Tnfsf11 (TNF superfamily member 11) - Rat Genome Database

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Gene: Tnfsf11 (TNF superfamily member 11) Rattus norvegicus
Analyze
Symbol: Tnfsf11
Name: TNF superfamily member 11
RGD ID: 620784
Description: Predicted to enable cytokine activity; identical protein binding activity; and tumor necrosis factor receptor superfamily binding activity. Involved in several processes, including positive regulation of bone resorption; positive regulation of osteoclast differentiation; and response to ethanol. Predicted to be located in plasma membrane. Predicted to be active in extracellular space. Biomarker of mucopolysaccharidosis VI and myocarditis. Human ortholog(s) of this gene implicated in autosomal recessive osteopetrosis 2 and osteoporosis. Orthologous to human TNFSF11 (TNF superfamily member 11); PARTICIPATES IN interleukin-6 signaling pathway; cytokine mediated signaling pathway; rheumatoid arthritis pathway; INTERACTS WITH (20S)-ginsenoside Rg3; (S)-nicotine; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC103689974; ODF; OPGL; osteoclast differentiation factor; osteoprotegerin ligand; RANKL; receptor activator of nuclear factor kappa B ligand; receptor activator of nuclear factor kappa-B ligand; TNF-related activation-induced cytokine; TRANCE; tumor necrosis factor (ligand) superfamily, member 11; tumor necrosis factor ligand superfamily member 11; tumor necrosis factor superfamily member 11
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81560,083,008 - 60,114,479 (-)NCBIGRCr8
mRatBN7.21553,673,850 - 53,705,325 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1553,673,877 - 53,705,445 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1557,808,333 - 57,838,504 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01558,926,702 - 58,956,875 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01555,751,584 - 55,781,751 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01560,482,527 - 60,512,704 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1560,482,527 - 60,512,704 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01565,726,538 - 65,757,935 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01564,155,680 - 64,186,116 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41559,397,837 - 59,428,014 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11559,413,616 - 59,443,794 (-)NCBI
Celera1553,271,197 - 53,300,935 (-)NCBICelera
Cytogenetic Map15q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-anisomycin  (ISO)
(-)-matairesinol  (ISO)
(20S)-ginsenoside Rg3  (EXP)
(S)-nicotine  (EXP)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
2-aminopurine  (ISO)
2-tert-butylhydroquinone  (ISO)
23-epi-26-deoxyactein  (ISO)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
4',5,7-trihydroxy-3'-methoxyflavone  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-amino-5-chloro-N-[1-[3-(4-fluorophenoxy)propyl]-3-methoxy-4-piperidinyl]-2-methoxybenzamide  (ISO)
4-nitroquinoline N-oxide  (ISO)
5,6-dichloro-1-beta-D-ribofuranosyl-1H-benzimidazole  (ISO)
5,6-dichlorobenzimidazole riboside  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucosamine  (ISO)
alendronic acid  (EXP,ISO)
all-trans-retinoic acid  (ISO)
alpha-amanitin  (ISO)
alpha-naphthoflavone  (ISO)
alpha-Zearalanol  (EXP)
ammonium chloride  (EXP)
amsacrine  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antimycin A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atazanavir sulfate  (ISO)
ATP  (ISO)
belinostat  (ISO)
benzamide  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
benzyl isothiocyanate  (ISO)
Bergenin  (ISO)
beta-D-glucosamine  (ISO)
betulinic acid  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (ISO)
cadmium acetate  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
calciol  (ISO)
calcitriol  (EXP,ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
cannabidiol  (ISO)
carbocyclic thromboxane A2  (ISO)
carbon nanotube  (ISO)
chenodeoxycholic acid  (ISO)
chlormequat chloride  (EXP)
chlorpromazine  (ISO)
chondroitin sulfate  (ISO)
chromium(3+) trichloride  (ISO)
cisapride  (ISO)
cobalt dichloride  (ISO)
coenzyme Q10  (ISO)
corilagin  (ISO)
corticosterone  (EXP)
crocin-1  (ISO)
curcumin  (ISO)
cycloheximide  (ISO)
cyclosporin A  (ISO)
Cyclosporin H  (ISO)
daidzein  (ISO)
decabromodiphenyl ether  (EXP)
dehydrocostus lactone  (ISO)
