Nr2e1 (nuclear receptor subfamily 2, group E, member 1) - Rat Genome Database

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Gene: Nr2e1 (nuclear receptor subfamily 2, group E, member 1) Rattus norvegicus
Analyze
Symbol: Nr2e1
Name: nuclear receptor subfamily 2, group E, member 1
RGD ID: 1595162
Description: Predicted to have DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and histone deacetylase binding activity. Predicted to be involved in several processes, including forebrain development; regulation of neural precursor cell proliferation; and regulation of neuron differentiation. Predicted to localize to nucleus. Orthologous to human NR2E1 (nuclear receptor subfamily 2 group E member 1); INTERACTS WITH bisphenol A; 2,3',4,4',5-Pentachlorobiphenyl (ortholog); 2,3,7,8-tetrachlorodibenzodioxine (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC684085; nuclear receptor subfamily 2 group E member 1; similar to nuclear receptor subfamily 2, group E, member 1; tailless-like; TLX
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22046,050,134 - 46,070,569 (-)NCBI
Rnor_6.0 Ensembl2047,288,137 - 47,306,318 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02047,286,843 - 47,306,318 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02048,956,022 - 48,976,460 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2053,902,230 - 53,921,543 (+)NCBICelera
Cytogenetic Map20q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aggressive behavior  (ISO)
amygdala development  (ISO)
anatomical structure development  (IBA)
anterior commissure morphogenesis  (ISO)
behavioral fear response  (ISO)
brain development  (ISO)
camera-type eye development  (ISO)
cell differentiation  (IBA)
cell fate commitment  (ISO)
cerebral cortex development  (ISO)
cerebral cortex neuron differentiation  (ISO)
dentate gyrus development  (ISO)
extracellular matrix organization  (ISO)
forebrain generation of neurons  (ISO)
glial cell migration  (ISO)
intracellular receptor signaling pathway  (IEA)
layer formation in cerebral cortex  (ISO)
long-term synaptic potentiation  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of astrocyte differentiation  (ISO)
negative regulation of neural precursor cell proliferation  (ISO)
negative regulation of neuron differentiation  (ISO)
negative regulation of transcription by RNA polymerase II  (IBA,ISO)
olfactory bulb development  (ISO)
positive regulation of angiogenesis  (ISO)
positive regulation of cell cycle  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of neural precursor cell proliferation  (ISO)
positive regulation of stem cell proliferation  (ISO)
positive regulation of transcription by RNA polymerase II  (IEA)
regulation of cell migration involved in sprouting angiogenesis  (ISO)
regulation of cellular component organization  (ISO)
regulation of dendrite morphogenesis  (ISO)
regulation of timing of neuron differentiation  (ISO)
regulation of transcription by RNA polymerase II  (IBA)
retina development in camera-type eye  (ISO)
social behavior  (ISO)
somatic stem cell population maintenance  (ISO)
visual perception  (ISO)

Cellular Component
nucleus  (ISO)

References

Additional References at PubMed
PMID:9394001   PMID:10706625   PMID:11997145   PMID:12527005   PMID:12902391   PMID:14702088   PMID:14994267   PMID:15229646   PMID:15371513   PMID:15385616   PMID:15950290   PMID:16000615  
PMID:16289828   PMID:16424942   PMID:16702404   PMID:17901127   PMID:17953618   PMID:18794344   PMID:19555662   PMID:20123967   PMID:20599619   PMID:21258860   PMID:23168994   PMID:28970252  
PMID:30481511   PMID:31835090  


Genomics

Comparative Map Data
Nr2e1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22046,050,134 - 46,070,569 (-)NCBI
Rnor_6.0 Ensembl2047,288,137 - 47,306,318 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02047,286,843 - 47,306,318 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02048,956,022 - 48,976,460 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera2053,902,230 - 53,921,543 (+)NCBICelera
Cytogenetic Map20q13NCBI
NR2E1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl6108,166,022 - 108,188,805 (+)EnsemblGRCh38hg38GRCh38
GRCh386108,166,022 - 108,188,809 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh376108,487,226 - 108,510,013 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366108,593,955 - 108,616,706 (+)NCBINCBI36hg18NCBI36
Build 346108,593,954 - 108,616,704NCBI
Celera6109,233,715 - 109,256,507 (+)NCBI
Cytogenetic Map6q21NCBI
HuRef6106,055,461 - 106,078,257 (+)NCBIHuRef
CHM1_16108,750,235 - 108,772,994 (+)NCBICHM1_1
Nr2e1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391042,437,959 - 42,459,721 (-)NCBIGRCm39mm39
GRCm39 Ensembl1042,437,959 - 42,459,628 (-)Ensembl
GRCm381042,561,963 - 42,583,590 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1042,561,963 - 42,583,632 (-)EnsemblGRCm38mm10GRCm38
MGSCv371042,281,777 - 42,303,394 (-)NCBIGRCm37mm9NCBIm37
MGSCv361042,250,386 - 42,272,003 (-)NCBImm8
Celera1043,429,189 - 43,451,223 (-)NCBICelera
Cytogenetic Map10B2NCBI
cM Map1022.89NCBI
Nr2e1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541133,303,655 - 33,325,376 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541133,303,765 - 33,325,221 (+)NCBIChiLan1.0ChiLan1.0
NR2E1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16109,830,458 - 109,852,779 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6109,831,223 - 109,851,436 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06105,965,478 - 105,988,213 (+)NCBIMhudiblu_PPA_v0panPan3
NR2E1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11265,209,177 - 65,230,274 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1265,209,542 - 65,228,998 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1265,025,508 - 65,046,090 (+)NCBI
ROS_Cfam_1.01266,085,435 - 66,106,030 (+)NCBI
UMICH_Zoey_3.11265,440,929 - 65,461,512 (+)NCBI
UNSW_CanFamBas_1.01265,287,358 - 65,307,930 (+)NCBI
UU_Cfam_GSD_1.01265,560,068 - 65,580,649 (+)NCBI
Nr2e1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946100,157,644 - 100,178,191 (+)NCBI
SpeTri2.0NW_0049365644,432,556 - 4,453,056 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NR2E1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl174,271,042 - 74,292,681 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1174,266,667 - 74,292,686 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2183,451,928 - 83,562,972 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NR2E1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11365,663,495 - 65,686,510 (-)NCBI
ChlSab1.1 Ensembl1365,664,826 - 65,685,807 (-)Ensembl
Vero_WHO_p1.0NW_02366604037,989,706 - 38,012,780 (-)NCBI
Nr2e1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462478014,098,144 - 14,119,791 (-)NCBI

