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    Shpk sedoheptulokinase [ Rattus norvegicus (Norway rat) ]

    Gene ID: 287479, updated on 18-Sep-2024

    Summary

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    Official Symbol
    Shpkprovided by RGD
    Official Full Name
    sedoheptulokinaseprovided by RGD
    Primary source
    RGD:1308004
    See related
    EnsemblRapid:ENSRNOG00000019458 AllianceGenome:RGD:1308004
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Carkl
    Summary
    Predicted to enable sedoheptulokinase activity. Predicted to be involved in several processes, including cellular response to cytokine stimulus; cellular response to lipopolysaccharide; and pentose-phosphate shunt, non-oxidative branch. Predicted to be located in cytoplasm. Predicted to be active in cytosol. Orthologous to human SHPK (sedoheptulokinase). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Liver (RPKM 198.3), Kidney (RPKM 121.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Shpk in Genome Data Viewer
    Location:
    10q24
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (58316065..58340489)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (57817551..57841981)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (59765328..59789676)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene Tax1 binding protein 3 Neighboring gene cystinosin, lysosomal cystine transporter Neighboring gene transient receptor potential cation channel, subfamily V, member 1 Neighboring gene transient receptor potential cation channel, subfamily V, member 3 Neighboring gene aspartoacylase

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Characterization of mammalian sedoheptulokinase and mechanism of formation of erythritol in sedoheptulokinase deficiency. Kardon T, et al. FEBS Lett, 2008 Oct 15. PMID 18775706
    2. The sedoheptulose kinase CARKL directs macrophage polarization through control of glucose metabolism. Haschemi A, et al. Cell Metab, 2012 Jun 6. PMID 22682222, Free PMC Article
    3. Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach. Gauci S, et al. Anal Chem, 2009 Jun 1. PMID 19413330
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC124840

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables sedoheptulokinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables sedoheptulokinase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in carbohydrate metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cellular response to interleukin-13 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cellular response to interleukin-4 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cellular response to lipopolysaccharide IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cellular response to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in pentose-phosphate shunt, non-oxidative branch ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in phosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in phosphorylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of inflammatory response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of macrophage activation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of macrophage activation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    sedoheptulokinase
    NP_001028854.1
    XP_038941430.1

    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_001033682.1 → NP_001028854.1  sedoheptulokinase

      See identical proteins and their annotated locations for NP_001028854.1

      Status: PROVISIONAL

      Source sequence(s)
      BC101914
      UniProtKB/TrEMBL
      A6HGI8, F7FQC8, Q3MID4
      Related
      ENSRNOP00000026351.5, ENSRNOT00000026351.9
      Conserved Domains (1) summary
      cd07777
      Location:5 → 466
      FGGY_SHK_like; sedoheptulokinase-like proteins; a subfamily of the FGGY family of carbohydrate kinases

    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
      58316065..58340489
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039085502.2 → XP_038941430.1  sedoheptulokinase isoform X1

      Conserved Domains (1) summary
      cl17037
      Location:5 → 219
      NBD_sugar-kinase_HSP70_actin; Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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