Hmgcs1 3-hydroxy-3-methylglutaryl-CoA synthase 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Hmgcs1provided by RGD
Official Full Name: 3-hydroxy-3-methylglutaryl-CoA synthase 1provided by RGD
Primary source: RGD:70970
See related: Ensembl:ENSRNOG00000016552 AllianceGenome:RGD:70970
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
Summary: Enables hydroxymethylglutaryl-CoA synthase activity; isomerase activity; and organic acid binding activity. Involved in several processes, including cellular response to cholesterol; cellular response to follicle-stimulating hormone stimulus; and response to vitamin E. Predicted to be located in cytoplasm. Biomarker of obesity. Orthologous to human HMGCS1 (3-hydroxy-3-methylglutaryl-CoA synthase 1). [provided by Alliance of Genome Resources, Jul 2025]
Expression: Biased expression in Liver (RPKM 1763.9), Brain (RPKM 882.1) and 8 other tissues See more
Orthologs: all
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Genomic context

Location:: 2q15

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (53379457..53399807)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (51649368..51667100)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (52427351..52445082)

Chromosome 2 - NC_086020.1 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?

Results identify 3-hydroxy-3-methylglutaryl coenzyme A synthase isoenzymes 1 and 2 as the alternative markers for satellite glial cells (SGCs) in dorsal root ganglia (DRGs). Downregulated HMGCS1 expression in DRGs after spinal nerve injury may reflect a potential role of abnormal sterol metabolism of SGCs in the nerve injured-induced neuropathic pain.
Title: HMG-CoA synthase isoenzymes 1 and 2 localize to satellite glial cells in dorsal root ganglia and are differentially regulated by peripheral nerve injury.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables acyltransferase activity	IEA Inferred from Electronic Annotation more info
enables hydroxymethylglutaryl-CoA synthase activity	IBA Inferred from Biological aspect of Ancestor more info
enables hydroxymethylglutaryl-CoA synthase activity	IDA Inferred from Direct Assay more info	PubMed
enables hydroxymethylglutaryl-CoA synthase activity	IEA Inferred from Electronic Annotation more info
enables hydroxymethylglutaryl-CoA synthase activity	ISO Inferred from Sequence Orthology more info
enables hydroxymethylglutaryl-CoA synthase activity	TAS Traceable Author Statement more info	PubMed
enables isomerase activity	IDA Inferred from Direct Assay more info	PubMed
enables organic acid binding	IDA Inferred from Direct Assay more info	PubMed
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables small molecule binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in acetyl-CoA metabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in acetyl-CoA metabolic process	IEA Inferred from Electronic Annotation more info
involved_in cellular response to cholesterol	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to follicle-stimulating hormone stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to low-density lipoprotein particle stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in cholesterol biosynthetic process via desmosterol	ISO Inferred from Sequence Orthology more info
involved_in cholesterol biosynthetic process via lathosterol	ISO Inferred from Sequence Orthology more info
involved_in farnesyl diphosphate biosynthetic process, mevalonate pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in farnesyl diphosphate biosynthetic process, mevalonate pathway	IEA Inferred from Electronic Annotation more info
involved_in farnesyl diphosphate biosynthetic process, mevalonate pathway	ISO Inferred from Sequence Orthology more info
involved_in geranylgeranyl diphosphate biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in isopentenyl diphosphate biosynthetic process, mevalonate pathway	ISO Inferred from Sequence Orthology more info
involved_in isoprenoid biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in liver development	IEP Inferred from Expression Pattern more info	PubMed
involved_in male gonad development	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to cholesterol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to gonadotropin	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to hormone	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to low light intensity stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to purine-containing compound	IDA Inferred from Direct Assay more info	PubMed
involved_in response to tellurium ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to vitamin E	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in zymosterol biosynthetic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in cytosol	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: hydroxymethylglutaryl-CoA synthase, cytoplasmic

Names: 3-hydroxy-3-methylglutaryl coenzyme A synthase; 3-hydroxy-3-methylglutaryl-CoA synthase 1 (soluble); 3-hydroxy-3-methylglutaryl-Coenzyme A synthase 1 (soluble); HMG-CoA synthase; hydroxymethylglutaryl-CoA synthase 1

NP_058964.1

EC 2.3.3.10

XP_006232021.1

EC 2.3.3.10

XP_038958050.1

EC 2.3.3.10

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_017268.2 → NP_058964.1 hydroxymethylglutaryl-CoA synthase, cytoplasmic

See identical proteins and their annotated locations for NP_058964.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

P17425

UniProtKB/TrEMBL

A0A8I6AH54, A6I5W9

Related

ENSRNOP00000092234.2, ENSRNOT00000095351.2

Conserved Domains (1) summary

TIGR01833
Location:13 → 469

HMG-CoA-S_euk; 3-hydroxy-3-methylglutaryl-CoA-synthase, eukaryotic clade

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_086020.1 Reference GRCr8

Range

53379457..53399807

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039102122.2 → XP_038958050.1 hydroxymethylglutaryl-CoA synthase, cytoplasmic isoform X1

UniProtKB/TrEMBL

A0A8I6AH54, A0A8I6AX76, A6I5W7

Related

ENSRNOP00000093563.1, ENSRNOT00000100742.2

Conserved Domains (1) summary

TIGR01833
Location:42 → 498

HMG-CoA-S_euk; 3-hydroxy-3-methylglutaryl-CoA-synthase, eukaryotic clade
XM_006231959.3 → XP_006232021.1 hydroxymethylglutaryl-CoA synthase, cytoplasmic isoform X2

See identical proteins and their annotated locations for XP_006232021.1

UniProtKB/Swiss-Prot

P17425

UniProtKB/TrEMBL

A0A8I6AH54, A6I5W9

Conserved Domains (1) summary

TIGR01833
Location:13 → 469

HMG-CoA-S_euk; 3-hydroxy-3-methylglutaryl-CoA-synthase, eukaryotic clade