells, is capable of mediating S1P-induced cell proliferation and suppression of apoptosis.

Tocris Summary for S1PR3 Gene

  • Sphingosine-1-phosphate (S1P) receptors are a group of G-protein-coupled receptors that are currently divided into five subtypes; S1P1, S1P2, S1P3, S1P4 and S1P5. They are expressed in a wide variety of tissues, with each subtype exhibiting a different cell specificity.

Gene Wiki entry for S1PR3 Gene

Additional gene information for S1PR3 Gene

No data available for CIViC Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for S1PR3 Gene

Genomics for S1PR3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for S1PR3 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
GH09J088988 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE CraniofacialAtlas 255.1 +1.5 1537 6.4 BCL11A CTCF SIN3A RXRA CTBP1 KLF9 FOXA2 SP2 SPI1 BATF S1PR3 C9orf47 lnc-SHC3-8 lnc-SHC3-1 SHC3
GH09J088976 Promoter 0.3 EPDnew 250.4 -14.8 -14762 0.1 S1PR3 ENSG00000228658 C9orf47 NXNL2
GH09J088921 Enhancer 1.3 FANTOM5 Ensembl ENCODE dbSUPER 7 -66.4 -66362 8.6 BCL11A CTCF PRDM1 RAD21 CBFB BHLHE40 POLR2A MYC MAX NR2F1 lnc-SHC3-9 S1PR3 C9orf47 SECISBP2 piR-33905-092 lnc-C9orf47-3 NXNL2
GH09J088947 Enhancer 1.5 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 4.7 -40.9 -40900 4.5 CEBPA BRCA1 CEBPB FOXA2 MAX MAFF EP300 PAX8 TAL1 PRDM1 C9orf47 S1PR3 piR-56759-582 piR-32130-047 HSALNG0072572 NXNL2
GH09J088742 Enhancer 1.4 FANTOM5 Ensembl ENCODE CraniofacialAtlas 4.8 -244.1 -244089 9.1 FEZF1 CEBPA ZIC2 CEBPB ELK1 ZNF395 MAX EP300 TAL1 RAD21 MIR4289 S1PR3 HSALNG0072566 ENSG00000286414 NXNL2 C9orf47
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around S1PR3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for S1PR3

Top Transcription factor binding sites by QIAGEN in the S1PR3 gene promoter:
  • AhR
  • AML1a
  • Bach1
  • MIF-1
  • Pax-4a
  • POU3F2
  • POU3F2 (N-Oct-5a)
  • POU3F2 (N-Oct-5b)

Genomic Locations for S1PR3 Gene

Latest Assembly
chr9:88,990,863-89,005,155
(GRCh38/hg38)
Size:
14,293 bases
Orientation:
Plus strand

Previous Assembly
chr9:91,606,383-91,620,070
(GRCh37/hg19 by Entrez Gene)
Size:
13,688 bases
Orientation:
Plus strand

Genomic View for S1PR3 Gene

Genes around S1PR3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
S1PR3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for S1PR3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for S1PR3 Gene

Proteins for S1PR3 Gene

  • Protein details for S1PR3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q99500-S1PR3_HUMAN
    Recommended name:
    Sphingosine 1-phosphate receptor 3
    Protein Accession:
    Q99500
    Secondary Accessions:
    • Q5SQD8
    • Q7Z5I2

    Protein attributes for S1PR3 Gene

    Size:
    378 amino acids
    Molecular mass:
    42250 Da
    Quaternary structure:
    No Data Available

neXtProt entry for S1PR3 Gene

Post-translational modifications for S1PR3 Gene

  • Glycosylation at Asn15
  • Modification sites at PhosphoSitePlus

Other Protein References for S1PR3 Gene

No data available for DME Specific Peptides for S1PR3 Gene

Domains & Families for S1PR3 Gene

Gene Families for S1PR3 Gene

HGNC:
IUPHAR :
Human Protein Atlas (HPA):
  • G-protein coupled receptors
  • Predicted membrane proteins

Protein Domains for S1PR3 Gene

InterPro:
Blocks:
  • Sphingosine 1-phosphate receptor family signature
  • EDG-3 sphingosine 1-phosphate receptor signature
ProtoNet:

Suggested Antigen Peptide Sequences for S1PR3 Gene

GenScript: Design optimal peptide antigens:
  • Sphingosine 1-phosphate receptor Edg-3 (S1PR3_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q99500

UniProtKB/Swiss-Prot:

S1PR3_HUMAN :
  • Belongs to the G-protein coupled receptor 1 family.
Family:
  • Belongs to the G-protein coupled receptor 1 family.
genes like me logo Genes that share domains with S1PR3: view

Function for S1PR3 Gene

Molecular function for S1PR3 Gene

UniProtKB/Swiss-Prot Function:
Receptor for the lysosphingolipid sphingosine 1-phosphate (S1P). S1P is a bioactive lysophospholipid that elicits diverse physiological effect on most types of cells and tissues. When expressed in rat HTC4 hepatoma cells, is capable of mediating S1P-induced cell proliferation and suppression of apoptosis.