Position Markers
REN49712  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22046,071,222 - 46,071,453 (+)MAPPER
Rnor_6.02047,306,972 - 47,307,202NCBIRnor6.0
Rnor_5.02048,977,114 - 48,977,344UniSTSRnor5.0
RGSC_v3.42046,513,193 - 46,513,423UniSTSRGSC3.4
Celera2053,901,346 - 53,901,576UniSTS
REN49778  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22046,055,779 - 46,056,020 (+)MAPPER
Rnor_6.02047,291,969 - 47,292,209NCBIRnor6.0
Rnor_5.02048,962,111 - 48,962,351UniSTSRnor5.0
Celera2053,916,750 - 53,916,990UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)20410895649108956Rat
9590092Insglur9Insulin/glucose ratio QTL 918.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)201383430956205956Rat
7411652Foco24Food consumption QTL 240.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)201383430956205956Rat
2317880Alcrsp25Alcohol response QTL 252.3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)201782709656205956Rat
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)201887215049108956Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)202085847056205956Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202660884356205956Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202660884356205956Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202660884356205956Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202671232356205956Rat
1598869Memor6Memory QTL 63.1exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)203091348156205956Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:45
Count of miRNA genes:42
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000075151
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 45
Low 2 2 2 23 3 1
Below cutoff 2 2 1 1 1 2 2 4 12 19 10 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000075151   ⟹   ENSRNOP00000064408
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2047,288,137 - 47,306,318 (-)Ensembl
RefSeq Acc Id: NM_001113197   ⟹   NP_001106668
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22046,051,428 - 46,070,569 (-)NCBI
Rnor_6.02047,288,137 - 47,306,318 (-)NCBI
Rnor_5.02048,956,022 - 48,976,460 (-)NCBI
Celera2053,902,230 - 53,921,543 (+)RGD
Sequence:
RefSeq Acc Id: XM_017601771   ⟹   XP_017457260
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02047,286,843 - 47,302,930 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039099060   ⟹   XP_038954988
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22046,050,134 - 46,066,175 (-)NCBI
RefSeq Acc Id: XM_039099061   ⟹   XP_038954989
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22046,050,134 - 46,068,059 (-)NCBI
RefSeq Acc Id: XM_039099062   ⟹   XP_038954990
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22046,050,134 - 46,066,268 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001106668 (Get FASTA)   NCBI Sequence Viewer  
  XP_038954988 (Get FASTA)   NCBI Sequence Viewer  
  XP_038954989 (Get FASTA)   NCBI Sequence Viewer  
  XP_038954990 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ABY28383 (Get FASTA)   NCBI Sequence Viewer  
  EDL99704 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001106668   ⟸   NM_001113197
- UniProtKB: A9Z0I4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457260   ⟸   XM_017601771
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000064408   ⟸   ENSRNOT00000075151
RefSeq Acc Id: XP_038954989   ⟸   XM_039099061
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038954990   ⟸   XM_039099062
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038954988   ⟸   XM_039099060
- Peptide Label: isoform X1
Protein Domains
NR LBD   Nuclear receptor

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1595162 AgrOrtholog
Ensembl Genes ENSRNOG00000050550 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000064408 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000075151 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.10.565.10 UniProtKB/TrEMBL
  3.30.50.10 UniProtKB/TrEMBL
InterPro NHR_like_domain UniProtKB/TrEMBL
  Nucl_hrmn_rcpt_lig-bd_core UniProtKB/TrEMBL
  Str_hrmn_rcpt UniProtKB/TrEMBL
  Znf_hrmn_rcpt UniProtKB/TrEMBL
  Znf_NHR/GATA UniProtKB/TrEMBL
KEGG Report rno:684085 UniProtKB/TrEMBL
NCBI Gene 684085 ENTREZGENE
Pfam Hormone_recep UniProtKB/TrEMBL
  zf-C4 UniProtKB/TrEMBL
PhenoGen Nr2e1 PhenoGen
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 Str_ncl_receptor UniProtKB/TrEMBL
UniProt A9Z0I4 ENTREZGENE, UniProtKB/TrEMBL
  M0R4V9_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-15 Nr2e1  nuclear receptor subfamily 2, group E, member 1   LOC684085  similar to nuclear receptor subfamily 2, group E, member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC684085  similar to nuclear receptor subfamily 2, group E, member 1      Symbol and Name status set to provisional 70820 PROVISIONAL