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Sphk1 sphingosine kinase 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 170897, updated on 2-Nov-2024

Summary

Official Symbol
Sphk1provided by RGD
Official Full Name
sphingosine kinase 1provided by RGD
Primary source
RGD:620048
See related
EnsemblRapid:ENSRNOG00000010626 AllianceGenome:RGD:620048
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Enables D-erythro-sphingosine kinase activity. Involved in several processes, including cellular response to hydrogen peroxide; cyclooxygenase pathway; and regulation of gene expression. Located in axon and synaptic vesicle. Biomarker of adenocarcinoma and high grade glioma. Human ortholog(s) of this gene implicated in type 2 diabetes mellitus. Orthologous to human SPHK1 (sphingosine kinase 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Thymus (RPKM 63.0), Kidney (RPKM 34.3) and 7 other tissues See more
Orthologs
NEW
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Try the new Transcript table

Genomic context

See Sphk1 in Genome Data Viewer
Location:
10q32.1-q32.2
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (102257413..102263086)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (101758567..101764240)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (105498728..105504401)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene glutamine rich 2 Neighboring gene phosphoribosyl pyrophosphate synthetase-associated protein 1 Neighboring gene sphk1a antisense transcript Neighboring gene ubiquitin-conjugating enzyme E2O Neighboring gene U6 spliceosomal RNA Neighboring gene ribosomal protein L14, pseudogene 1

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

General gene information

Markers

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables ATP binding ISO
Inferred from Sequence Orthology
more info
 
enables D-erythro-sphingosine kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables D-erythro-sphingosine kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables D-erythro-sphingosine kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables D-erythro-sphingosine kinase activity ISO
Inferred from Sequence Orthology
more info
 
enables D-erythro-sphingosine kinase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables acetyltransferase activity ISO
Inferred from Sequence Orthology
more info
 
enables acetyltransferase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables calmodulin binding IEA
Inferred from Electronic Annotation
more info
 
enables calmodulin binding ISO
Inferred from Sequence Orthology
more info
 
enables kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables lipid binding IEA
Inferred from Electronic Annotation
more info
 
enables lipid binding ISO
Inferred from Sequence Orthology
more info
 
enables lipid binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables magnesium ion binding IEA
Inferred from Electronic Annotation
more info
 
enables magnesium ion binding ISO
Inferred from Sequence Orthology
more info
 
enables magnesium ion binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein phosphatase 2A binding IEA
Inferred from Electronic Annotation
more info
 
enables protein phosphatase 2A binding ISO
Inferred from Sequence Orthology
more info
 
enables sphingosine kinase activity IEA
Inferred from Electronic Annotation
more info
 
enables sphingosine kinase activity ISO
Inferred from Sequence Orthology
more info
 
enables sphingosine kinase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables sphingosine-1-phosphate receptor activity IEA
Inferred from Electronic Annotation
more info
 
enables sphingosine-1-phosphate receptor activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within DNA biosynthetic process ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within blood vessel development ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within brain development ISO
Inferred from Sequence Orthology
more info
 
involved_in calcium-mediated signaling IEA
Inferred from Electronic Annotation
more info
 
involved_in calcium-mediated signaling ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to growth factor stimulus IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in cellular response to growth factor stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in cellular response to hydrogen peroxide IEP
Inferred from Expression Pattern
more info
PubMed 
acts_upstream_of_or_within cellular response to hydrogen peroxide ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to starvation IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in cellular response to vascular endothelial growth factor stimulus IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to vascular endothelial growth factor stimulus ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to vascular endothelial growth factor stimulus ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in cyclooxygenase pathway IDA
Inferred from Direct Assay
more info
PubMed 
involved_in female pregnancy IEP
Inferred from Expression Pattern
more info
PubMed 
acts_upstream_of_or_within inflammatory response ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of apoptotic process IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in negative regulation of apoptotic process IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of apoptotic process ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of apoptotic process ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of apoptotic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of ceramide biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of ceramide biosynthetic process ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of ceramide biosynthetic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in phosphorylation IEA
Inferred from Electronic Annotation
more info
 
