Nr1h3 nuclear receptor subfamily 1, group H, member 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nr1h3provided by RGD
Official Full Name: nuclear receptor subfamily 1, group H, member 3provided by RGD
Primary source: RGD:61909
See related: EnsemblRapid:ENSRNOG00000013172 AllianceGenome:RGD:61909
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: LXRalpha
Summary: Enables nuclear retinoid X receptor binding activity and sequence-specific DNA binding activity. Involved in several processes, including hematopoietic or lymphoid organ development; insulin receptor signaling pathway; and response to cholesterol. Located in nucleolus. Biomarker of obesity. Human ortholog(s) of this gene implicated in cerebral infarction; cerebrovascular disease; myocardial infarction; and obesity. Orthologous to human NR1H3 (nuclear receptor subfamily 1 group H member 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Liver (RPKM 481.1), Spleen (RPKM 343.8) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q24

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (97614616..97632053, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (77158808..77168907, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (80004130..80014197, complement)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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 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?

Anti-apoptotic properties of N-Acetyl cysteine and its effects on of Liver X receptor and Sirtuin 1 expression in the liver of rats exposed to Lead.
Title: Anti-apoptotic properties of N-Acetyl cysteine and its effects on of Liver X receptor and Sirtuin 1 expression in the liver of rats exposed to Lead.
LXR activation ameliorates high glucose stress-induced aberrant mitochondrial dynamics via downregulation of Calpain1 expression in H9c2 cardiomyoblasts.
Title: LXR activation ameliorates high glucose stress-induced aberrant mitochondrial dynamics via downregulation of Calpain1 expression in H9c2 cardiomyoblasts.
We observed increased expression of LXRalpha from an early stage of nephrosis. To explore the role of increased LXRalpha in diseased kidney in vitro, NRK52E, normal kidney tubular epithelial cells, were forced to overexpress LXRalpha. These cells showed significantly lower lipid accumulation than mock cells did. In contrast, LXRbeta knockdown led to increased lipid accumulation in mock cells, and constancy in overexpre...
Title: Each liver X receptor (LXR) type has a different purpose in different situations.
the results of the present study suggested that diosgenin is a potential agent for preventing the development of NAFLD through the AMPK and LXR signaling pathways.
Title: Diosgenin prevents high-fat diet-induced rat non-alcoholic fatty liver disease through the AMPK and LXR signaling pathways.
The present study indicates a requirement for C/EBPbeta in the insulin-mediated induction of SREBP-1c mRNA expression in rodent liver. Coupled with previous data showing that this induction requires LXRalpha, our data reported herein indicate a requirement for both transcription factors.
Title: Insulin induction of SREBP-1c in rodent liver requires LXRα-C/EBPβ complex.
Data show that TO901317 increased expression of both Liver X receptors (LXRalpha and LXRbeta) isoforms and its target genes: sterol response element binding protein 1c (SREBP-1c) and acetyl-coenzyme A carboxylase 1 (ACC1) in the heart of streptozotocin-diabetes.
Title: Liver X Receptor Agonist TO901317 Prevents Diacylglycerols Accumulation in the Heart of Streptozotocin-Diabetic Rats.
LXRalpha-RNAi treatment significantly downregulated LXRalpha expression and improve steatotic liver graft function and recipient survival after a fatty liver transplantation in rats.
Title: LXRalpha gene downregulation by lentiviral-based RNA interference enhances liver function after fatty liver transplantation in rats.
Data suggest that expression of LXRalpha in liver can be regulated by dietary factors; here, dietary supplementation with 5-caffeoylquinic acid down-regulates expression of LXRalpha and prevents high-fat diet induced obesity.
Title: 5-Caffeoylquinic acid decreases diet-induced obesity in rats by modulating PPARα and LXRα transcription.
28-Homobrassinolide transactivates LXR genes in the rat tissues.
Title: 28-Homobrassinolide: a novel oxysterol transactivating LXR gene expression.
Liver X receptor regulates alpha-TTP expression through direct interaction with the alpha-TTP gene promoter.
Title: Liver X receptor up-regulates α-tocopherol transfer protein expression and α-tocopherol status.

