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    Degs2 delta(4)-desaturase, sphingolipid 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 314438, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Degs2provided by RGD
    Official Full Name
    delta(4)-desaturase, sphingolipid 2provided by RGD
    Primary source
    RGD:1305023
    See related
    AllianceGenome:RGD:1305023
    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
    RGD1305023
    Summary
    Predicted to enable sphingolipid delta-4 desaturase activity. Predicted to be involved in ceramide biosynthetic process and sphinganine metabolic process. Predicted to act upstream of or within sphingolipid biosynthetic process. Predicted to be located in endoplasmic reticulum membrane. Orthologous to human DEGS2 (delta 4-desaturase, sphingolipid 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 564.2) and Thymus (RPKM 56.1) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Degs2 in Genome Data Viewer
    Location:
    6q32
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (133360449..133377677, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (127596063..127613293, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (132591968..132608600, complement)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene EMAP like 1 Neighboring gene uncharacterized LOC134479476 Neighboring gene Enah/Vasp-like Neighboring gene uncharacterized LOC102555052 Neighboring gene microRNA 342 Neighboring gene uncharacterized LOC108351299 Neighboring gene Y box binding protein 1, pseudogene 24

    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. Myristic acid increases the activity of dihydroceramide Delta4-desaturase 1 through its N-terminal myristoylation. Beauchamp E, et al. Biochimie, 2007 Dec. PMID 17716801
    2. Identification of an essential sequence for dihydroceramide C-4 hydroxylase activity of mouse DES2. Omae F, et al. FEBS Lett, 2004 Oct 8. PMID 15474011
    3. Dihydroceramide:sphinganine C-4-hydroxylation requires Des2 hydroxylase and the membrane form of cytochrome b5. Enomoto A, et al. Biochem J, 2006 Jul 15. PMID 16571104, Free PMC Article
    4. Dihydroceramide-based response to hypoxia. Devlin CM, et al. J Biol Chem, 2011 Nov 4. PMID 21914808, Free PMC Article
    5. Identification and characterization of a sphingolipid delta 4-desaturase family. Ternes P, et al. J Biol Chem, 2002 Jul 12. PMID 11937514

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC112667

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables sphingolipid C4-monooxygenase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables sphingolipid delta-4 desaturase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables sphingolipid delta-4 desaturase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in ceramide biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in sphinganine metabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within sphinganine metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within sphingolipid biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    sphingolipid delta(4)-desaturase/C4-monooxygenase DES2
    Names
    sphingolipid 4-desaturase
    sphingolipid C4-hydroxylase/delta 4-desaturase
    sphingolipid C4-monooxygenase
    sphingolipid delta(4)-desaturase/C4-hydroxylase DES2
    NP_001017457.1
    XP_038968329.1

    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_001017457.2 → NP_001017457.1  sphingolipid delta(4)-desaturase/C4-monooxygenase DES2

      See identical proteins and their annotated locations for NP_001017457.1

      Status: PROVISIONAL

      Source sequence(s)
      BC098701
      UniProtKB/Swiss-Prot
      Q564G3
      UniProtKB/TrEMBL
      A6KBH0
      Conserved Domains (2) summary
      cd03508
      Location:26 → 315
      Delta4-sphingolipid-FADS-like; The Delta4-sphingolipid Fatty Acid Desaturase (Delta4-sphingolipid-FADS)-like CD includes the integral-membrane enzymes, dihydroceramide Delta-4 desaturase, involved in the synthesis of sphingosine; and the human membrane fatty acid (lipid) desaturase ...
      pfam08557
      Location:7 → 42
      Lipid_DES; Sphingolipid Delta4-desaturase (DES)

    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_086024.1 Reference GRCr8

      Range
      133360449..133377677 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039112401.2 → XP_038968329.1  sphingolipid delta(4)-desaturase/C4-monooxygenase DES2 isoform X1

      UniProtKB/TrEMBL
      A6KBH0
      Conserved Domains (1) summary
      cd03508
      Location:1 → 279
      Delta4-sphingolipid-FADS-like; The Delta4-sphingolipid Fatty Acid Desaturase (Delta4-sphingolipid-FADS)-like CD includes the integral-membrane enzymes, dihydroceramide Delta-4 desaturase, involved in the synthesis of sphingosine; and the human membrane fatty acid (lipid) desaturase ...
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q564G3.1 GenPept UniProtKB/Swiss-Prot:Q564G3

    Gene LinkOut

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