NR1H3 (nuclear receptor subfamily 1 group H member 3) - Rat Genome Database

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Pathways
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Gene: NR1H3 (nuclear receptor subfamily 1 group H member 3) Chlorocebus sabaeus
Analyze
Symbol: NR1H3
Name: nuclear receptor subfamily 1 group H member 3
RGD ID: 18434976
Description: ENCODES a protein that exhibits nuclear receptor activity (ortholog); nuclear retinoid X receptor binding (ortholog); protein-containing complex binding (ortholog); INVOLVED IN bile acid signaling pathway (ortholog); cellular lipid metabolic process (ortholog); cellular response to starvation (ortholog); PARTICIPATES IN bile acid signaling pathway; ASSOCIATED WITH abdominal aortic aneurysm (ortholog); Alcoholic Fatty Liver (ortholog); atherosclerosis (ortholog); FOUND IN nucleolus (ortholog); RNA polymerase II transcription regulator complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: oxysterols receptor LXR-alpha
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1118,041,495 - 18,061,196 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl118,041,830 - 18,051,501 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038115,344,981 - 115,364,565 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
apoptotic cell clearance  (IEA)
bile acid signaling pathway  (ISO)
cell differentiation  (IEA)
cellular lipid metabolic process  (IEA,ISO)
cellular response to lipopolysaccharide  (IEA)
cellular response to starvation  (ISO)
cholesterol homeostasis  (IEA)
digestive tract development  (ISO)
hormone-mediated signaling pathway  (IEA)
insulin receptor signaling pathway  (ISO)
intracellular receptor signaling pathway  (IEA)
lipid homeostasis  (IEA)
lipid metabolic process  (IEA)
liver development  (ISO)
mRNA transcription by RNA polymerase II  (IEA)
negative regulation of cholesterol storage  (IEA)
negative regulation of cold-induced thermogenesis  (IEA)
negative regulation of DNA-templated transcription  (IEA,ISO)
negative regulation of inflammatory response  (IEA)
negative regulation of lipid transport  (IEA)
negative regulation of macrophage activation  (IEA)
negative regulation of pancreatic juice secretion  (IEA)
negative regulation of pinocytosis  (IEA)
negative regulation of proteolysis  (IEA)
negative regulation of response to endoplasmic reticulum stress  (IEA)
negative regulation of secretion of lysosomal enzymes  (IEA)
negative regulation of transcription by RNA polymerase II  (IEA)
phosphatidylcholine acyl-chain remodeling  (IEA)
positive regulation of cholesterol efflux  (IEA)
positive regulation of cholesterol transport  (IEA)
positive regulation of DNA-templated transcription  (IEA)
positive regulation of fatty acid biosynthetic process  (IEA)
positive regulation of lipid biosynthetic process  (IEA)
positive regulation of protein metabolic process  (IEA)
positive regulation of toll-like receptor 4 signaling pathway  (IEA)
positive regulation of transcription by RNA polymerase II  (IEA)
positive regulation of triglyceride biosynthetic process  (IEA)
regulation of DNA-templated transcription  (IEA,ISO)
regulation of fatty acid metabolic process  (ISO)
response to cholesterol  (ISO)
response to nutrient levels  (ISO)
response to organic cyclic compound  (ISO)
response to progesterone  (IEA)
spleen development  (ISO)
sterol homeostasis  (IEA)
thymus development  (ISO)
triglyceride homeostasis  (IEA)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
NR1H3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1118,041,495 - 18,061,196 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl118,041,830 - 18,051,501 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038115,344,981 - 115,364,565 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
NR1H3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381147,248,300 - 47,269,033 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1147,248,300 - 47,269,033 (+)EnsemblGRCh38hg38GRCh38
GRCh371147,269,851 - 47,290,584 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361147,237,309 - 47,246,972 (+)NCBINCBI36Build 36hg18NCBI36
Build 341147,237,308 - 47,246,972NCBI
Celera1147,409,676 - 47,429,619 (+)NCBICelera
Cytogenetic Map11p11.2NCBI
HuRef1146,968,831 - 46,989,561 (+)NCBIHuRef
CHM1_11147,268,541 - 47,289,773 (+)NCBICHM1_1
T2T-CHM13v2.01147,405,058 - 47,425,803 (+)NCBIT2T-CHM13v2.0
Nr1h3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39291,014,406 - 91,033,189 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl291,014,406 - 91,033,179 (-)EnsemblGRCm39 Ensembl
GRCm38291,184,061 - 91,202,829 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl291,184,061 - 91,202,834 (-)EnsemblGRCm38mm10GRCm38
MGSCv37291,024,218 - 91,035,273 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36290,984,949 - 90,995,955 (-)NCBIMGSCv36mm8
Celera292,568,901 - 92,580,220 (-)NCBICelera
Cytogenetic Map2E1NCBI
cM Map250.52NCBI
Nr1h3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8397,614,616 - 97,632,053 (-)NCBIGRCr8
mRatBN7.2377,158,808 - 77,168,907 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl377,158,808 - 77,168,722 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx380,637,176 - 80,645,771 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0389,236,183 - 89,244,778 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0387,087,220 - 87,095,813 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0380,004,130 - 80,014,197 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl380,004,130 - 80,012,750 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0386,712,883 - 86,722,950 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4375,542,211 - 75,550,793 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1375,438,551 - 75,447,172 (-)NCBI
Celera376,367,211 - 76,375,760 (-)NCBICelera
Cytogenetic Map3q24NCBI
Nr1h3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955422940,310 - 949,049 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955422940,310 - 954,170 (-)NCBIChiLan1.0ChiLan1.0
NR1H3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2949,449,743 - 49,469,835 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11149,469,538 - 49,489,625 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01147,195,122 - 47,215,277 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11147,748,452 - 47,768,672 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1147,748,353 - 47,768,672 (+)Ensemblpanpan1.1panPan2
NR1H3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11842,333,173 - 42,346,152 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1842,333,202 - 42,341,236 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1841,061,865 - 41,074,852 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01842,987,642 - 43,000,646 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1842,986,620 - 43,000,608 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11842,473,538 - 42,486,527 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01842,029,130 - 42,042,123 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01842,758,228 - 42,771,525 (-)NCBIUU_Cfam_GSD_1.0
Nr1h3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494719,826,023 - 19,835,848 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365621,937,667 - 1,946,669 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365621,937,665 - 1,946,680 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NR1H3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl215,315,282 - 15,334,820 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1215,315,283 - 15,336,785 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2216,539,892 - 16,560,353 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Nr1h3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247671,459,601 - 1,467,795 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247671,459,601 - 1,473,224 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

endocrine system hemolymphoid system nervous system
High
Medium 2 13 1
Low 34 7 54
Below cutoff 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000003734   ⟹   ENSCSAP00000002008
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl118,041,830 - 18,051,501 (-)Ensembl
RefSeq Acc Id: XM_007999764   ⟹   XP_007997955
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1118,041,495 - 18,052,863 (-)NCBI
Vero_WHO_p1.0NW_023666038115,345,167 - 115,356,368 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007999770   ⟹   XP_007997961
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1118,041,495 - 18,053,233 (-)NCBI
Vero_WHO_p1.0NW_023666038115,345,167 - 115,356,642 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007999780   ⟹   XP_007997971
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1118,041,965 - 18,051,547 (-)NCBI
Vero_WHO_p1.0NW_023666038115,344,981 - 115,356,370 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007999787   ⟹   XP_007997978
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1118,041,495 - 18,052,857 (-)NCBI
Vero_WHO_p1.0NW_023666038115,345,167 - 115,356,365 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007999795   ⟹   XP_007997986
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1118,041,495 - 18,061,196 (-)NCBI
Vero_WHO_p1.0NW_023666038115,345,168 - 115,364,565 (-)NCBI
Sequence:
RefSeq Acc Id: XM_037999397   ⟹   XP_037855325
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666038115,345,167 - 115,356,368 (-)NCBI
RefSeq Acc Id: XM_037999398   ⟹   XP_037855326
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666038115,345,167 - 115,356,369 (-)NCBI
RefSeq Acc Id: XM_037999399   ⟹   XP_037855327
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666038115,345,167 - 115,356,369 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_007997986   ⟸   XM_007999795
- Peptide Label: isoform X5
RefSeq Acc Id: XP_007997961   ⟸   XM_007999770
- Peptide Label: isoform X1
RefSeq Acc Id: XP_007997955   ⟸   XM_007999764
- Peptide Label: isoform X1
RefSeq Acc Id: XP_007997978   ⟸   XM_007999787
- Peptide Label: isoform X4
- UniProtKB: A0A0D9R069 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007997971   ⟸   XM_007999780
- Peptide Label: isoform X3
RefSeq Acc Id: ENSCSAP00000002008   ⟸   ENSCSAT00000003734
RefSeq Acc Id: XP_037855326   ⟸   XM_037999398
- Peptide Label: isoform X2
RefSeq Acc Id: XP_037855327   ⟸   XM_037999399
- Peptide Label: isoform X2
RefSeq Acc Id: XP_037855325   ⟸   XM_037999397
- Peptide Label: isoform X1


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000005699 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000003734.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.565.10 UniProtKB/TrEMBL
  3.30.50.10 UniProtKB/TrEMBL
InterPro Liver_X_rcpt UniProtKB/TrEMBL
  NHR-like_dom_sf UniProtKB/TrEMBL
  Nucl_hrmn_rcpt_lig-bd UniProtKB/TrEMBL
  Nuclear_hrmn_rcpt UniProtKB/TrEMBL
  Znf_hrmn_rcpt UniProtKB/TrEMBL
  Znf_NHR/GATA UniProtKB/TrEMBL
NCBI Gene NR1H3 ENTREZGENE
PANTHER NUCLEAR HORMONE RECEPTOR UniProtKB/TrEMBL
  OXYSTEROLS RECEPTOR LXR-ALPHA UniProtKB/TrEMBL
Pfam Hormone_recep UniProtKB/TrEMBL
  zf-C4 UniProtKB/TrEMBL
PRINTS LIVERXRECPTR UniProtKB/TrEMBL
  STRDHORMONER UniProtKB/TrEMBL
  STROIDFINGER UniProtKB/TrEMBL
PROSITE NR_LBD UniProtKB/TrEMBL
  NUCLEAR_REC_DBD_1 UniProtKB/TrEMBL
  NUCLEAR_REC_DBD_2 UniProtKB/TrEMBL
SMART HOLI UniProtKB/TrEMBL
  ZnF_C4 UniProtKB/TrEMBL
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/TrEMBL
  SSF48508 UniProtKB/TrEMBL
UniProt A0A0D9R069 ENTREZGENE, UniProtKB/TrEMBL