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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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