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    S1PR3 sphingosine-1-phosphate receptor 3 [ Homo sapiens (human) ]

    Gene ID: 1903, updated on 10-Dec-2024

    Summary

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    Official Symbol
    S1PR3provided by HGNC
    Official Full Name
    sphingosine-1-phosphate receptor 3provided by HGNC
    Primary source
    HGNC:HGNC:3167
    See related
    Ensembl:ENSG00000213694 MIM:601965; AllianceGenome:HGNC:3167
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    EDG3; LPB3; S1P3; EDG-3; C9orf47; C9orf108; bA791O21.3
    Summary
    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]
    Expression
    Ubiquitous expression in adrenal (RPKM 15.3), esophagus (RPKM 10.2) and 24 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See S1PR3 in Genome Data Viewer
    Location:
    9q22.1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (88990863..89005155)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (101153351..101167644)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (91605778..91620070)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124902205 Neighboring gene Sharpr-MPRA regulatory region 12308 Neighboring gene Sharpr-MPRA regulatory region 209 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:91613461-91613962 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:91613963-91614462 Neighboring gene uncharacterized LOC124902206 Neighboring gene PEST containing nuclear protein pseudogene 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:91652935-91653434 Neighboring gene SHC adaptor protein 3 Neighboring gene negCOR silencer S5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:91787594-91788094 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:91788095-91788595 Neighboring gene Sharpr-MPRA regulatory region 4063 Neighboring gene uncharacterized LOC105376136 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:91896966-91897484 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20005 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20006 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28527

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. A distinct G(i) protein-coupled receptor for sphingosylphosphorylcholine in human leukemia HL-60 cells and human neutrophils. Van Koppen CJ, et al. Mol Pharmacol, 1996 Jun. PMID 8649355
    2. HDL and sphingosine-1-phosphate activate stat3 in prostate cancer DU145 cells via ERK1/2 and S1P receptors, and promote cell migration and invasion. Sekine Y, et al. Prostate, 2011 May 15. PMID 20979115, Free PMC Article
    3. Sphingosine-1-phosphate receptor-3 is a novel biomarker in acute lung injury. Sun X, et al. Am J Respir Cell Mol Biol, 2012 Nov. PMID 22771388, Free PMC Article
    4. Different response patterns of several ligands at the sphingosine-1-phosphate receptor subtype 3 (S1P(3)). Jongsma M, et al. Br J Pharmacol, 2009 Apr. PMID 19309361, Free PMC Article
    5. Attenuation of vascular permeability by methylnaltrexone: role of mOP-R and S1P3 transactivation. Singleton PA, et al. Am J Respir Cell Mol Biol, 2007 Aug. PMID 17395891

    See all (100) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SphK1 deficiency ameliorates the development of atherosclerosis by inhibiting the S1P/S1PR3/Rhoa/ROCK pathway.
      Title: SphK1 deficiency ameliorates the development of atherosclerosis by inhibiting the S1P/S1PR3/Rhoa/ROCK pathway.
    2. Sphingosine-1-phosphate receptor 3 regulates the transendothelial transport of high-density lipoproteins and low-density lipoproteins in opposite ways.
      Title: Sphingosine-1-phosphate receptor 3 regulates the transendothelial transport of high-density lipoproteins and low-density lipoproteins in opposite ways.
    3. Extracellular alpha-synuclein impairs sphingosine 1-phosphate receptor type 3 (S1PR3)-regulated lysosomal delivery of cathepsin D in HeLa cells.
      Title: Extracellular α-synuclein impairs sphingosine 1-phosphate receptor type 3 (S1PR3)-regulated lysosomal delivery of cathepsin D in HeLa cells.
    4. Sphingosine 1-Phosphate Activates S1PR3 to Induce a Proinflammatory Phenotype in Human Myometrial Cells.
      Title: Sphingosine 1-Phosphate Activates S1PR3 to Induce a Proinflammatory Phenotype in Human Myometrial Cells.
    5. Targeting SPHK1/S1PR3-regulated S-1-P metabolic disorder triggers autophagic cell death in pulmonary lymphangiomyomatosis (LAM).
      Title: Targeting SPHK1/S1PR3-regulated S-1-P metabolic disorder triggers autophagic cell death in pulmonary lymphangiomyomatosis (LAM).
    6. The lncRNA H19/miR-766-3p/S1PR3 Axis Contributes to the Hyperproliferation of Keratinocytes and Skin Inflammation in Psoriasis via the AKT/mTOR Pathway.
      Title: The lncRNA H19/miR-766-3p/S1PR3 Axis Contributes to the Hyperproliferation of Keratinocytes and Skin Inflammation in Psoriasis via the AKT/mTOR Pathway.
    7. Sphingosine-1-phosphate receptor 3 potentiates inflammatory programs in normal and leukemia stem cells to promote differentiation.
      Title: Sphingosine-1-phosphate receptor 3 potentiates inflammatory programs in normal and leukemia stem cells to promote differentiation.
    8. Sphingosine-1-phosphate receptor 3 is implicated in BBB injury via the CCL2-CCR2 axis following acute intracerebral hemorrhage.
      Title: Sphingosine-1-phosphate receptor 3 is implicated in BBB injury via the CCL2-CCR2 axis following acute intracerebral hemorrhage.
    9. EGR2-mediated regulation of m(6)A reader IGF2BP proteins drive RCC tumorigenesis and metastasis via enhancing S1PR3 mRNA stabilization.
      Title: EGR2-mediated regulation of m(6)A reader IGF2BP proteins drive RCC tumorigenesis and metastasis via enhancing S1PR3 mRNA stabilization.
    10. Intracellular Sphingosine-1-Phosphate Receptor 3 Contributes to Lung Tumor Cell Proliferation.
      Title: Intracellular Sphingosine-1-Phosphate Receptor 3 Contributes to Lung Tumor Cell Proliferation.
    Submit: New GeneRIF Correction See all GeneRIFs (67)

