U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Shpk sedoheptulokinase [ Rattus norvegicus (Norway rat) ]

Gene ID: 287479, updated on 11-Apr-2024

Summary

Go to the top of the page Help
Official Symbol
Shpkprovided by RGD
Official Full Name
sedoheptulokinaseprovided by RGD
Primary source
RGD:1308004
See related
Ensembl: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
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
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

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: 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

Go to the top of the pageHelp

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

Go to the top of the page Help

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 glycerol metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in pentose-phosphate shunt, non-oxidative branch ISO
Inferred from Sequence Orthology
more info
  
involved_in phosphorylation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of inflammatory response ISO
Inferred from Sequence Orthology
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

Go to the top of the page Help
Preferred Names
sedoheptulokinase
NP_001028854.1
XP_038941430.1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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_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, ENSRNOT00000026351.8
    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

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous