Ifngr1 (interferon gamma receptor 1) - Rat Genome Database

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Gene: Ifngr1 (interferon gamma receptor 1) Rattus norvegicus
Analyze
Symbol: Ifngr1
Name: interferon gamma receptor 1
RGD ID: 620570
Description: Predicted to have cytokine receptor activity. Involved in microglial cell activation and positive regulation of NMDA glutamate receptor activity. Localizes to several cellular components, including dendrite; endoplasmic reticulum; and postsynaptic density. Human ortholog(s) of this gene implicated in asthma; hepatitis B; immunodeficiency 27A; immunodeficiency 27B; and tuberculosis. Orthologous to human IFNGR1 (interferon gamma receptor 1); PARTICIPATES IN type II interferon signaling pathway; Chagas disease pathway; cytokine mediated signaling pathway; INTERACTS WITH 1,2,4-trimethylbenzene; 1-naphthyl isothiocyanate; 3H-1,2-dithiole-3-thione.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Ifngr; interferon gamma receptor
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
mRatBN7.2114,333,167 - 14,351,799 (+)NCBI
Rnor_6.0 Ensembl115,062,432 - 15,080,907 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0115,062,380 - 15,080,815 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0116,607,955 - 16,626,390 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4114,846,369 - 14,864,804 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1114,846,430 - 14,864,866 (+)NCBI
Celera112,776,802 - 12,795,237 (+)NCBICelera
Cytogenetic Map1p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (ISO)
1,2,4-trimethylbenzene  (EXP)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-hydroxypropanoic acid  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4-\{[(5,5,8,8-tetramethyl-5,6,7,8-tetrahydronaphthalen-2-yl)carbonyl]amino\}benzoic acid  (ISO)
4-hydroxyphenyl retinamide  (ISO)
9-cis-retinoic acid  (ISO)
acetamide  (EXP)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
amphotericin B  (ISO)
antirheumatic drug  (ISO)
aripiprazole  (ISO)
belinostat  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzoates  (ISO)
bexarotene  (EXP)
bisphenol A  (EXP,ISO)
cadmium dichloride  (EXP)
cadmium selenide  (ISO)
cannabidiol  (ISO)
carbon nanotube  (ISO)
copper(II) sulfate  (ISO)
cyclophosphamide  (ISO)
delta-tocotrienol  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dicrotophos  (ISO)
diethylstilbestrol  (ISO)
dimethyl sulfoxide  (ISO)
diuron  (EXP)
divanadium pentaoxide  (ISO)
doxorubicin  (ISO)
flutamide  (EXP)
formaldehyde  (ISO)
glyphosate  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
hydrogen peroxide  (ISO)
ketamine  (EXP)
leflunomide  (ISO)
lipopolysaccharide  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
naphthalenes  (EXP)
nickel dichloride  (ISO)
ozone  (ISO)
paracetamol  (ISO)
pentamidine  (ISO)
phenobarbital  (ISO)
phenytoin  (ISO)
pirinixic acid  (ISO)
progesterone  (ISO)
quercetin  (ISO)
rac-lactic acid  (ISO)
Ro 41-5253  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium stibogluconate  (ISO)
Soman  (EXP)
tetrachloromethane  (EXP,ISO)
titanium dioxide  (ISO)
trichloroethene  (ISO)
triphenyl phosphate  (EXP)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)
zinc sulfate  (ISO)
zoledronic acid  (ISO)