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Genetic determinants of statin-induced low-density lipoprotein cholesterol reduction: the Justification for the Use of Statins in Prevention: an Intervention Trial Evaluating Rosuvastatin (JUPITER) trial.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ27140, FLJ37523, FLJ45957, FLJ93220, MGC71696, MGC168509, MGC177970, DKFZp547B028

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables G protein-coupled receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables integrin binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables lipid binding TAS
    Traceable Author Statement
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables sphingosine-1-phosphate receptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in G protein-coupled receptor signaling pathway TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in Notch signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in adenylate cyclase-activating G protein-coupled receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in adenylate cyclase-inhibiting G protein-coupled receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in anatomical structure morphogenesis TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of establishment of endothelial barrier IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of cell population proliferation TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in positive regulation of cytosolic calcium ion concentration TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of interleukin-1 beta production IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in sphingosine-1-phosphate receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    		  
    located_in presynapse IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    sphingosine 1-phosphate receptor 3
    Names
    G protein-coupled receptor, endothelial differentiation gene-3
    S1P receptor 3
    S1P receptor EDG3
    S1P receptor Edg-3
    endothelial differentiation G-protein coupled receptor 3
    endothelial differentiation, sphingolipid G-protein-coupled receptor, 3
    sphingosine 1-phosphate receptor Edg-3
    uncharacterized protein C9orf47

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001395848.1 → NP_001382777.1  sphingosine 1-phosphate receptor 3

      Status: REVIEWED

      Source sequence(s)
      AL772202
      Consensus CDS
      CCDS6680.1
      UniProtKB/Swiss-Prot
      Q5SQD8, Q7Z5I2, Q99500
      Conserved Domains (1) summary
      cd15345
      Location:40 → 309
      7tmA_S1PR3_Edg3; sphingosine-1-phosphate receptor subtype 3 (S1PR3 or S1P3), also called endothelial differentiation gene 3 (Edg3), member of the class A family of seven-transmembrane G protein-coupled receptors

    2. NM_005226.4 → NP_005217.2  sphingosine 1-phosphate receptor 3

      See identical proteins and their annotated locations for NP_005217.2

      Status: REVIEWED

      Source sequence(s)
      BC060827, BM990167, DR763542
      Consensus CDS
      CCDS6680.1
      UniProtKB/Swiss-Prot
      Q5SQD8, Q7Z5I2, Q99500
      Related
      ENSP00000350878.2, ENST00000358157.3
      Conserved Domains (1) summary
      cd15345
      Location:40 → 309
      7tmA_S1PR3_Edg3; sphingosine-1-phosphate receptor subtype 3 (S1PR3 or S1P3), also called endothelial differentiation gene 3 (Edg3), member of the class A family of seven-transmembrane G protein-coupled receptors

    RNA

    1. NR_172882.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AL772202
      Related
      ENST00000648341.1

    2. NR_172883.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AL772202
      Related
      ENST00000334490.5

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      88990863..89005155
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      101153351..101167644
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001001938.4: Suppressed sequence

      Description
      NM_001001938.4: This RefSeq was removed because currently there is support for the transcript but not for the protein.

    2. NM_001142413.2: Suppressed sequence

      Description
      NM_001142413.2: This RefSeq was removed because currently there is support for the transcript but not for the protein.
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q99500.2 GenPept UniProtKB/Swiss-Prot:Q99500

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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