Human Gene SPHK1 (ENST00000590959.5) Description and Page Index
  Description: Homo sapiens sphingosine kinase 1 (SPHK1), transcript variant 1, mRNA. (from RefSeq NM_021972)
RefSeq Summary (NM_021972): The protein encoded by this gene catalyzes the phosphorylation of sphingosine to form sphingosine-1-phosphate (S1P), a lipid mediator with both intra- and extracellular functions. Intracellularly, S1P regulates proliferation and survival, and extracellularly, it is a ligand for cell surface G protein-coupled receptors. This protein, and its product S1P, play a key role in TNF-alpha signaling and the NF-kappa-B activation pathway important in inflammatory, antiapoptotic, and immune processes. Phosphorylation of this protein alters its catalytic activity and promotes its translocation to the plasma membrane. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Sep 2017].
Gencode Transcript: ENST00000590959.5
Gencode Gene: ENSG00000176170.13
Transcript (Including UTRs)
   Position: hg38 chr17:76,384,621-76,387,860 Size: 3,240 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg38 chr17:76,385,645-76,387,586 Size: 1,942 Coding Exon Count: 5 

Page IndexSequence and LinksMalaCardsCTDRNA-Seq ExpressionMicroarray Expression
RNA StructureOther SpeciesmRNA DescriptionsPathwaysOther NamesMethods
Data last updated: 2019-09-04

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:76,384,621-76,387,860)mRNA (may differ from genome)Protein (398 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsHGNC
LynxMGIOMIMPubMedStanford SOURCEWikipedia

-  MalaCards Disease Associations
  MalaCards Gene Search: SPHK1
Diseases sorted by gene-association score: renal fibrosis (4)

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 20.13 RPKM in Nerve - Tibial
Total median expression: 196.86 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -198.80380-0.523 Picture PostScript Text
3' UTR -105.20274-0.384 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.

-  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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Descriptions from all associated GenBank mRNAs
  AK122781 - Homo sapiens cDNA FLJ16332 fis, clone SYNOV2016837, highly similar to Sphingosine kinase 1 (EC 2.7.1.-).
AK095578 - Homo sapiens cDNA FLJ38259 fis, clone FCBBF3001302, highly similar to Homo sapiens sphingosine kinase (SPHK1) mRNA.
AK022402 - Homo sapiens cDNA FLJ12340 fis, clone MAMMA1002268, moderately similar to Mus musculus sphingosine kinase (SPHK1a) mRNA.
BC009419 - Homo sapiens sphingosine kinase 1, mRNA (cDNA clone MGC:15040 IMAGE:3506924), complete cds.
AK225250 - Homo sapiens mRNA for sphingosine kinase 1 isoform 2 variant, clone: DMC02610.
AK225258 - Homo sapiens mRNA for sphingosine kinase 1 isoform 1 variant, clone: DMC03040.
BC030553 - Homo sapiens sphingosine kinase 1, mRNA (cDNA clone MGC:40267 IMAGE:5213270), complete cds.
AF238083 - Homo sapiens sphingosine kinase-1 mRNA, complete cds.
BC014439 - Homo sapiens sphingosine kinase 1, mRNA (cDNA clone MGC:22956 IMAGE:4871343), complete cds.
BC008040 - Homo sapiens sphingosine kinase 1, mRNA (cDNA clone MGC:15041 IMAGE:3831657), complete cds.
JD461987 - Sequence 443011 from Patent EP1572962.
AK292294 - Homo sapiens cDNA FLJ77593 complete cds, highly similar to Homo sapiens sphingosine kinase 1 (SPHK1), transcript variant 2, mRNA.
CU688902 - Synthetic construct Homo sapiens gateway clone IMAGE:100023222 5' read SPHK1 mRNA.
CU676993 - Synthetic construct Homo sapiens gateway clone IMAGE:100021981 5' read SPHK1 mRNA.
KJ897925 - Synthetic construct Homo sapiens clone ccsbBroadEn_07319 SPHK1 gene, encodes complete protein.
AK292614 - Homo sapiens cDNA FLJ78254 complete cds.
AK023393 - Homo sapiens cDNA FLJ13331 fis, clone OVARC1001809, moderately similar to Mus musculus sphingosine kinase (SPHK1a) mRNA.
AF266756 - Homo sapiens sphingosine kinase (SPHK1) mRNA, complete cds.
JD231092 - Sequence 212116 from Patent EP1572962.
JD139323 - Sequence 120347 from Patent EP1572962.
JD444356 - Sequence 425380 from Patent EP1572962.
AF200328 - Homo sapiens sphingosine kinase (SPHK) mRNA, complete cds.
CU679355 - Synthetic construct Homo sapiens gateway clone IMAGE:100017184 5' read SPHK1 mRNA.
KJ905363 - Synthetic construct Homo sapiens clone ccsbBroadEn_14918 SPHK1 gene, encodes complete protein.
KJ897924 - Synthetic construct Homo sapiens clone ccsbBroadEn_07318 SPHK1 gene, encodes complete protein.
CU675907 - Synthetic construct Homo sapiens gateway clone IMAGE:100019184 5' read SPHK1 mRNA.
AJ245504 - Homo sapiens mRNA for sphingosine kinase (gene SPK).
BC004112 - Homo sapiens sphingosine kinase 1, mRNA (cDNA clone IMAGE:3832587), partial cds.
JD382037 - Sequence 363061 from Patent EP1572962.
JD258596 - Sequence 239620 from Patent EP1572962.
JD535143 - Sequence 516167 from Patent EP1572962.
JD330111 - Sequence 311135 from Patent EP1572962.
JD255930 - Sequence 236954 from Patent EP1572962.
JD514847 - Sequence 495871 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa00600 - Sphingolipid metabolism
hsa01100 - Metabolic pathways
hsa04020 - Calcium signaling pathway
hsa04370 - VEGF signaling pathway
hsa04666 - Fc gamma R-mediated phagocytosis

BioCarta from NCI Cancer Genome Anatomy Project
h_edg1Pathway - Phospholipids as signalling intermediaries

-  Other Names for This Gene
  Alternate Gene Symbols: NM_021972, uc002jrh.1, uc002jrh.2, uc002jrh.3
UCSC ID: uc002jrh.3
RefSeq Accession: NM_021972
CCDS: CCDS45785.1, CCDS59297.1

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