Tnfrsf11b (tumor necrosis factor receptor superfamily, member 11b (osteoprotegerin)) - Rat Genome Database

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Gene: Tnfrsf11b (tumor necrosis factor receptor superfamily, member 11b (osteoprotegerin)) Mus musculus
Analyze
Symbol: Tnfrsf11b
Name: tumor necrosis factor receptor superfamily, member 11b (osteoprotegerin)
RGD ID: 11035
MGI Page MGI
Description: Involved in negative regulation of osteoclast differentiation. Acts upstream of or within extracellular matrix organization and negative regulation of odontogenesis of dentin-containing tooth. Located in extracellular matrix. Is expressed in several structures, including arterial system; bone; gut; lung; and placenta. Used to study osteoporosis. Human ortholog(s) of this gene implicated in Paget's disease of bone; Paget's disease of bone 5; and osteoarthritis. Orthologous to human TNFRSF11B (TNF receptor superfamily member 11b).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: O; OC; OCIF; Opg; osteoclastogenesis inhibitory factor; osteoprotegerin; TR; TR1; tumor necrosis factor receptor superfamily member 11B
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391554,114,014 - 54,141,700 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1554,114,015 - 54,141,880 (-)EnsemblGRCm39 Ensembl
GRCm381554,250,619 - 54,278,484 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1554,250,619 - 54,278,484 (-)EnsemblGRCm38mm10GRCm38
MGSCv371554,082,174 - 54,110,039 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361554,080,702 - 54,108,567 (-)NCBIMGSCv36mm8
Celera1555,801,719 - 55,829,545 (-)NCBICelera
Cytogenetic Map15D1NCBI
cM Map1521.15NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-anisomycin  (EXP)
(20S)-ginsenoside Rg3  (ISO)
(S)-nicotine  (ISO)
1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (ISO)
1,2-dichloroethane  (EXP)
1,2-dimethylhydrazine  (EXP,ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (EXP)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3-chloropropane-1,2-diol  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (EXP,ISO)
4,4'-diaminodiphenylmethane  (EXP)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (ISO)
aldehydo-D-glucosamine  (ISO)
aldehydo-D-glucose  (ISO)
alendronic acid  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (ISO)
amsacrine  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (EXP)
antimycin A  (EXP)
aripiprazole  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
avobenzone  (ISO)
benzo[a]pyrene  (EXP,ISO)
beta-D-glucosamine  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (ISO)
Butylparaben  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
calciol  (EXP,ISO)
calcitriol  (EXP,ISO)
calcium atom  (EXP)
calcium(0)  (EXP)
cannabidiol  (ISO)
carbamazepine  (ISO)
carbocyclic thromboxane A2  (ISO)
carbon nanotube  (EXP)
carbonyl sulfide  (ISO)
carmustine  (ISO)
celecoxib  (ISO)
CGP 52608  (ISO)
chloroprene  (EXP)
chlorpyrifos  (EXP)
choline  (EXP)
chondroitin sulfate  (ISO)
chromium(3+) trichloride  (EXP)
clothianidin  (ISO)
cobalt dichloride  (EXP)
cocaine  (EXP)
corticosterone  (ISO)
crocidolite asbestos  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
daidzein  (ISO)
DDE  (ISO)
DDT  (ISO)
decabromodiphenyl ether  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
diethyl malate  (EXP)
dihydro-beta-erythroidine  (ISO)
dioscin  (EXP)
dioxygen  (ISO)
disodium selenite  (ISO)
diuron  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (ISO)
entinostat  (ISO)
ethanol  (ISO)
etoposide  (EXP)
fenofibrate  (ISO)
fenvalerate  (ISO)
flavonoids  (ISO)
flutamide  (ISO)
folic acid  (EXP)
fonofos  (ISO)
fulvestrant  (EXP,ISO)
furan  (ISO)
gadolinium trichloride  (ISO)
gemcitabine  (ISO)
genistein  (EXP,ISO)
glucose  (ISO)
glycerol 2-phosphate  (ISO)
glycidol  (ISO)
glyphosate  (ISO)
hydrogen peroxide  (ISO)
icariin  (EXP)
icariside II  (ISO)
indometacin  (ISO)
iron dextran  (ISO)
isoflurane  (ISO)
isonicotinamide  (EXP)
ketamine  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (EXP)
lead diacetate  (EXP,ISO)
leflunomide  (EXP)
levonorgestrel  (ISO)
lipopolysaccharide  (EXP,ISO)
lovastatin  (EXP)
menadione  (ISO)
menaquinone-4  (EXP)
menaquinone-7  (EXP)
methotrexate  (ISO)
methylmercury chloride  (ISO)
mifepristone  (ISO)
Myrtucommulone A  (EXP)
N-methyl-N-nitrosourea  (ISO)
N-nitrosodiethylamine  (EXP)
naringin  (EXP)
nickel atom  (ISO)
nicotinamide  (EXP)
nicotine  (ISO)
O-methyleugenol  (ISO)
orphenadrine  (ISO)