involved_in phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of NF-kappaB transcription factor activity IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of NF-kappaB transcription factor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of NF-kappaB transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of NF-kappaB transcription factor activity ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of angiogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of angiogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of cell growth IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of cell growth ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of cell migration IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cell migration ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of fibroblast proliferation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of fibroblast proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of interleukin-17 production IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of mitotic cell cycle IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of mitotic cell cycle ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of mitotic nuclear division ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of neuron projection development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of neurotransmitter secretion IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of non-canonical NF-kappaB signal transduction IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of non-canonical NF-kappaB signal transduction ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of non-canonical NF-kappaB signal transduction ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of p38MAPK cascade IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of p38MAPK cascade ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of p38MAPK cascade ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of peptidyl-threonine phosphorylation IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of peptidyl-threonine phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein phosphorylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of protein ubiquitination IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of protein ubiquitination ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of smooth muscle contraction IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of smooth muscle contraction ISO
Inferred from Sequence Orthology
more info
 
involved_in protein acetylation ISO
Inferred from Sequence Orthology
more info
 
involved_in protein acetylation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of endocytosis IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of endocytosis ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of endocytosis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of endosomal vesicle fusion ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of endosomal vesicle fusion ISS
Inferred from Sequence or Structural Similarity
more info
 
acts_upstream_of_or_within regulation of interleukin-1 beta production ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of microglial cell activation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of microglial cell activation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of neuroinflammatory response IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of neuroinflammatory response ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of neuroinflammatory response ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of phagocytosis ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of phagocytosis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of tumor necrosis factor-mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of tumor necrosis factor-mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of tumor necrosis factor-mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of tumor necrosis factor-mediated signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in response to ATP IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to amine IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to interleukin-1 IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to magnesium ion IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to organic cyclic compound IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to progesterone IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to tumor necrosis factor IEA
Inferred from Electronic Annotation
more info
 
involved_in response to tumor necrosis factor ISO
Inferred from Sequence Orthology
more info
 
involved_in response to tumor necrosis factor ISS
Inferred from Sequence or Structural Similarity
more info
 
acts_upstream_of_or_within sphingolipid mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in sphingosine biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in sphingosine biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
involved_in sphingosine biosynthetic process ISO
Inferred from Sequence Orthology
more info
 
involved_in sphingosine metabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in sphingosine metabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in sphingosine-1-phosphate receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in axon IDA
Inferred from Direct Assay
more info
PubMed 
located_in clathrin-coated pit IEA
Inferred from Electronic Annotation
more info
 
located_in clathrin-coated pit ISO
Inferred from Sequence Orthology
more info
 
located_in clathrin-coated pit ISS
Inferred from Sequence or Structural Similarity
more info
 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in cytosol IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in early endosome membrane IEA
Inferred from Electronic Annotation
more info
 
located_in early endosome membrane ISO
Inferred from Sequence Orthology
more info
 
located_in early endosome membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in endocytic vesicle ISO
Inferred from Sequence Orthology
more info
 
located_in endocytic vesicle ISS
Inferred from Sequence or Structural Similarity
more info
 
is_active_in intracellular membrane-bounded organelle IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
located_in presynapse IEA
Inferred from Electronic Annotation
more info
 
is_active_in presynapse ISO
Inferred from Sequence Orthology
more info
 
located_in presynapse ISO
Inferred from Sequence Orthology
more info
 
located_in synaptic vesicle IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
sphingosine kinase 1
Names
SK 1
SPK 1
acetyltransferase SPHK1
NP_001257736.1
NP_001257737.1
NP_001257738.1
NP_001257739.1
NP_001257740.1
NP_596877.2
XP_006247849.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001270807.1NP_001257736.1  sphingosine kinase 1 isoform b

