NR1I2 (nuclear receptor subfamily 1 group I member 2) - Rat Genome Database

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Gene: NR1I2 (nuclear receptor subfamily 1 group I member 2) Canis lupus familiaris
Analyze
Symbol: NR1I2
Name: nuclear receptor subfamily 1 group I member 2
RGD ID: 12257278
Description: ENCODES a protein that exhibits nuclear receptor activity (ortholog); INVOLVED IN cellular response to type I interferon (ortholog); negative regulation of DNA-templated transcription (ortholog); positive regulation of gene expression (ortholog); ASSOCIATED WITH adenocarcinoma (ortholog); Barrett's esophagus (ortholog); calcinosis (ortholog); FOUND IN transcription regulator complex (ortholog); INTERACTS WITH 5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole; 6-(4-chlorophenyl)imidazo[2,1-b][1,3]thiazole-5-carbaldehyde O-(3,4-dichlorobenzyl)oxime; Acetyl tributyl citrate
Type: protein-coding
RefSeq Status: MODEL
Previously known as: pregnane X receptor; PXR
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13323,444,367 - 23,456,405 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3323,432,690 - 23,455,347 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3323,474,457 - 23,486,487 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03323,682,177 - 23,694,192 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3323,669,760 - 23,694,177 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13323,486,165 - 23,498,350 (+)NCBIUMICH_Zoey_3.1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References
Additional References at PubMed
PMID:11981033   PMID:27732639  


Genomics

Comparative Map Data
NR1I2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13323,444,367 - 23,456,405 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3323,432,690 - 23,455,347 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3323,474,457 - 23,486,487 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03323,682,177 - 23,694,192 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3323,669,760 - 23,694,177 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13323,486,165 - 23,498,350 (+)NCBIUMICH_Zoey_3.1
NR1I2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383119,782,101 - 119,818,487 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3119,780,484 - 119,818,487 (+)EnsemblGRCh38hg38GRCh38
GRCh373119,500,948 - 119,537,334 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363120,982,021 - 121,020,022 (+)NCBINCBI36Build 36hg18NCBI36
Build 343120,982,020 - 121,020,021NCBI
Celera3117,908,432 - 117,946,438 (+)NCBICelera
Cytogenetic Map3q13.33NCBI
HuRef3116,874,950 - 116,913,074 (+)NCBIHuRef
CHM1_13119,462,845 - 119,500,855 (+)NCBICHM1_1
T2T-CHM13v2.03122,501,838 - 122,538,215 (+)NCBIT2T-CHM13v2.0
Nr1i2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391638,068,711 - 38,115,211 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1638,068,685 - 38,115,186 (-)EnsemblGRCm39 Ensembl
GRCm381638,248,349 - 38,294,849 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1638,248,323 - 38,294,824 (-)EnsemblGRCm38mm10GRCm38
MGSCv371638,248,435 - 38,294,910 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361638,167,590 - 38,214,062 (-)NCBIMGSCv36mm8
Celera1638,657,356 - 38,703,953 (-)NCBICelera
Cytogenetic Map16B3NCBI
cM Map1626.64NCBI
Nr1i2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81175,965,717 - 76,006,733 (+)NCBIGRCr8
mRatBN7.21162,460,213 - 62,496,665 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1162,460,213 - 62,496,658 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1171,272,711 - 71,309,163 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01163,934,940 - 63,971,386 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01162,985,406 - 63,021,853 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01165,022,100 - 65,058,546 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1165,022,100 - 65,058,545 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01167,024,185 - 67,060,494 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41164,239,918 - 64,276,702 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11164,297,534 - 64,333,716 (+)NCBI
Celera1161,960,674 - 61,997,009 (+)NCBICelera
Cytogenetic Map11q21NCBI
Nr1i2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542719,459,936 - 19,487,276 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542719,459,936 - 19,487,276 (+)NCBIChiLan1.0ChiLan1.0
NR1I2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22117,759,374 - 117,799,567 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13117,764,152 - 117,804,345 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03116,901,579 - 116,940,366 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13123,815,135 - 123,853,129 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3123,815,135 - 123,853,129 (+)Ensemblpanpan1.1panPan2
Nr1i2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602130,794,594 - 130,830,392 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365366,691,590 - 6,726,704 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365366,691,590 - 6,726,421 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NR1I2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13140,364,075 - 140,406,112 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113140,373,571 - 140,406,129 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213149,710,912 - 149,743,466 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NR1I2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12261,005,404 - 61,043,016 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2261,006,667 - 61,040,832 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041105,267,620 - 105,304,705 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nr1i2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473128,371,707 - 28,381,357 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473128,371,707 - 28,405,327 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in NR1I2
233 total Variants

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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 3 6 6 6
Low 2 11 6 8 2
Below cutoff 5 5 6 6 6 6 8 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000017654   ⟹   ENSCAFP00000016344
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl3323,432,690 - 23,455,347 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845031322   ⟹   ENSCAFP00845024521
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl3323,669,760 - 23,694,177 (+)Ensembl
RefSeq Acc Id: XM_038445374   ⟹   XP_038301302
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.03323,682,177 - 23,694,192 (+)NCBI
RefSeq Acc Id: XM_038462516   ⟹   XP_038318444
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
Dog10K_Boxer_Tasha3323,474,457 - 23,486,487 (+)NCBI
RefSeq Acc Id: XM_038519634   ⟹   XP_038375562
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.13323,486,165 - 23,498,350 (+)NCBI
Protein Sequences
Protein RefSeqs XP_038301302 (Get FASTA)   NCBI Sequence Viewer  
  XP_038318444 (Get FASTA)   NCBI Sequence Viewer  
  XP_038375562 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAM10632 (Get FASTA)   NCBI Sequence Viewer  
  ATI96883 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCAFP00000016344.5
  ENSCAFP00845024521.1
Reference Protein Sequences
RefSeq Acc Id: ENSCAFP00000016344   ⟸   ENSCAFT00000017654
RefSeq Acc Id: XP_038375562   ⟸   XM_038519634
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038301302   ⟸   XM_038445374
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038318444   ⟸   XM_038462516
- Peptide Label: isoform X3
RefSeq Acc Id: ENSCAFP00845024521   ⟸   ENSCAFT00845031322
Protein Domains
NR LBD   Nuclear receptor


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000011094 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00845017664 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000017654.5 UniProtKB/TrEMBL
  ENSCAFT00845031322.1 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 NR1I2 ENTREZGENE
PANTHER NUCLEAR HORMONE RECEPTOR UniProtKB/TrEMBL
  NUCLEAR RECEPTOR SUBFAMILY 1 GROUP I MEMBER 2 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 A0A291NFI6_CANLF UniProtKB/TrEMBL
  A0A8I3P3X7_CANLF UniProtKB/TrEMBL
  A0A8P0NDB9_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:53079 ENTREZGENE