Nr1d1 (nuclear receptor subfamily 1 group D member 1) - Rat Genome Database

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Pathways
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Gene: Nr1d1 (nuclear receptor subfamily 1 group D member 1) Heterocephalus glaber
Analyze
Symbol: Nr1d1
Name: nuclear receptor subfamily 1 group D member 1
RGD ID: 18916486
Description: ENCODES a protein that exhibits sequence-specific double-stranded DNA binding (ortholog); transcription cis-regulatory region binding (ortholog); INVOLVED IN cholesterol homeostasis (ortholog); circadian rhythm (ortholog); negative regulation of transcription by RNA polymerase II (ortholog); ASSOCIATED WITH alcoholic liver cirrhosis (ortholog); brain small vessel disease (ortholog); Chemical and Drug Induced Liver Injury (ortholog); FOUND IN dendrite (ortholog); neuronal cell body (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247953,102,439 - 3,109,497 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247953,102,424 - 3,109,497 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cell differentiation  (IEA)
cellular response to interleukin-1  (IEA)
cellular response to lipopolysaccharide  (IEA)
cellular response to tumor necrosis factor  (IEA)
cholesterol homeostasis  (IEA,ISO)
circadian regulation of gene expression  (IEA)
circadian rhythm  (IEA,ISO)
circadian temperature homeostasis  (IEA)
glycogen biosynthetic process  (IEA)
hormone-mediated signaling pathway  (IEA)
intracellular glucose homeostasis  (IEA)
intracellular receptor signaling pathway  (IEA)
negative regulation of astrocyte activation  (IEA)
negative regulation of canonical NF-kappaB signal transduction  (IEA)
negative regulation of cold-induced thermogenesis  (IEA)
negative regulation of DNA-templated transcription  (IEA)
negative regulation of inflammatory response  (IEA)
negative regulation of microglial cell activation  (IEA)
negative regulation of neuroinflammatory response  (IEA)
negative regulation of toll-like receptor 4 signaling pathway  (IEA)
negative regulation of transcription by RNA polymerase II  (IEA,ISO)
photoperiodism  (ISO)
positive regulation of bile acid biosynthetic process  (IEA)
positive regulation of circadian rhythm  (ISO)
positive regulation of DNA-templated transcription  (IEA)
positive regulation of transcription by RNA polymerase II  (IEA)
proteasomal protein catabolic process  (IEA)
protein destabilization  (IEA)
regulation of circadian rhythm  (IEA)
regulation of circadian sleep/wake cycle  (IEA)
regulation of DNA-templated transcription  (IEA,ISO)
regulation of fat cell differentiation  (IEA)
regulation of hepatic stellate cell activation  (ISO)
regulation of insulin secretion involved in cellular response to glucose stimulus  (IEA)
regulation of lipid metabolic process  (IEA)
regulation of type B pancreatic cell proliferation  (IEA)
response to leptin  (IEA)