    See identical proteins and their annotated locations for NP_001257736.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate first exon compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 2, 3, 4, 5, and 6 all encode the same isoform (b).
    Source sequence(s)
    BC081738, JAXUCZ010000010
    UniProtKB/Swiss-Prot
    Q642F6, Q91V26
    UniProtKB/TrEMBL
    A6HKX2
    Conserved Domains (1) summary
    PLN02958
    Location:11344
    PLN02958; diacylglycerol kinase/D-erythro-sphingosine kinase
  2. NM_001270808.1NP_001257737.1  sphingosine kinase 1 isoform b

    See identical proteins and their annotated locations for NP_001257737.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate first exon compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 2, 3, 4, 5, and 6 all encode the same isoform (b).
    Source sequence(s)
    BC081738, JAXUCZ010000010
    UniProtKB/Swiss-Prot
    Q642F6, Q91V26
    UniProtKB/TrEMBL
    A6HKX2
    Conserved Domains (1) summary
    PLN02958
    Location:11344
    PLN02958; diacylglycerol kinase/D-erythro-sphingosine kinase
  3. NM_001270809.1NP_001257738.1  sphingosine kinase 1 isoform b

    See identical proteins and their annotated locations for NP_001257738.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate splice junction at the 3' end of the first exon compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 2, 3, 4, 5, and 6 all encode the same isoform (b).
    Source sequence(s)
    BC081738, JAXUCZ010000010
    UniProtKB/Swiss-Prot
    Q642F6, Q91V26
    UniProtKB/TrEMBL
    A6HKX2
    Conserved Domains (1) summary
    PLN02958
    Location:11344
    PLN02958; diacylglycerol kinase/D-erythro-sphingosine kinase
  4. NM_001270810.1NP_001257739.1  sphingosine kinase 1 isoform b

    See identical proteins and their annotated locations for NP_001257739.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) uses an alternate splice junction at the 3' end of the first exon compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 2, 3, 4, 5, and 6 all encode the same isoform (b).
    Source sequence(s)
    BC081738, JAXUCZ010000010
    UniProtKB/Swiss-Prot
    Q642F6, Q91V26
    UniProtKB/TrEMBL
    A6HKX2
    Conserved Domains (1) summary
    PLN02958
    Location:11344
    PLN02958; diacylglycerol kinase/D-erythro-sphingosine kinase
  5. NM_001270811.1NP_001257740.1  sphingosine kinase 1 isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (a).
    Source sequence(s)
    BC081738, JAXUCZ010000010
    UniProtKB/TrEMBL
    A0A0G2K373, Q1HGK5
    Related
    ENSRNOP00000072525.1, ENSRNOT00000083593.3
    Conserved Domains (2) summary
    COG1597
    Location:91443
    LCB5; Diacylglycerol kinase family enzyme [Lipid transport and metabolism, General function prediction only]
    pfam00781
    Location:91197
    DAGK_cat; Diacylglycerol kinase catalytic domain
  6. NM_133386.3NP_596877.2  sphingosine kinase 1 isoform b

    See identical proteins and their annotated locations for NP_596877.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) retains an intron compared to variant 1. The resulting isoform (b) is shorter at the N-terminus compared to isoform a. Variants 2, 3, 4, 5, and 6 all encode the same isoform (b).
    Source sequence(s)
    BC081738, JAXUCZ010000010
    UniProtKB/Swiss-Prot
    Q642F6, Q91V26
    UniProtKB/TrEMBL
    A6HKX2
    Conserved Domains (1) summary
    PLN02958
    Location:11344
    PLN02958; diacylglycerol kinase/D-erythro-sphingosine kinase

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086028.1 Reference GRCr8

    Range
    102257413..102263086
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006247787.4XP_006247849.1  sphingosine kinase 1 isoform X1

    UniProtKB/Swiss-Prot
    Q642F6, Q91V26
    UniProtKB/TrEMBL
    A0A140TAE3
    Conserved Domains (1) summary
    PLN02958
    Location:10343
    PLN02958; diacylglycerol kinase/D-erythro-sphingosine kinase