Submit: New GeneRIF Correction See all GeneRIFs (51)

General gene information

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Markers

PMC33205P3 (e-PCR)
- UniSTS:273158

AI548269 (e-PCR)
- UniSTS:243509

STS-U22662 (e-PCR)
- UniSTS:66401

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin DNA binding	IEA Inferred from Electronic Annotation more info
enables chromatin DNA binding	ISO Inferred from Sequence Orthology more info
enables nuclear receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables nuclear receptor activity	IEA Inferred from Electronic Annotation more info
contributes_to nuclear receptor activity	ISO Inferred from Sequence Orthology more info
enables nuclear receptor activity	ISO Inferred from Sequence Orthology more info
enables nuclear receptor activity	ISS Inferred from Sequence or Structural Similarity more info
enables nuclear retinoid X receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables nuclear steroid receptor activity	TAS Traceable Author Statement more info	PubMed
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables sterol response element binding	IEA Inferred from Electronic Annotation more info
enables sterol response element binding	ISO Inferred from Sequence Orthology more info
contributes_to transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in apoptotic cell clearance	IEA Inferred from Electronic Annotation more info
involved_in apoptotic cell clearance	ISO Inferred from Sequence Orthology more info
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to lipopolysaccharide	IEA Inferred from Electronic Annotation more info
involved_in cellular response to lipopolysaccharide	ISO Inferred from Sequence Orthology more info
involved_in cellular response to starvation	IEP Inferred from Expression Pattern more info	PubMed
involved_in cholesterol homeostasis	IEA Inferred from Electronic Annotation more info
involved_in cholesterol homeostasis	ISO Inferred from Sequence Orthology more info
involved_in cholesterol homeostasis	ISS Inferred from Sequence or Structural Similarity more info
involved_in digestive tract development	IEP Inferred from Expression Pattern more info	PubMed
involved_in hormone-mediated signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in hormone-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in insulin receptor signaling pathway	IEP Inferred from Expression Pattern more info	PubMed
involved_in intracellular receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in lipid homeostasis	ISO Inferred from Sequence Orthology more info
involved_in lipid metabolic process	IEA Inferred from Electronic Annotation more info
involved_in liver development	IEP Inferred from Expression Pattern more info	PubMed
involved_in mRNA transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in mRNA transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cholesterol storage	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cholesterol storage	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cold-induced thermogenesis	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cold-induced thermogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cold-induced thermogenesis	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in negative regulation of inflammatory response	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of inflammatory response	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of lipid transport	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of lipid transport	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of macrophage activation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of macrophage activation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of pancreatic juice secretion	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of pancreatic juice secretion	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of pinocytosis	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of pinocytosis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of proteolysis	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of proteolysis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of response to endoplasmic reticulum stress	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of response to endoplasmic reticulum stress	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of response to endoplasmic reticulum stress	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of secretion of lysosomal enzymes	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of secretion of lysosomal enzymes	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in phosphatidylcholine acyl-chain remodeling	IEA Inferred from Electronic Annotation more info
involved_in phosphatidylcholine acyl-chain remodeling	ISO Inferred from Sequence Orthology more info
involved_in phosphatidylcholine acyl-chain remodeling	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cholesterol efflux	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cholesterol efflux	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cholesterol efflux	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cholesterol transport	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of fatty acid biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of fatty acid biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of lipid biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of lipoprotein lipase activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein metabolic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein metabolic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of toll-like receptor 4 signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of toll-like receptor 4 signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of triglyceride biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of triglyceride biosynthetic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in regulation of fatty acid metabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in response to cholesterol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nutrient levels	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to progesterone	IEA Inferred from Electronic Annotation more info
involved_in response to progesterone	ISO Inferred from Sequence Orthology more info
involved_in spleen development	IEP Inferred from Expression Pattern more info	PubMed
involved_in steroid hormone receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in sterol homeostasis	ISO Inferred from Sequence Orthology more info
involved_in thymus development	IEP Inferred from Expression Pattern more info	PubMed
involved_in triglyceride homeostasis	IEA Inferred from Electronic Annotation more info
involved_in triglyceride homeostasis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of RNA polymerase II transcription regulator complex	IBA Inferred from Biological aspect of Ancestor more info
part_of RNA polymerase II transcription regulator complex	IEA Inferred from Electronic Annotation more info
part_of RNA polymerase II transcription regulator complex	ISO Inferred from Sequence Orthology more info
located_in chromatin	IEA Inferred from Electronic Annotation more info
located_in chromatin	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleolus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of receptor complex	IEA Inferred from Electronic Annotation more info
part_of receptor complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: oxysterols receptor LXR-alpha

Names: RLD-1; liver X receptor alpha; nuclear orphan receptor LXR-alpha

NP_113815.2

EC 3.4.13.9

XP_006234595.1

EC 3.4.13.9

XP_006234596.1

EC 3.4.13.9

XP_006234597.1

EC 3.4.13.9

XP_006234599.1

EC 3.4.13.9

XP_038961679.1

EC 3.4.13.9

XP_038961680.1

EC 3.4.13.9

XP_038961681.1

EC 3.4.13.9

XP_063140496.1

EC 3.4.13.9

XP_063140498.1

EC 3.4.13.9

XP_063140499.1

EC 3.4.13.9

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_031627.2 → NP_113815.2 oxysterols receptor LXR-alpha