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Nr1d1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247953,102,439 - 3,109,497 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247953,102,424 - 3,109,497 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
NR1D1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381740,092,793 - 40,100,589 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1740,092,793 - 40,100,589 (-)EnsemblGRCh38hg38GRCh38
GRCh371738,249,046 - 38,256,842 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361735,502,567 - 35,510,499 (-)NCBINCBI36Build 36hg18NCBI36
Build 341735,502,566 - 35,510,499NCBI
Celera1734,909,147 - 34,917,084 (-)NCBICelera
Cytogenetic Map17q21.1NCBI
HuRef1734,042,773 - 34,050,715 (-)NCBIHuRef
CHM1_11738,484,740 - 38,492,682 (-)NCBICHM1_1
T2T-CHM13v2.01740,956,678 - 40,964,476 (-)NCBIT2T-CHM13v2.0
Nr1d1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391198,658,758 - 98,666,233 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1198,658,758 - 98,666,159 (-)EnsemblGRCm39 Ensembl
GRCm381198,767,932 - 98,775,377 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1198,767,932 - 98,775,333 (-)EnsemblGRCm38mm10GRCm38
MGSCv371198,629,249 - 98,636,556 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361198,584,022 - 98,590,912 (-)NCBIMGSCv36mm8
Celera11108,422,591 - 108,429,908 (-)NCBICelera
Cytogenetic Map11DNCBI
cM Map1162.66NCBI
Nr1d1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81084,224,599 - 84,231,812 (-)NCBIGRCr8
mRatBN7.21083,728,348 - 83,735,562 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1083,728,318 - 83,735,705 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1088,672,225 - 88,679,439 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01088,170,300 - 88,177,514 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01083,563,001 - 83,570,215 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01086,683,875 - 86,690,815 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1086,683,875 - 86,690,815 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01086,479,868 - 86,486,808 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41087,541,246 - 87,548,186 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11087,555,629 - 87,560,471 (-)NCBI
Celera1082,476,555 - 82,483,495 (-)NCBICelera
Cytogenetic Map10q31NCBI
Nr1d1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545114,742,735 - 14,750,999 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545114,743,763 - 14,750,903 (-)NCBIChiLan1.0ChiLan1.0
NR1D1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21924,852,065 - 24,862,137 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11726,748,938 - 26,756,937 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01717,188,390 - 17,196,315 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11717,409,669 - 17,417,600 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1717,409,669 - 17,417,600 (+)Ensemblpanpan1.1panPan2
NR1D1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1922,461,556 - 22,469,243 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl922,461,705 - 22,469,053 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha921,933,902 - 21,941,575 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0923,254,745 - 23,262,432 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl923,254,822 - 23,262,435 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1922,028,188 - 22,035,862 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0922,287,169 - 22,294,857 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0922,411,920 - 22,419,594 (+)NCBIUU_Cfam_GSD_1.0
Nr1d1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560221,861,286 - 21,868,939 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649015,206,191 - 15,213,867 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649015,206,194 - 15,213,858 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NR1D1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1222,263,657 - 22,271,643 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11222,263,549 - 22,274,131 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
NR1D1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11666,078,990 - 66,086,927 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1666,079,089 - 66,090,685 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607736,982,347 - 36,990,288 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000017285   ⟹   ENSHGLP00000017113
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046247953,102,439 - 3,109,497 (+)Ensembl
RefSeq Acc Id: ENSHGLT00000017286   ⟹   ENSHGLP00000017114
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046247953,104,829 - 3,109,207 (+)Ensembl
RefSeq Acc Id: XM_004859457   ⟹   XP_004859514
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247953,102,424 - 3,109,497 (+)NCBI
RefSeq Acc Id: XM_021240368   ⟹   XP_021096027
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247953,102,424 - 3,109,497 (+)NCBI
RefSeq Acc Id: XM_021240369   ⟹   XP_021096028
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247953,104,364 - 3,109,497 (+)NCBI
Protein Sequences
Protein RefSeqs XP_004859514 (Get FASTA)   NCBI Sequence Viewer  
  XP_021096027 (Get FASTA)   NCBI Sequence Viewer  
  XP_021096028 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000017113
  ENSHGLP00000017114
GenBank Protein JAN99242 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_021096027   ⟸   XM_021240368
- Peptide Label: isoform X2
- UniProtKB: A0A0P6K3J5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004859514   ⟸   XM_004859457
- Peptide Label: isoform X1
- UniProtKB: A0A0P6K3J5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021096028   ⟸   XM_021240369
- Peptide Label: isoform X2
- UniProtKB: A0A0P6K3J5 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSHGLP00000017113   ⟸   ENSHGLT00000017285
RefSeq Acc Id: ENSHGLP00000017114   ⟸   ENSHGLT00000017286


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000012254 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00000017285 ENTREZGENE
  ENSHGLT00000017286 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.10.565.10 UniProtKB/TrEMBL
  3.30.50.10 UniProtKB/TrEMBL
InterPro 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 Nr1d1 ENTREZGENE
PANTHER NUCLEAR HORMONE RECEPTOR UniProtKB/TrEMBL
  NUCLEAR RECEPTOR SUBFAMILY 1 GROUP D MEMBER 1 UniProtKB/TrEMBL
Pfam Hormone_recep UniProtKB/TrEMBL
  zf-C4 UniProtKB/TrEMBL
PRINTS 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 A0A0P6K3J5 ENTREZGENE, UniProtKB/TrEMBL