Human Gene S1PR5 (ENST00000333430.6_7) from GENCODE V47lift37
  Description: sphingosine-1-phosphate receptor 5, transcript variant 1 (from RefSeq NM_030760.5)
Gencode Transcript: ENST00000333430.6_7
Gencode Gene: ENSG00000180739.15_14
Transcript (Including UTRs)
   Position: hg19 chr19:10,623,418-10,628,123 Size: 4,706 Total Exon Count: 2 Strand: -
Coding Region
   Position: hg19 chr19:10,624,491-10,625,687 Size: 1,197 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:10,623,418-10,628,123)mRNA (may differ from genome)Protein (398 aa)
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-  Comments and Description Text from UniProtKB
  ID: S1PR5_HUMAN
DESCRIPTION: RecName: Full=Sphingosine 1-phosphate receptor 5; Short=S1P receptor 5; Short=S1P5; AltName: Full=Endothelial differentiation G-protein-coupled receptor 8; AltName: Full=Sphingosine 1-phosphate receptor Edg-8; Short=S1P receptor Edg-8;
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. Is coupled to both the G(i/0)alpha and G(12) subclass of heteromeric G-proteins (By similarity). May play a regulatory role in the transformation of radial glial cells into astrocytes and may affect proliferative activity of these cells.
SUBCELLULAR LOCATION: Cell membrane; Multi-pass membrane protein.
TISSUE SPECIFICITY: Widely expressed in the brain, most prominently in the corpus callosum, which is predominantly white matter. Detected in spleen, peripheral blood leukocytes, placenta, lung, aorta and fetal spleen. Low-level signal detected in many tissue extracts. Overexpressed in leukemic large granular lymphocytes. Isoform 1 is predominantly expressed in peripheral tissues. Isoform 2 is expressed in brain, spleen and peripheral blood leukocytes.
DEVELOPMENTAL STAGE: At 24 weeks of gestation, fragments of radial glial fibers are positive within the cortical plate and subplate of allocortical areas. These positive fragments often appear enlarged as varicosities and some of them terminate at blood vessels. Between 28 and 30 weeks of gestation, all iso- and allocortical areas contain immunolabeled radial glial fibers revealing curvature next to sulci. After 32 weeks of gestation, radial glial fibers gradually disappear; instead positive transitional stages between radial glia and astrocytes were found.
SIMILARITY: Belongs to the G-protein coupled receptor 1 family.

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 22.10 RPKM in Brain - Spinal cord (cervical c-1)
Total median expression: 140.47 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -31.0068-0.456 Picture PostScript Text
3' UTR -338.301073-0.315 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000276 - 7TM_GPCR_Rhodpsn
IPR005386 - EDG8_S1P_rcpt
IPR017452 - GPCR_Rhodpsn_supfam
IPR004061 - S1P_rcpt

Pfam Domains:
PF00001 - 7 transmembrane receptor (rhodopsin family)

SCOP Domains:
81321 - Family A G protein-coupled receptor-like

ModBase Predicted Comparative 3D Structure on Q9H228
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004871 signal transducer activity
GO:0004930 G-protein coupled receptor activity
GO:0038036 sphingosine-1-phosphate receptor activity

Biological Process:
GO:0003376 sphingosine-1-phosphate signaling pathway
GO:0007165 signal transduction
GO:0007186 G-protein coupled receptor signaling pathway
GO:0045664 regulation of neuron differentiation