References

References - curated
1. Aoki M, etal., Int J Mol Med. 2003 Aug;12(2):185-91.
2. Balkan E, etal., Med Sci Monit. 2018 Mar 13;24:1511-1516. doi: 10.12659/msm.907918.
3. Dorman SE, etal., Lancet. 2004 Dec 11-17;364(9451):2113-21.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. GOA data from the GO Consortium
6. Gray PW, etal., Proc Natl Acad Sci U S A 1989 Nov;86(21):8497-501.
7. Hofer MJ, etal., J Virol. 2012 Jun;86(12):6932-46. doi: 10.1128/JVI.07147-11. Epub 2012 Apr 11.
8. Leung DY, etal., J Allergy Clin Immunol. 2011 Apr;127(4):965-73.e1-5.
9. MGD data from the GO Consortium
10. NCBI rat LocusLink and RefSeq merged data July 26, 2002
11. Newport MJ, etal., N Engl J Med. 1996 Dec 26;335(26):1941-9.
12. Niedzielska I and Cierpka S, Thromb Res. 2010 Oct;126(4):324-7. Epub 2010 Jul 22.
13. OMIM Disease Annotation Pipeline
14. Pendergrass SA, etal., PLoS One. 2010 Aug 17;5(8):e12106.
15. Pipeline to import KEGG annotations from KEGG into RGD
16. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
17. Rauch I, etal., Mol Cell Biol. 2015 Jul;35(13):2332-43. doi: 10.1128/MCB.01498-14. Epub 2015 Apr 27.
18. RGD automated data pipeline
19. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
20. RGD automated import pipeline for gene-chemical interactions
21. RGD comprehensive gene curation
22. Sologuren I, etal., Hum Mol Genet. 2011 Apr 15;20(8):1509-23. Epub 2011 Jan 25.
23. Sonekatsu M, etal., Mol Pain. 2016 Apr 18;12. pii: 12/0/1744806916644927. doi: 10.1177/1744806916644927. Print 2016.
24. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
25. Velez DR, etal., Hum Genet. 2009 Nov;126(5):643-53. Epub 2009 Jul 3.
26. Vikman K, etal., J Neurocytol. 1998 Oct;27(10):749-59.
27. Yu M, etal., J Clin Invest. 2011 Aug;121(8):3133-43.
Additional References at PubMed
PMID:17255335   PMID:19213397   PMID:19380717   PMID:25268627  


Genomics

Comparative Map Data
Ifngr1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2114,333,167 - 14,351,799 (+)NCBI
Rnor_6.0 Ensembl115,062,432 - 15,080,907 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0115,062,380 - 15,080,815 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0116,607,955 - 16,626,390 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4114,846,369 - 14,864,804 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1114,846,430 - 14,864,866 (+)NCBI
Celera112,776,802 - 12,795,237 (+)NCBICelera
Cytogenetic Map1p12NCBI
IFNGR1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl6137,197,485 - 137,219,449 (-)EnsemblGRCh38hg38GRCh38
GRCh38.p13 Ensembl6137,197,484 - 137,219,449 (-)EnsemblGRCh38hg38GRCh38
GRCh386137,197,484 - 137,220,351 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh376137,518,621 - 137,540,522 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366137,560,315 - 137,582,200 (-)NCBINCBI36hg18NCBI36
Build 346137,560,314 - 137,582,200NCBI
Celera6138,258,636 - 138,280,689 (-)NCBI
Cytogenetic Map6q23.3NCBI
HuRef6135,080,667 - 135,102,743 (-)NCBIHuRef
CHM1_16137,780,861 - 137,802,819 (-)NCBICHM1_1
Ifngr1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391019,467,697 - 19,485,977 (+)NCBIGRCm39mm39
GRCm39 Ensembl1019,467,697 - 19,485,977 (+)Ensembl
GRCm381019,591,949 - 19,610,229 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1019,591,949 - 19,610,229 (+)EnsemblGRCm38mm10GRCm38
MGSCv371019,311,764 - 19,330,031 (+)NCBIGRCm37mm9NCBIm37
MGSCv361019,281,403 - 19,300,326 (+)NCBImm8
Celera1019,489,389 - 19,507,558 (+)NCBICelera
Cytogenetic Map10A3NCBI
cM Map108.49NCBI
Ifngr1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495543622,183,318 - 22,199,013 (+)NCBIChiLan1.0ChiLan1.0
IFNGR1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16139,045,821 - 139,068,053 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6139,045,821 - 139,068,053 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06134,958,270 - 134,980,560 (-)NCBIMhudiblu_PPA_v0panPan3
IFNGR1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1129,646,776 - 29,669,669 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl129,647,552 - 29,669,578 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha130,529,308 - 30,552,201 (-)NCBI
ROS_Cfam_1.0129,808,268 - 29,831,164 (-)NCBI
UMICH_Zoey_3.1129,692,670 - 29,715,561 (-)NCBI
UNSW_CanFamBas_1.0129,577,754 - 29,600,649 (-)NCBI
UU_Cfam_GSD_1.0129,877,088 - 29,899,982 (-)NCBI
Ifngr1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946124,740,584 - 124,766,561 (-)NCBI
SpeTri2.0NW_0049365604,519,858 - 4,545,763 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IFNGR1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl127,037,165 - 27,061,093 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1127,037,151 - 27,061,095 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2130,388,355 - 30,409,360 (+)NCBISscrofa10.2Sscrofa10.2susScr3
IFNGR1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11336,203,038 - 36,224,039 (+)NCBI
ChlSab1.1 Ensembl1336,203,004 - 36,222,542 (+)Ensembl
Ifngr1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624886618,372 - 640,954 (+)NCBI