ospemifene  (ISO)
ozagrel  (ISO)
ozone  (ISO)
p-menthan-3-ol  (ISO)
pamidronate  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
parathion  (ISO)
paricalcitol  (ISO)
pentobarbital  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenethyl caffeate  (ISO)
phenobarbital  (EXP)
phenylmercury acetate  (ISO)
phosphorus atom  (ISO)
phosphorus(.)  (ISO)
pioglitazone  (ISO)
pirinixic acid  (EXP,ISO)
poly(ethylene)  (ISO)
potassium chromate  (ISO)
potassium dichromate  (EXP)
progesterone  (ISO)
prostaglandin D2  (EXP)
prostaglandin E1  (EXP)
prostaglandin E2  (EXP)
prostaglandin F2alpha  (EXP)
puerarin  (ISO)
pyrethrins  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
resveratrol  (EXP,ISO)
rotenone  (ISO)
rubiadin  (ISO)
SB 203580  (EXP,ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
simvastatin  (ISO)
sodium arsenate  (EXP,ISO)
sodium arsenite  (EXP,ISO)
sodium fluoride  (EXP,ISO)
streptozocin  (ISO)
sulfasalazine  (ISO)
sunitinib  (ISO)
tacrolimus hydrate  (ISO)
tamoxifen  (EXP,ISO)
telmisartan  (ISO)
terbufos  (ISO)
tetrachloromethane  (EXP)
thioacetamide  (ISO)
titanium atom  (EXP,ISO)
toluene  (ISO)
tributylstannane  (ISO)
trichloroethene  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
trimellitic anhydride  (EXP)
troglitazone  (EXP,ISO)
uranium atom  (EXP,ISO)
valproic acid  (ISO)
vorinostat  (ISO)
zinc dichloride  (ISO)
zoledronic acid  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal aorta morphology  (IAGP)
abnormal auditory brainstem response  (IEA)
abnormal bone remodeling  (IAGP)
abnormal bone structure  (IAGP)
abnormal brachiocephalic trunk morphology  (IAGP)
abnormal brain morphology  (IEA)
abnormal compact bone morphology  (IAGP)
abnormal dendritic cell antigen presentation  (IAGP)
abnormal distortion product otoacoustic emission  (IAGP)
abnormal eye morphology  (IEA)
abnormal gait  (IEA)
abnormal immune system morphology  (IAGP)
abnormal immune system physiology  (IAGP)
abnormal immunoglobulin level  (IAGP)
abnormal incus body morphology  (IAGP)
abnormal inner ear morphology  (IAGP)
abnormal kidney morphology  (IEA)
abnormal long bone epiphyseal plate morphology  (IAGP)
abnormal long bone epiphysis morphology  (IAGP)
abnormal long bone morphology  (IAGP)
abnormal malleus morphology  (IAGP)
abnormal mandible morphology  (IAGP)
abnormal middle ear morphology  (IAGP)
abnormal middle ear ossicle morphology  (IAGP)
abnormal osteoblast morphology  (IAGP)
abnormal osteoclast differentiation  (IAGP)
abnormal osteoclast morphology  (IAGP)
abnormal osteoclast physiology  (IAGP)
abnormal otic capsule morphology  (IAGP)
abnormal parietal bone morphology  (IAGP)
abnormal pro-B cell differentiation  (IAGP)
abnormal skeleton development  (IAGP)
abnormal skeleton physiology  (IAGP)
abnormal skin morphology  (IEA)
abnormal stapes annular ligament morphology  (IAGP)
abnormal stapes footplate morphology  (IAGP)
abnormal stapes morphology  (IAGP)
abnormal trabecular bone morphology  (IAGP)
absent bone trabeculae  (IAGP)
absent distortion product otoacoustic emissions  (IAGP)
anophthalmia  (IEA)
atherosclerotic lesions  (IAGP)
blind uterus  (IEA)
calcified artery  (IAGP)
corneal opacity  (IEA)
deafness  (IAGP)
decreased B cell number  (IAGP)
decreased body length  (IEA)
decreased body size  (IAGP)
decreased body weight  (IAGP)
decreased bone mineral density  (IAGP)
decreased brain size  (IEA)
decreased grip strength  (IEA)
decreased locomotor activity  (IEA)
decreased prepulse inhibition  (IEA)
decreased trabecular bone mass  (IAGP)
enlarged kidney  (IEA)
fragile skeleton  (IAGP)
increased B cell number  (IAGP)
increased circulating alkaline phosphatase level  (IEA)
increased circulating phosphate level  (IEA)
increased diameter of long bones  (IAGP)
increased immature B cell number  (IAGP)
increased or absent threshold for auditory brainstem response  (IAGP)
increased osteoclast cell number  (IAGP)
increased pro-B cell number  (IAGP)
increased susceptibility to age-related hearing loss  (IAGP)
osteoporosis  (IAGP)
otosclerosis  (IAGP)
postnatal growth retardation  (IAGP)
postnatal lethality, incomplete penetrance  (IAGP)
preweaning lethality, incomplete penetrance  (IEA)
short femur  (IAGP)
short femur neck  (IAGP)
small spleen  (IEA)
thin parietal bone  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. Calcium metabolism in adults with severe aortic valve stenosis and preserved renal function. Akat K, etal., Am J Cardiol. 2010 Mar 15;105(6):862-4. doi: 10.1016/j.amjcard.2009.10.065.