See identical proteins and their annotated locations for NP_113815.2

Status: PROVISIONAL

Source sequence(s)

BC088750

UniProtKB/Swiss-Prot

Q62685

UniProtKB/TrEMBL

A6HNB3, A6HNB4, Q5I035

Related

ENSRNOP00000018154.5, ENSRNOT00000018154.7

Conserved Domains (2) summary

cd06954
Location:208 → 443

NR_LBD_LXR; The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors

cd07160
Location:76 → 176

NR_DBD_LXR; DNA-binding domain of Liver X receptors (LXRs) family is composed of two C4-type zinc fingers

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_086021.1 Reference GRCr8

Range

97614616..97632053 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063284426.1 → XP_063140496.1 oxysterols receptor LXR-alpha isoform X1

UniProtKB/TrEMBL

A6HNB3, A6HNB4, Q5I035
XM_006234535.5 → XP_006234597.1 oxysterols receptor LXR-alpha isoform X1

See identical proteins and their annotated locations for XP_006234597.1

UniProtKB/Swiss-Prot

Q62685

UniProtKB/TrEMBL

A6HNB3, A6HNB4, Q5I035

Conserved Domains (2) summary

cd06954
Location:208 → 443

NR_LBD_LXR; The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors

cd07160
Location:76 → 176

NR_DBD_LXR; DNA-binding domain of Liver X receptors (LXRs) family is composed of two C4-type zinc fingers
XM_039105751.2 → XP_038961679.1 oxysterols receptor LXR-alpha isoform X1

UniProtKB/Swiss-Prot

Q62685

UniProtKB/TrEMBL

A6HNB3, A6HNB4, Q5I035

Conserved Domains (2) summary

cd06954
Location:208 → 443

NR_LBD_LXR; The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors

cd07160
Location:76 → 176

NR_DBD_LXR; DNA-binding domain of Liver X receptors (LXRs) family is composed of two C4-type zinc fingers
XM_006234537.3 → XP_006234599.1 oxysterols receptor LXR-alpha isoform X2

See identical proteins and their annotated locations for XP_006234599.1

UniProtKB/Swiss-Prot

Q62685

Conserved Domains (1) summary

cd06954
Location:119 → 354

NR_LBD_LXR; The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors
XM_063284428.1 → XP_063140498.1 oxysterols receptor LXR-alpha isoform X2
XM_006234534.4 → XP_006234596.1 oxysterols receptor LXR-alpha isoform X1

See identical proteins and their annotated locations for XP_006234596.1

UniProtKB/Swiss-Prot

Q62685

UniProtKB/TrEMBL

A6HNB3, A6HNB4, Q5I035

Conserved Domains (2) summary

cd06954
Location:208 → 443

NR_LBD_LXR; The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors

cd07160
Location:76 → 176

NR_DBD_LXR; DNA-binding domain of Liver X receptors (LXRs) family is composed of two C4-type zinc fingers
XM_063284429.1 → XP_063140499.1 oxysterols receptor LXR-alpha isoform X2
XM_039105752.2 → XP_038961680.1 oxysterols receptor LXR-alpha isoform X1

UniProtKB/Swiss-Prot

Q62685

UniProtKB/TrEMBL

A6HNB3, A6HNB4, Q5I035

Conserved Domains (2) summary

cd06954
Location:208 → 443

NR_LBD_LXR; The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors

cd07160
Location:76 → 176

NR_DBD_LXR; DNA-binding domain of Liver X receptors (LXRs) family is composed of two C4-type zinc fingers
XM_006234533.5 → XP_006234595.1 oxysterols receptor LXR-alpha isoform X1

See identical proteins and their annotated locations for XP_006234595.1

UniProtKB/Swiss-Prot

Q62685

UniProtKB/TrEMBL

A6HNB3, A6HNB4, Q5I035

Related

ENSRNOP00000088605.1, ENSRNOT00000103975.2

Conserved Domains (2) summary

cd06954
Location:208 → 443

NR_LBD_LXR; The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors

cd07160
Location:76 → 176

NR_DBD_LXR; DNA-binding domain of Liver X receptors (LXRs) family is composed of two C4-type zinc fingers
XM_039105753.2 → XP_038961681.1 oxysterols receptor LXR-alpha isoform X2

UniProtKB/Swiss-Prot

Q62685

Conserved Domains (1) summary

cd06954
Location:119 → 354

NR_LBD_LXR; The ligand binding domain of Liver X receptors, a family of nuclear receptors of ligand-activated transcription factors