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

    Gene ID: 170897, updated on 28-Oct-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, Oct 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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    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