Phenotypes From GWAS Catalog for S1PR3 Gene

Gene Ontology (GO) - Molecular Function for S1PR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004930 G protein-coupled receptor activity TAS,IBA 21873635
GO:0005178 integrin binding IPI 24851274
GO:0005515 protein binding IPI 24851274
GO:0008289 lipid binding TAS 9409733
GO:0038036 sphingosine-1-phosphate receptor activity IEA --
genes like me logo Genes that share ontologies with S1PR3: view
genes like me logo Genes that share phenotypes with S1PR3: view

Animal Models for S1PR3 Gene

MGI Knock Outs for S1PR3:

Animal Models for research

  • Taconic Biosciences Mouse Models for S1PR3

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for S1PR3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for S1PR3 Gene

Localization for S1PR3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for S1PR3 Gene

Cell membrane. Multi-pass membrane protein.

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 S1PR3 gene
Compartment Confidence
plasma membrane 5
extracellular 2
cytoskeleton 2
mitochondrion 2
nucleus 2
endoplasmic reticulum 2
cytosol 2
peroxisome 1
endosome 1
lysosome 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for S1PR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005737 cytoplasm IBA 21873635
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane TAS 9409733
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with S1PR3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for S1PR3 Gene

Pathways & Interactions for S1PR3 Gene

genes like me logo Genes that share pathways with S1PR3: view

Pathways by source for S1PR3 Gene

4 Qiagen pathways for S1PR3 Gene
  • Ceramide Pathway
  • eNOS Signaling
  • Human Embryonic Stem Cell Pluripotency
  • S-1P Stimulated Signaling

SIGNOR curated interactions for S1PR3 Gene

Gene Ontology (GO) - Biological Process for S1PR3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003376 sphingosine-1-phosphate receptor signaling pathway IEA --
GO:0006954 inflammatory response IEA --
GO:0007165 signal transduction IEA --
GO:0007186 G protein-coupled receptor signaling pathway TAS --
GO:0007189 adenylate cyclase-activating G protein-coupled receptor signaling pathway IBA 21873635
genes like me logo Genes that share ontologies with S1PR3: view

Drugs & Compounds for S1PR3 Gene

(31) Drugs for S1PR3 Gene - From: DrugBank, ApexBio, DGIdb, IUPHAR, HMDB, Tocris, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Fingolimod Approved, Investigational Pharma Target, modulator 0
Sphingosine Experimental Pharma 0
Sphingosine-1-phosphate Pharma Agonist endogenous second messenger and ligand for S1PR1, Endogenous agonist at S1P1-5 0
CYM 5442 hydrochloride Pharma Selective S1P1 receptor agonist 0
RP 001 hydrochloride Pharma Potent S1P1 agonist 0

(4) Additional Compounds for S1PR3 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs

(5) Tocris Compounds for S1PR3 Gene

Compound Action Cas Number
CYM 5442 hydrochloride Selective S1P1 receptor agonist 1094042-01-9
RP 001 hydrochloride Potent S1P1 agonist 1306761-53-4
SEW 2871 Cell-permeable, selective S1P1 receptor agonist 256414-75-2
Sphingosine-1-phosphate Endogenous agonist at S1P1-5 26993-30-6
TC-SP 14 Potent S1P1 receptor agonist 1257093-40-5

(15) ApexBio Compounds for S1PR3 Gene

Compound Action Cas Number
BAF312 (Siponimod) S1P agonist,potent and selective 1230487-00-9
CS 2100 913827-99-3
CYM 50260 1355026-60-6
CYM 50308 1345858-76-5
CYM 50358 hydrochloride
CYM 5442 hydrochloride 1094042-01-9
CYM 5541 945128-26-7
Fingolimod (FTY720) S1P receptors agonist 162359-56-0
JTE 013 547756-93-4
N,N-Dimethylsphingosine 119567-63-4
RP 001 hydrochloride 1306761-53-4
SEW 2871 256414-75-2
TC-G 1006 1324003-64-6
VPC 23019 S1P1/S1P3 receptor antagonist 449173-19-7
W146 909725-61-7
genes like me logo Genes that share compounds with S1PR3: view

Drug products for research

Transcripts for S1PR3 Gene

mRNA/cDNA for S1PR3 Gene

1 REFSEQ mRNAs :
8 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 S1PR3

Alternative Splicing Database (ASD) splice patterns (SP) for S1PR3 Gene

No ASD Table

Relevant External Links for S1PR3 Gene

GeneLoc Exon Structure for
S1PR3

Expression for S1PR3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for S1PR3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for S1PR3 Gene

This gene is overexpressed in Esophagus - Muscularis (x5.6), Artery - Coronary (x4.9), and Esophagus - Gastroesophageal Junction (x4.4).