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AF331840 - Homo sapiens SPPR mRNA, complete cds, alternatively spliced.
JD463272 - Sequence 444296 from Patent EP1572962.
JD337720 - Sequence 318744 from Patent EP1572962.
JD535503 - Sequence 516527 from Patent EP1572962.
JD509556 - Sequence 490580 from Patent EP1572962.
JD552755 - Sequence 533779 from Patent EP1572962.
JD084918 - Sequence 65942 from Patent EP1572962.
JD110437 - Sequence 91461 from Patent EP1572962.
JD248818 - Sequence 229842 from Patent EP1572962.
JD357120 - Sequence 338144 from Patent EP1572962.
JD367666 - Sequence 348690 from Patent EP1572962.
JD450746 - Sequence 431770 from Patent EP1572962.
JD107945 - Sequence 88969 from Patent EP1572962.
JD513550 - Sequence 494574 from Patent EP1572962.
JD160843 - Sequence 141867 from Patent EP1572962.
JD564740 - Sequence 545764 from Patent EP1572962.
AF331841 - Homo sapiens SPPR-1 mRNA, complete cds, alternatively spliced.
AF331842 - Homo sapiens SPPR-2 mRNA, complete cds, alternatively spliced.
BC067781 - Homo sapiens sphingosine-1-phosphate receptor 5, mRNA (cDNA clone MGC:87172 IMAGE:5286249), complete cds.
AF088014 - Homo sapiens full length insert cDNA clone YY85D04.
BC034703 - Homo sapiens sphingosine-1-phosphate receptor 5, mRNA (cDNA clone MGC:21772 IMAGE:4754850), complete cds.
AK074661 - Homo sapiens cDNA FLJ90180 fis, clone MAMMA1000681, moderately similar to Endothelial differentiation, sphingolipid G-protein-coupled receptor, 8.
AK094880 - Homo sapiens cDNA FLJ37561 fis, clone BRCOC2000404, highly similar to Rattus norvegicus sphingosine 1-phosphate receptor Edg-8 (Edg-8) mRNA.
JD286209 - Sequence 267233 from Patent EP1572962.
JD436418 - Sequence 417442 from Patent EP1572962.
JD355884 - Sequence 336908 from Patent EP1572962.
JD314027 - Sequence 295051 from Patent EP1572962.
JD108381 - Sequence 89405 from Patent EP1572962.
JD177196 - Sequence 158220 from Patent EP1572962.
JD549905 - Sequence 530929 from Patent EP1572962.
JD486702 - Sequence 467726 from Patent EP1572962.
KJ898957 - Synthetic construct Homo sapiens clone ccsbBroadEn_08351 S1PR5 gene, encodes complete protein.
DQ891290 - Synthetic construct clone IMAGE:100003920; FLH170785.01X; RZPDo839B07100D endothelial differentiation, sphingolipid G-protein-coupled receptor, 8 (EDG8) gene, encodes complete protein.
DQ893341 - Synthetic construct clone IMAGE:100005971; FLH196406.01X; RZPDo839C11156D endothelial differentiation, sphingolipid G-protein-coupled receptor, 8 (EDG8) gene, encodes complete protein.
DQ894474 - Synthetic construct Homo sapiens clone IMAGE:100008934; FLH170781.01L; RZPDo839B0799D endothelial differentiation, sphingolipid G-protein-coupled receptor, 8 (EDG8) gene, encodes complete protein.
DQ896661 - Synthetic construct Homo sapiens clone IMAGE:100011121; FLH196402.01L; RZPDo839C11155D endothelial differentiation, sphingolipid G-protein-coupled receptor, 8 (EDG8) gene, encodes complete protein.
AB385542 - Synthetic construct DNA, clone: pF1KB5174, Homo sapiens EDG8 gene for sphingosine 1-phosphate receptor Edg-8, complete cds, without stop codon, in Flexi system.
LF208384 - JP 2014500723-A/15887: Polycomb-Associated Non-Coding RNAs.
MA443961 - JP 2018138019-A/15887: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9H228 (Reactome details) participates in the following event(s):

R-HSA-419428 S1P-binding receptors bind S1P
R-HSA-749454 The Ligand:GPCR:Gi complex dissociates
R-HSA-749456 Liganded Gi-activating GPCRs bind inactive heterotrimeric G-protein Gi
R-HSA-380073 Liganded Gi-activating GPCR acts as a GEF for Gi
R-HSA-419408 Lysosphingolipid and LPA receptors
R-HSA-418594 G alpha (i) signalling events
R-HSA-373076 Class A/1 (Rhodopsin-like receptors)
R-HSA-388396 GPCR downstream signalling
R-HSA-500792 GPCR ligand binding
R-HSA-372790 Signaling by GPCR
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: EDG8, ENST00000333430.1, ENST00000333430.2, ENST00000333430.3, ENST00000333430.4, ENST00000333430.5, NM_030760, Q6NW11, Q9H228, S1PR5_HUMAN, uc317trb.1, uc317trb.2
UCSC ID: ENST00000333430.6_7
RefSeq Accession: NM_030760.5
Protein: Q9H228 (aka S1PR5_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.