2. Decreased serum osteoprotegerin levels in patients with cardiac syndrome X. Altun A, etal., J Endocrinol Invest. 2004 Oct;27(9):839-43.
3. Markers of bone metastases in breast and lung cancers. Bilgin E, etal., Asian Pac J Cancer Prev. 2012;13(9):4331-4.
4. Osteoprotegerin is associated with cardiovascular risk in hypertension and/or diabetes. Blazquez-Medela AM, etal., Eur J Clin Invest. 2012 May;42(5):548-56. doi: 10.1111/j.1365-2362.2011.02619.x. Epub 2011 Nov 4.
5. Telmisartan Prevents Alveolar Bone Loss by Decreasing the Expression of Osteoclasts Markers in Hypertensive Rats With Periodontal Disease. Brito VGB, etal., Front Pharmacol. 2020 Nov 11;11:579926. doi: 10.3389/fphar.2020.579926. eCollection 2020.
6. Long-term sequential receptor activator of NF-kappaB ligand (RANKL) and osteoprotegrin (OPG) expression in lipopolysaccharide-induced rat periapical lesions. Chuang FH, etal., J Oral Pathol Med. 2012 Feb;41(2):186-93. doi: 10.1111/j.1600-0714.2011.01065.x. Epub 2011 Jul 28.
7. Reduced bone resorption and inflammation in apical periodontitis evoked by dietary supplementation with probiotics in rats. Cosme-Silva L, etal., Int Endod J. 2020 Aug;53(8):1084-1092. doi: 10.1111/iej.13311. Epub 2020 May 21.
8. Serum levels of osteoprotegerin and RANKL in patients with ST elevation acute myocardial infarction. Crisafulli A, etal., Clin Sci (Lond). 2005 Oct;109(4):389-95.
9. A mutation in the gene TNFRSF11B encoding osteoprotegerin causes an idiopathic hyperphosphatasia phenotype. Cundy T, etal., Hum Mol Genet. 2002 Sep 1;11(18):2119-27.
10. Imbalance of RANK, RANKL and OPG expression during tibial fracture repair in diabetic rats. de Amorim FP, etal., J Mol Histol. 2008 Aug;39(4):401-8. Epub 2008 Jul 1.
11. Correlations of urinary biomarkers, TNF-like weak inducer of apoptosis (TWEAK), osteoprotegerin (OPG), monocyte chemoattractant protein-1 (MCP-1), and IL-8 with lupus nephritis. El-Shehaby A, etal., J Clin Immunol. 2011 Oct;31(5):848-56. doi: 10.1007/s10875-011-9555-1. Epub 2011 Jun 21.
12. Early molecular responses of bone to obstructive nephropathy induced by unilateral ureteral obstruction in mice. Gu SS, etal., Nephrology (Carlton). 2012 Nov;17(8):767-73. doi: 10.1111/j.1440-1797.2012.01656.x.
13. Serum osteoprotegerin levels in patients with acute atherothrombotic stroke and lacunar infarct. Guldiken B, etal., Thromb Res. 2007 Jan 24;.
14. Osteoprotegerin concentrations and prognosis in acute ischaemic stroke. Jensen JK, etal., J Intern Med. 2010 Apr;267(4):410-7. doi: 10.1111/j.1365-2796.2009.02163.x. Epub 2009 Aug 26.
15. Plasma osteoprotegerin levels predict cardiovascular and all-cause mortality and deterioration of kidney function in type 1 diabetic patients with nephropathy. Jorsal A, etal., Diabetologia. 2008 Nov;51(11):2100-7. doi: 10.1007/s00125-008-1123-8. Epub 2008 Aug 22.
16. Osteoprotegerin is a risk factor for progressive atherosclerosis and cardiovascular disease. Kiechl S, etal., Circulation. 2004 May 11;109(18):2175-80. Epub 2004 Apr 26.
17. Serum osteoprotegerin is a predictor of progression of atherosclerosis and coronary calcification in hemodialysis patients. Kurnatowska I, etal., Nephron Clin Pract. 2011;117(4):c297-304. doi: 10.1159/000321169. Epub 2010 Sep 22.
18. Sinomenine suppresses osteoclast formation and Mycobacterium tuberculosis H37Ra-induced bone loss by modulating RANKL signaling pathways. Li X, etal., PLoS One. 2013 Sep 16;8(9):e74274. doi: 10.1371/journal.pone.0074274. eCollection 2013.
19. [Serum osteoprotegerin level in children with nephrotic syndrome and the effect of glucocorticoid on it]. Li YL and Wang H, Zhongguo Dang Dai Er Ke Za Zhi. 2012 Sep;14(9):653-6.
20. Osteoprotegerin/RANK/RANKL axis in cardiac remodeling due to immuno-inflammatory myocardial disease. Liu W, etal., Exp Mol Pathol. 2008 Jun;84(3):213-7. Epub 2008 Mar 7.
21. [Effects of kangfengshi granules on expressions of osteoprotegerin, RANKL and M-CSF in bone tissues of rats with collagen-induced arthritis] Liu YH, etal., Zhong Xi Yi Jie He Xue Bao. 2006 May;4(3):307-10.
22. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
23. MGDs mouse GO annotations MGD data from the GO Consortium
24. The RANKL/RANK/OPG signaling pathway mediates medial arterial calcification in diabetic Charcot neuroarthropathy. Ndip A, etal., Diabetes. 2011 Aug;60(8):2187-96. doi: 10.2337/db10-1220. Epub 2011 Jun 9.
25. Lovastatin raises serum osteoprotegerin level in people with type 2 diabetic nephropathy. Nezami N, etal., Clin Biochem. 2010 Nov;43(16-17):1294-9. doi: 10.1016/j.clinbiochem.2010.08.012. Epub 2010 Aug 19.
26. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
27. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
28. Mouse MP Annotation Import Pipeline RGD automated import pipeline
29. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
30. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
31. Relationship of serum osteoprotegerin levels with coronary artery disease severity, left ventricular hypertrophy and C-reactive protein. Rhee EJ, etal., Clin Sci (Lond). 2005 Mar;108(3):237-43.
32. Osteoprotegerin: a novel secreted protein involved in the regulation of bone density. Simonet WS, etal., Cell 1997 Apr 18;89(2):309-19.
33. Prevalence and progression of peripheral vascular calcification in type 2 diabetes subjects with preserved kidney function. Singh DK, etal., Diabetes Res Clin Pract. 2012 Jul;97(1):158-65. doi: 10.1016/j.diabres.2012.01.038. Epub 2012 Mar 3.
34. Serum osteoprotegerin, RANKL and fibroblast growth factor-23 in children with chronic kidney disease. Siomou E, etal., Pediatr Nephrol. 2011 Jul;26(7):1105-14. doi: 10.1007/s00467-011-1870-5. Epub 2011 Apr 9.
35. Dysregulated osteoprotegerin/RANK ligand/RANK axis in clinical and experimental heart failure. Ueland T, etal., Circulation. 2005 May 17;111(19):2461-8. Epub 2005 May 9.
36. The relationship between insulin resistance assessed by HOMA-IR and serum osteoprotegerin levels in obesity. Ugur-Altun B, etal., Diabetes Res Clin Pract. 2005 Jun;68(3):217-22. Epub 2005 Jan 18.
37. Association study of candidate genes for the prevalence and progression of knee osteoarthritis. Valdes AM, etal., Arthritis Rheum. 2004 Aug;50(8):2497-507.
38. Association between increased serum osteoprotegerin levels and improvement in bone mineral density after parathyroidectomy in hemodialysis patients. Zheng CM, etal., Tohoku J Exp Med. 2012;226(1):19-27.
39. Osteoprotegerin plasma concentrations correlate with severity of peripheral artery disease. Ziegler S, etal., Atherosclerosis. 2005 Sep;182(1):175-80. Epub 2005 Apr 26.
Additional References at PubMed
PMID:9168977   PMID:9573043   PMID:9647741   PMID:9714833   PMID:9837769   PMID:10349636   PMID:10952716   PMID:10965921   PMID:11042159   PMID:11076861   PMID:11160187   PMID:11217851  
PMID:11239407   PMID:11918293   PMID:11920384   PMID:12211438   PMID:12446599   PMID:12477932   PMID:12506018   PMID:12526098   PMID:12568404   PMID:12697767   PMID:12923331   PMID:14500574  
PMID:14525906   PMID:14764723   PMID:14969393   PMID:14977979   PMID:14981127   PMID:15226265   PMID:15340228   PMID:15474477   PMID:15564564   PMID:15845617   PMID:15855336   PMID:15866165  
PMID:16141072   PMID:16141073   PMID:16251181   PMID:16326388   PMID:16424941   PMID:16467704   PMID:16537572   PMID:16564235   PMID:16602821   PMID:16614077   PMID:16680826   PMID:16750437  
PMID:16840715   PMID:16927271   PMID:16951341   PMID:16995817   PMID:17148684   PMID:17182555   PMID:17516544   PMID:17560185   PMID:17615383   PMID:18172035   PMID:18242177   PMID:18297083  
PMID:18337202   PMID:18458345   PMID:18668542   PMID:18668550   PMID:18757743   PMID:18788552   PMID:18799150   PMID:18927151   PMID:19170762   PMID:19197242   PMID:19228596   PMID:19419310  
PMID:19633200   PMID:19641036   PMID:19819969   PMID:20142103   PMID:20200944   PMID:20200998   PMID:20369527   PMID:20440000   PMID:20936961   PMID:20963556   PMID:21079361   PMID:21148188  
PMID:21267068   PMID:21332025   PMID:21346198   PMID:21351141   PMID:21426505   PMID:21439958   PMID:21466864   PMID:21478097   PMID:21656335   PMID:21750093   PMID:22196183   PMID:22457635  
PMID:22522930   PMID:22551876   PMID:22564414   PMID:22664871   PMID:22807088   PMID:23039992   PMID:23071670   PMID:23268391   PMID:23291450   PMID:23331792   PMID:23567158   PMID:23580147  
PMID:23607938   PMID:23722907   PMID:23728177   PMID:23762316   PMID:23895994   PMID:23990207   PMID:24006456   PMID:24327965   PMID:24642764   PMID:24847069   PMID:24862038   PMID:24948010  
PMID:24998520   PMID:25301844   PMID:25401279   PMID:25464126   PMID:25736226   PMID:25846796   PMID:26018435   PMID:26093292   PMID:26094741   PMID:26094891   PMID:26134413   PMID:26254339  
PMID:26329493   PMID:26751951   PMID:26783750   PMID:26825553   PMID:26825871   PMID:26923114   PMID:26947973   PMID:27052174   PMID:27064449   PMID:27085457   PMID:27188231   PMID:27460899  
PMID:27541035   PMID:27621061   PMID:27697839   PMID:27764222   PMID:27804995   PMID:27898403   PMID:28070143   PMID:28319142   PMID:28336912   PMID:28373003   PMID:28543818   PMID:28840938  
PMID:28937990   PMID:29202462   PMID:29382610   PMID:29415886   PMID:29644561   PMID:29662200   PMID:30254073   PMID:30422320   PMID:30623241   PMID:30626205   PMID:30626485   PMID:31081236  
PMID:31292134   PMID:31318102   PMID:31356686   PMID:31480885   PMID:31696568   PMID:31729368   PMID:31932605   PMID:31943048   PMID:31958462   PMID:32053272   PMID:32186512   PMID:32307402  
PMID:32315212   PMID:32614927   PMID:32636266   PMID:32694652   PMID:32905775   PMID:32913205   PMID:33141273   PMID:33277741   PMID:33615520   PMID:33633362   PMID:34172578   PMID:34854215  
PMID:34986499   PMID:35060690   PMID:35266010   PMID:35463988   PMID:35689447   PMID:35691140   PMID:36210025   PMID:36718875   PMID:36726200   PMID:36823220   PMID:36909232   PMID:36995338  
PMID:37704707  


Genomics

Comparative Map Data
Tnfrsf11b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391554,114,014 - 54,141,700 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1554,114,015 - 54,141,880 (-)EnsemblGRCm39 Ensembl
GRCm381554,250,619 - 54,278,484 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1554,250,619 - 54,278,484 (-)EnsemblGRCm38mm10GRCm38
MGSCv371554,082,174 - 54,110,039 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361554,080,702 - 54,108,567 (-)NCBIMGSCv36mm8
Celera1555,801,719 - 55,829,545 (-)NCBICelera
Cytogenetic Map15D1NCBI
cM Map1521.15NCBI
TNFRSF11B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh388118,923,557 - 118,951,885 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl8118,923,557 - 118,951,885 (-)EnsemblGRCh38hg38GRCh38
GRCh378119,935,796 - 119,964,124 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368120,004,977 - 120,033,564 (-)NCBINCBI36Build 36hg18NCBI36
Build 348120,004,977 - 120,033,492NCBI
Celera8116,124,073 - 116,152,621 (-)NCBICelera
Cytogenetic Map8q24.12NCBI
HuRef8115,263,331 - 115,291,874 (-)NCBIHuRef
CHM1_18119,976,820 - 120,005,398 (-)NCBICHM1_1
T2T-CHM13v2.08120,051,990 - 120,080,310 (-)NCBIT2T-CHM13v2.0
