Nr1h3 (nuclear receptor subfamily 1 group H member 3) - Rat Genome Database

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Gene: Nr1h3 (nuclear receptor subfamily 1 group H member 3) Ictidomys tridecemlineatus
Analyze
Symbol: Nr1h3
Name: nuclear receptor subfamily 1 group H member 3
RGD ID: 12453967
Description: ENCODES a protein that exhibits nuclear receptor activity (ortholog); nuclear retinoid X receptor binding (ortholog); protein-containing complex binding (ortholog); INVOLVED IN cellular response to starvation (ortholog); digestive tract development (ortholog); insulin receptor signaling pathway (ortholog); ASSOCIATED WITH abdominal aortic aneurysm (ortholog); atherosclerosis (ortholog); Carotid Atherosclerosis (ortholog); FOUND IN nucleolus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: oxysterols receptor LXR-alpha
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
apoptotic cell clearance  (IEA)
cell differentiation  (IEA)
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,ISO)
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 lipoprotein lipase activity  (ISO)
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 progesterone  (IEA)
spleen development  (ISO)
sterol homeostasis  (IEA)
thymus development  (ISO)
triglyceride homeostasis  (IEA)

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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
(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


Sequence


Ensembl Acc Id: ENSSTOT00000007605   ⟹   ENSSTOP00000006800
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365621,937,814 - 1,945,495 (-)Ensembl
Ensembl Acc Id: ENSSTOT00000040125   ⟹   ENSSTOP00000027881
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365621,937,667 - 1,946,669 (-)Ensembl
RefSeq Acc Id: XM_005329985   ⟹   XP_005330042
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494719,826,023 - 19,834,818 (-)NCBI
SpeTri2.0NW_0049365621,937,665 - 1,946,680 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013360643   ⟹   XP_013216097
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494719,826,023 - 19,835,017 (-)NCBI
SpeTri2.0NW_0049365621,937,665 - 1,946,679 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040284403   ⟹   XP_040140337
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440494719,826,023 - 19,835,848 (-)NCBI
Protein Sequences
Protein RefSeqs XP_005330042 (Get FASTA)   NCBI Sequence Viewer  
  XP_013216097 (Get FASTA)   NCBI Sequence Viewer  
  XP_040140337 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000006800.3
  ENSSTOP00000027881.1
RefSeq Acc Id: XP_005330042   ⟸   XM_005329985
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_013216097   ⟸   XM_013360643
- Peptide Label: isoform X1
- UniProtKB: I3MA26 (UniProtKB/TrEMBL),   A0A287D2S3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040140337   ⟸   XM_040284403
- Peptide Label: isoform X1
- UniProtKB: A0A287D2S3 (UniProtKB/TrEMBL),   I3MA26 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSSTOP00000027881   ⟸   ENSSTOT00000040125
Ensembl Acc Id: ENSSTOP00000006800   ⟸   ENSSTOT00000007605
Protein Domains
NR LBD   Nuclear receptor


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000007611 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000007605.3 UniProtKB/TrEMBL
  ENSSTOT00000040125.1 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_hormone_rcpt_NR1 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 A0A287D2S3 ENTREZGENE, UniProtKB/TrEMBL
  I3MA26 ENTREZGENE, UniProtKB/TrEMBL