Protein differential expression in normal tissues from HIPED for S1PR3 Gene

This gene is overexpressed in Prostate (54.8) and Fetal heart (14.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for S1PR3 Gene



Protein tissue co-expression partners for S1PR3 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for S1PR3

SOURCE GeneReport for Unigene cluster for S1PR3 Gene:

Hs.585118

mRNA Expression by UniProt/SwissProt for S1PR3 Gene:

Q99500-S1PR3_HUMAN
Tissue specificity: Expressed in all tissues, but most abundantly in heart, placenta, kidney, and liver.

Evidence on tissue expression from TISSUES for S1PR3 Gene

  • Nervous system(4.6)
  • Heart(2.9)
  • Spleen(2.6)
  • Muscle(2.5)
  • Lymph node(2.4)
  • Kidney(2.4)
  • Blood(2.2)
  • Adrenal gland(2)
  • Liver(2)
genes like me logo Genes that share expression patterns with S1PR3: view

Primer products for research

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for S1PR3 Gene

Orthologs for S1PR3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for S1PR3 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia S1PR3 30 31
  • 99.74 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia S1PR3 30 31
  • 86.68 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia S1PR3 30 31
  • 86.4 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia S1pr3 30 17 31
  • 85.5 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia S1pr3 30
  • 84.79 (n)
Oppossum
(Monodelphis domestica)
Mammalia S1PR3 31
  • 76 (a)
OneToOne
Chicken
(Gallus gallus)
Aves S1PR3 30 31
  • 70.9 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia S1PR3 31
  • 72 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia s1pr3 30
  • 67.88 (n)
Zebrafish
(Danio rerio)
Actinopterygii FP085391.2 31
  • 67 (a)
OneToOne
LOC100332187 30
  • 65.69 (n)
Species where no ortholog for S1PR3 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)
  • Platypus (Ornithorhynchus anatinus)
  • 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 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 S1PR3 Gene

ENSEMBL:
Gene Tree for S1PR3 (if available)
TreeFam:
Gene Tree for S1PR3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for S1PR3: view image

Paralogs for S1PR3 Gene

(11) SIMAP similar genes for S1PR3 Gene using alignment to 1 proteins:

  • S1PR3_HUMAN
genes like me logo Genes that share paralogs with S1PR3: view

Variants for S1PR3 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for S1PR3 Gene

SNP ID Clinical significance and condition Chr 09 pos Variation AA Info Type
rs34075341 - p.Arg243Gln

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for S1PR3 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 S1PR3 Gene

Variant ID Type Subtype PubMed ID
esv29340 CNV gain+loss 19812545
esv3621014 CNV gain 21293372

Variation tolerance for S1PR3 Gene

Residual Variation Intolerance Score: 39.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.87; 58.94% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for S1PR3 Gene

Human Gene Mutation Database (HGMD)
S1PR3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
S1PR3

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for S1PR3 Gene

Disorders for S1PR3 Gene

MalaCards: The human disease database

(6) MalaCards diseases for S1PR3 Gene - From: COP and GCD

Disorder Aliases PubMed IDs
bacterial sepsis
second-degree atrioventricular block
  • second-degree heart block
pulmonary edema
mouth disease
  • mouth disorders
macular retinal edema
  • macular edema
- elite association - COSMIC cancer census association via MalaCards
Search S1PR3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for S1PR3

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with S1PR3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for S1PR3 Gene

Publications for S1PR3 Gene

  1. Identification of cDNAs encoding two G protein-coupled receptors for lysosphingolipids. (PMID: 9409733) An S … Goetzl EJ (FEBS letters 1997) 2 3 4 23
  2. Molecular cloning of the novel human G protein-coupled receptor (GPCR) gene mapped on chromosome 9. (PMID: 8878560) Yamaguchi F … Brenner S (Biochemical and biophysical research communications 1996) 2 3 4 23
  3. Sphingosine 1-phosphate-induced cell proliferation, survival, and related signaling events mediated by G protein-coupled receptors Edg3 and Edg5. (PMID: 10617617) An S … Bleu T (The Journal of biological chemistry 2000) 3 4 23
  4. Differential pharmacological properties and signal transduction of the sphingosine 1-phosphate receptors EDG-1, EDG-3, and EDG-5. (PMID: 10383399) Ancellin N … Hla T (The Journal of biological chemistry 1999) 3 4 23
  5. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 41

Products for S1PR3 Gene

Sources for S1PR3 Gene