Tnfrsf11b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2785,566,520 - 85,594,526 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl785,566,520 - 85,594,538 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx787,463,913 - 87,491,923 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0789,665,094 - 89,693,104 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0789,470,571 - 89,498,581 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0793,798,580 - 93,826,586 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl793,798,545 - 93,826,665 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0794,436,612 - 94,464,618 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4790,606,424 - 90,634,431 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1790,640,654 - 90,668,661 (-)NCBI
Celera782,388,596 - 82,416,602 (-)NCBICelera
Cytogenetic Map7q32NCBI
Tnfrsf11b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541724,804,664 - 24,831,894 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541724,804,708 - 24,831,338 (-)NCBIChiLan1.0ChiLan1.0
TNFRSF11B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan18111,861,966 - 111,890,819 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v08115,614,778 - 115,643,387 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.18118,134,305 - 118,162,422 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl8118,134,305 - 118,162,422 (-)Ensemblpanpan1.1panPan2
TNFRSF11B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11318,155,765 - 18,183,263 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1318,156,367 - 18,183,444 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1318,157,696 - 18,185,164 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01318,475,888 - 18,503,357 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1318,475,887 - 18,503,320 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11318,206,469 - 18,233,953 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01318,302,728 - 18,330,220 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01318,533,442 - 18,560,917 (-)NCBIUU_Cfam_GSD_1.0
Tnfrsf11b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530320,145,169 - 20,172,626 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647027,571,270 - 27,599,089 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647027,571,263 - 27,598,725 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNFRSF11B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl419,850,350 - 19,879,125 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1419,850,212 - 19,879,132 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2421,129,878 - 21,158,557 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TNFRSF11B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.18113,520,711 - 113,549,370 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl8113,520,596 - 113,548,936 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603926,748,455 - 26,777,113 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnfrsf11b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476317,138,847 - 17,166,453 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476317,139,109 - 17,166,398 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tnfrsf11b
741 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:426
Count of miRNA genes:304
Interacting mature miRNAs:359
Transcripts:ENSMUST00000079772
Prediction methods:Miranda, 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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10401902Sicd2_mseizure-induced cell death 2 (mouse)Not determined15347438971197538Mouse
4141952W3q7_mweight 3 weeks QTL 7 (mouse)Not determined348969478601286Mouse
4142252Tailaq4_mtail length adjusted QTL 4 (mouse)Not determined348969478601286Mouse
4142448Tailq6_mtail length QTL 6 (mouse)Not determined348969478601286Mouse
1357559Scfq2_msubcutaneous fat pad weight QTL 2 (mouse)Not determined15348969478601286Mouse
1357659Epfpq4_mepididymal fat percentage QTL 4 (mouse)Not determined15348969478601286Mouse
26884387Skwq8_mskull length QTL 8, 10 week (mouse)15612948168271849Mouse
26884412Bzwq10_mbi-zygomatic width QTL 10, 10 week (mouse)15612948171471849Mouse
26884417Bzwq4_mbi-zygomatic width QTL 4, 5 week (mouse)15612948172471849Mouse
27226786Feml11_mfemur length 11, 5 week (mouse)15612948175871849Mouse
27095932Ulnl11_mulna length 11, 16 week (mouse)15612948176384200Mouse
27226717Tibw4_mtibia width 4, proximal, 10 week (mouse)15612948178684200Mouse
