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

Summary

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, Dec 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

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_086024.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

overexpression of DEGS1 or DEGS2 attenuates the DHC accumulation and increased cell proliferation during hypoxia
Title: Dihydroceramide-based response to hypoxia.

Submit: New GeneRIF Correction

General gene information

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Markers

RH132042 (e-PCR)
- UniSTS:215325

D6Got181 (e-PCR)
- UniSTS:239802

D6Got181 (e-PCR)
- UniSTS:112326

AI852933 (e-PCR)
- UniSTS:180476

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

EC 1.14.18.5

EC 1.14.19.17

XP_038968329.1

EC 1.14.18.5

EC 1.14.19.17

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)

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

NC_086024.1 Reference GRCr8

Range

133360449..133377677 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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 ...