Position Markers
RH141363  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2114,351,536 - 14,351,721 (+)MAPPER
Rnor_6.0115,080,647 - 15,080,831NCBIRnor6.0
Rnor_5.0116,626,222 - 16,626,406UniSTSRnor5.0
RGSC_v3.4114,864,636 - 14,864,820UniSTSRGSC3.4
Celera112,795,069 - 12,795,253UniSTS
RH 3.4 Map1145.51UniSTS
Cytogenetic Map1p12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1124368159Rat
2298546Neuinf4Neuroinflammation QTL 45.1nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1128468970Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1134993530Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1134993530Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)1134993530Rat
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1164407321Rat
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)125439343579402Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)125439343579402Rat
1578669Bss9Bone structure and strength QTL 96.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)125439343579402Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)125439386904217Rat
1600360Mcs16Mammary carcinoma susceptibility QTL 162.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1186804543724576Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1457869349578693Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15655769122614963Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1565577285706974Rat
1300167Hrtrt2Heart rate QTL 24.35heart pumping trait (VT:2000009)heart rate (CMO:0000002)11131448975844121Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)11131448983657083Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11131448983657083Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11131448983657083Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11131448983657083Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)11131465834993348Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)11249343957493439Rat
2302038Pia31Pristane induced arthritis QTL 315.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)11362925158629251Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:264
Count of miRNA genes:164
Interacting mature miRNAs:189
Transcripts:ENSRNOT00000016286
Prediction methods:Microtar, 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

alimentary part of gastrointestinal system 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 3 43 57 41 19 41 8 11 74 35 39 11 8
Low 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000016286   ⟹   ENSRNOP00000016286
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl115,062,432 - 15,080,907 (+)Ensembl
RefSeq Acc Id: NM_053783   ⟹   NP_446235
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2114,333,265 - 14,351,705 (+)NCBI
Rnor_6.0115,062,380 - 15,080,815 (+)NCBI
Rnor_5.0116,607,955 - 16,626,390 (+)NCBI
RGSC_v3.4114,846,369 - 14,864,804 (+)RGD
Celera112,776,802 - 12,795,237 (+)RGD
Sequence:
RefSeq Acc Id: XM_039109109   ⟹   XP_038965037
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2114,333,182 - 14,351,799 (+)NCBI
RefSeq Acc Id: XR_005504356
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2114,333,167 - 14,351,799 (+)NCBI
Protein Sequences
Protein RefSeqs NP_446235 (Get FASTA)   NCBI Sequence Viewer  
  XP_038965037 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB17055 (Get FASTA)   NCBI Sequence Viewer  
  AAF08977 (Get FASTA)   NCBI Sequence Viewer  
  AAH62039 (Get FASTA)   NCBI Sequence Viewer  
  EDL93784 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_446235   ⟸   NM_053783
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: ENSRNOP00000016286   ⟸   ENSRNOT00000016286
RefSeq Acc Id: XP_038965037   ⟸   XM_039109109
- Peptide Label: isoform X1
Protein Domains
Fibronectin type-III   IFNGR1

Transcriptome

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

Promoters
RGD ID:13689510
Promoter ID:EPDNEW_R35
Type:initiation region
Name:Ifngr1_1
Description:interferon gamma receptor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0115,062,349 - 15,062,409EPDNEW

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)
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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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
MR/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
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:620570 AgrOrtholog
Ensembl Genes ENSRNOG00000012074 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000016286 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016286 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5598500 IMAGE-MGC_LOAD
InterPro FN3_sf UniProtKB/TrEMBL
  FN_III UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Interferon_gamma_pox/mammal UniProtKB/TrEMBL
  Interferon_gamma_rcpt_asu UniProtKB/TrEMBL
KEGG Report rno:116465 UniProtKB/TrEMBL
MGC_CLONE MGC:72347 IMAGE-MGC_LOAD
NCBI Gene 116465 ENTREZGENE
PANTHER PTHR20859:SF5 UniProtKB/TrEMBL
Pfam IFNGR1 UniProtKB/TrEMBL
  Tissue_fac UniProtKB/TrEMBL
PhenoGen Ifngr1 PhenoGen
PRINTS INTERFERONGR UniProtKB/TrEMBL
Superfamily-SCOP FN_III-like UniProtKB/TrEMBL
UniProt Q6P6T3_RAT UniProtKB/TrEMBL
  Q9QZ62_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Ifngr  interferon gamma receptor 1    interferon gamma receptor  Name updated 1299863 APPROVED
2002-08-07 Ifngr  interferon gamma receptor      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in T-cell hybridoma 1302209