27226734Tibmd5_mtibia midshaft diameter 5, 10 week (mouse)15612948186684201Mouse
26884442Sklq6_mskull length QTL 6, 5 week (mouse)156129481100797881Mouse
27226721Tibw8_mtibia width 8, proximal, 16 week (mouse)15692948175871849Mouse
27226773Tibl16_mtibia length 16, 10 week (mouse)15692948175871849Mouse
27226777Tibl8_mtibia length 8, 5 week (mouse)15692948184584201Mouse
27095940Ulnl8_mulna length 8, 10 week (mouse)15722948155263396Mouse
27226759Feml17_mfemur length 17, 10 week (mouse)15762948155263396Mouse
27226755Feml22_mfemur length 22, 16 week (mouse)15762948159271849Mouse
4141192Ssrq2_mstress response QTL 2 (mouse)Not determined927302256186850Mouse
1301433Rapop5_mradiation-induced apoptosis 5 (mouse)Not determined15927302279474762Mouse
1357526Hyplip2_mhyperlipidemia 2 (mouse)Not determined1512402203102896555Mouse
14928313Manh78_mmandible shape 78 (mouse)152148464155484641Mouse
12859289Criq3_mCitrobacter rodentium infection QTL 3 (mouse)152259376556593765Mouse
4142160Femwf10_mfemur work to failure 10 (mouse)Not determined2289301456893160Mouse
1301557Bbaa22_mB.burgdorferi-associated arthritis 22 (mouse)Not determined152446257258462805Mouse
1300967Bdt6_mbone density traits 6 (mouse)Not determined152529580659295928Mouse
4141409Radsvq1_mradiation sensitivity QTL 1 (mouse)Not determined2548497859484978Mouse
1300772Bglq16_mbody growth late QTL 16 (mouse)Not determined152631178060311880Mouse
1301345Bgeq14_mbody growth early QTL 14 (mouse)Not determined152631178060311880Mouse
1357514Mbis3_mMycobacterium bovis-induced systemic lupus erythematosus 3 (mouse)Not determined162631178060311880Mouse
1301406Egrd2_mearly growth rate (mouse)Not determined152631178060311880Mouse
27226800Scvln20_msacral vertebrae length 2, 16 week (mouse)152660008666371849Mouse
1301450Bpq6_mblood pressure QTL 6 (mouse)Not determined152828264662282739Mouse
1357512Bsbob5_mBSB obesity 5 (mouse)Not determined152828264662282739Mouse
26884425Cvht2_mcranial vault height 2, 5 week (mouse)1528800146102008435Mouse
26884392Humsd8_mhumerus midshaft diameter 8, 16 week (mouse)152930014676084200Mouse
26884452Sklq17_mskull length QTL 17, 16 week (mouse)153020014657963396Mouse
1558985Eae32_mexperimental allergic encephalomyelitis susceptibility 32 (mouse)Not determined1532578416103425899Mouse
1300578Cd8ts3_mCD8 T cell subset 3 (mouse)Not determined153400469468004804Mouse
1301324Cdif_mcolor difference (mouse)Not determined153597590669976019Mouse
27226729Tibmd2_mtibia midshaft diameter 2, 5 week (mouse)153800024486684201Mouse
1301580Hrq2_mheart rate quantitative locus 2 (mouse)Not determined153910039573100593Mouse
1300949Lore5_mloss of righting induced by ethanol 5 (mouse)Not determined154001944158022297Mouse
4142459Lfnq3_mlung function QTL 3 (mouse)Not determined4017702272372580Mouse
26884402Cvht9_mcranial vault height 9, 16 week (mouse)154216339695497881Mouse
1357703Vtbt17_mvertebral trabecular bone trait 17 (mouse)Not determined154455331378553437Mouse
1301568Tria2_mT-cell receptor induced activation 2 (mouse)Not determined154485914178859281Mouse
26884420Cvht6_mcranial vault height 6, 10 week (mouse)154556339669171849Mouse
1357756Alaa4_malopecia areata 4 (mouse)Not determined154638964680389845Mouse
10755515Amzn3_manatomical modifier of Zfp423 3 (mouse)154638964680389845Mouse
1301006Hfib1_mhepatic fibrogenesis 1 (mouse)Not determined154730633481306479Mouse
1301860Gct3_mgranulosa cell tumorigenesis 3 (mouse)Not determined154740959681409691Mouse
26884397Humsd5_mhumerus midshaft diameter 5, 10 week (mouse)154836339698397881Mouse
26884399Humsd1_mhumerus midshaft diameter 1, 5 week (mouse)1548363396101708435Mouse
1301429Pcir3_mperiosteal circumference 3 (mouse)Not determined154846536282465496Mouse
1357661Eae2b_msusceptibility to experimental allergic encephalomyelitis 2b (mouse)Not determined155100469464944308Mouse
1301779Dpml_mdopamine loss (mouse)Not determined155100469476794493Mouse
4142198Hbtq_mhabituation QTL (mouse)Not determined155116070885160833Mouse
10045637Heal27_mwound healing/regeneration 29 (mouse)Not determined155141836185418511Mouse
35673313Ari8_mantibody response to influenza 8, day 15-45, TotalG (mouse)155146339654863396Mouse
10412067Pain2_mpain 2 (mouse)Not determined155164533985645626Mouse
1302080Szs13_mseizure susceptibility 13 (mouse)Not determined155168583285694449Mouse
1301708Cocrb14_mcocaine related behavior 14 (mouse)Not determined155180651585806651Mouse
38501067Tip3_mtuberculosis immunophenotype 3, IFN-g level (mouse)155356339689584203Mouse

Markers in Region
AB013898  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381554,251,254 - 54,251,361UniSTSGRCm38
MGSCv371554,082,809 - 54,082,916UniSTSGRCm37
Celera1555,802,354 - 55,802,461UniSTS
Cytogenetic Map15D1UniSTS
Whitehead/MRC_RH15485.83UniSTS
Tnfrsf11b  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381554,251,042 - 54,251,147UniSTSGRCm38
Celera1555,802,142 - 55,802,247UniSTS
Cytogenetic Map15D1UniSTS
cM Map15 UniSTS
Tnfrsf11b  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map15D1UniSTS
cM Map15 UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000079772   ⟹   ENSMUSP00000078705
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1554,114,015 - 54,141,880 (-)Ensembl
GRCm38.p6 Ensembl1554,250,619 - 54,278,484 (-)Ensembl
RefSeq Acc Id: NM_001411506   ⟹   NP_001398435
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391554,114,014 - 54,141,700 (-)NCBI
RefSeq Acc Id: NM_008764   ⟹   NP_032790
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391554,114,014 - 54,141,700 (-)NCBI
GRCm381554,250,619 - 54,278,484 (-)ENTREZGENE
MGSCv371554,082,174 - 54,110,039 (-)RGD
Celera1555,801,719 - 55,829,545 (-)RGD
cM Map15 ENTREZGENE
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_032790   ⟸   NM_008764
- Peptide Label: isoform 1 precursor
- UniProtKB: O70202 (UniProtKB/Swiss-Prot),   O08712 (UniProtKB/Swiss-Prot),   Q3UK97 (UniProtKB/TrEMBL),   Q6PI12 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000078705   ⟸   ENSMUST00000079772
RefSeq Acc Id: NP_001398435   ⟸   NM_001411506
- Peptide Label: isoform 2
- UniProtKB: Q6PI12 (UniProtKB/TrEMBL)
Protein Domains
Death   TNFR-Cys

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O08712-F1-model_v2 AlphaFold O08712 1-401 view protein structure

Promoters
RGD ID:6826551
Promoter ID:MM_KWN:18437
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:MEF_B4,   MEF_B6
Transcripts:NM_008764
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361554,109,611 - 54,110,111 (-)MPROMDB
RGD ID:8683730
Promoter ID:EPDNEW_M19896
Type:single initiation site
Name:Tnfrsf11b_1
Description:Mus musculus tumor necrosis factor receptor superfamily, member11b , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M19897  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381554,278,304 - 54,278,364EPDNEW
RGD ID:8683734
Promoter ID:EPDNEW_M19897
Type:initiation region
Name:Tnfrsf11b_2
Description:Mus musculus tumor necrosis factor receptor superfamily, member11b , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M19896  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381554,278,426 - 54,278,486EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:109587 AgrOrtholog
Ensembl Genes ENSMUSG00000063727 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000079772 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.533.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tumor Necrosis Factor Receptor, subunit A, domain 2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro DEATH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Death_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFR/NGFR_Cys_rich_reg UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFR_11 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFR_11B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:18383 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:109587 ENTREZGENE
NCBI Gene 18383 ENTREZGENE
PANTHER TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 11B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Death UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFR_c6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tnfrsf11b PhenoGen
PIRSF TNFR_11B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS TNFACTORR11 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFACTORR11B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE DEATH_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFR_NGFR_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFR_NGFR_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART DEATH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ephrin_rec_like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNFR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47986 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF receptor-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt O08712 ENTREZGENE
  O70202 ENTREZGENE
  Q3UK97 ENTREZGENE, UniProtKB/TrEMBL
  Q6PI12 ENTREZGENE, UniProtKB/TrEMBL
  TR11B_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary O70202 UniProtKB/Swiss-Prot