deoxycholic acid  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP,ISO)
dihydro-beta-erythroidine  (EXP)
dimethyl fumarate  (ISO)
dimethylarsinic acid  (ISO)
dioscin  (ISO)
diosgenin  (ISO)
dorsomorphin  (ISO)
ellagic acid  (ISO)
entinostat  (ISO)
ethanol  (EXP,ISO)
etoposide  (ISO)
fluoxetine  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
furosemide  (EXP)
gadolinium trichloride  (ISO)
genistein  (ISO)
gentamycin  (EXP)
ginsenoside Rb1  (ISO)
glycerol 2-phosphate  (ISO)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
icariin  (ISO)
icariside II  (EXP)
Icaritin  (EXP)
indometacin  (EXP)
iron atom  (ISO)
iron dextran  (EXP,ISO)
iron(0)  (ISO)
kaempferol  (ISO)
KN-93  (ISO)
KT 5720  (EXP)
L-ascorbic acid  (ISO)
lead diacetate  (EXP)
levonorgestrel  (ISO)
lipopolysaccharide  (EXP,ISO)
lithocholic acid  (ISO)
loganin  (ISO)
lovastatin  (ISO)
LY294002  (ISO)
mangiferin  (ISO)
menadione  (ISO)
menaquinone  (ISO)
menaquinone-4  (ISO)
methapyrilene  (ISO)
methimazole  (EXP)
methotrexate  (EXP,ISO)
methylarsonic acid  (ISO)
methylglyoxal  (ISO)
methylmercury chloride  (ISO)
mifepristone  (EXP)
miquelianin  (ISO)
modafinil  (EXP)
morin  (EXP)
Morroniside  (ISO)
myricitrin  (ISO)
N-acetyl-L-cysteine  (ISO)
N-ethyl-5'-carboxamidoadenosine  (EXP)
N-nitrosodiethylamine  (EXP)
naringin  (ISO)
nefazodone  (ISO)
nickel atom  (ISO)
niclosamide  (ISO)
nicotinamide  (ISO)
nicotine  (EXP)
nimesulide  (ISO)
o-anisidine  (ISO)
oxybenzone  (ISO)
ozagrel  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
paricalcitol  (EXP)
pentobarbital  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP)
permethrin  (ISO)
phenethyl caffeate  (EXP)
phenobarbital  (EXP,ISO)
phenylephrine  (ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
platycodin D  (EXP,ISO)
poly(ethylene)  (ISO)
prazosin  (ISO)
progesterone  (EXP,ISO)
promethazine  (ISO)
puerarin  (EXP)
quercetin  (ISO)
raloxifene  (ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
riboflavin  (ISO)
Ro 41-5253  (ISO)
rotenone  (ISO)
rubiadin  (EXP)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 203580  (ISO)
SB 431542  (ISO)
sclareol  (ISO)
silicon dioxide  (ISO)
sirolimus  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (EXP,ISO)
sulfasalazine  (ISO)
Sunset Yellow FCF  (ISO)
tacrolimus hydrate  (ISO)
tartrazine  (ISO)
telmisartan  (EXP)
testosterone  (EXP)
thalidomide  (ISO)
Theaflavin 3,3'-digallate  (ISO)
thiram  (ISO)
thymol  (ISO)
thymol sulfate(1-)  (ISO)
titanium atom  (EXP)
titanium dioxide  (ISO)
tofacitinib  (EXP,ISO)
toxoflavin  (ISO)
tributylstannane  (ISO)
Tributyltin oxide  (ISO)
trichostatin A  (ISO)
trifluoperazine  (ISO)
triphenylstannane  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
uranium atom  (EXP,ISO)
valproic acid  (EXP,ISO)
vitamin D  (ISO)
vorinostat  (ISO)
xanthohumol  (ISO)
zinc dichloride  (EXP)
zinc sulfate  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
animal organ morphogenesis  (ISO)
bone development  (ISO)
bone resorption  (IEA,ISO)
calcium ion homeostasis  (IEA,ISO)
calcium-mediated signaling  (IEA,ISO,ISS)
cell surface receptor signaling pathway  (IBA)
cellular response to leukemia inhibitory factor  (IEA,ISO)
cytokine-mediated signaling pathway  (ISO)
ERK1 and ERK2 cascade  (IEA,ISO)
immune response  (IEA)
JNK cascade  (IEA,ISO)
mammary gland alveolus development  (IEA,ISO)
mammary gland epithelial cell proliferation  (IEA,ISO)
monocyte chemotaxis  (IEA,ISO)
negative regulation of transcription by RNA polymerase II  (IEA,ISO)
ossification  (IEA,ISO)
osteoclast development  (IEA,ISO)
osteoclast differentiation  (ISO)
osteoclast proliferation  (IEA,ISO)
paracrine signaling  (IEA,ISO)
phosphatidylinositol 3-kinase/protein kinase B signal transduction  (IEA,ISO)
positive regulation of bone resorption  (IEA,IMP,ISO)
positive regulation of canonical NF-kappaB signal transduction  (IBA,IEA,ISO)
positive regulation of corticotropin-releasing hormone secretion  (IEA,ISO)
positive regulation of DNA-binding transcription factor activity  (ISO)
positive regulation of ERK1 and ERK2 cascade  (IEA,ISO)
positive regulation of extrinsic apoptotic signaling pathway  (IBA)
positive regulation of fever generation by positive regulation of prostaglandin secretion  (IEA,ISO)
positive regulation of gene expression  (IEA,ISO)
positive regulation of homotypic cell-cell adhesion  (IEA,ISO)
positive regulation of intracellular signal transduction  (ISO)
positive regulation of JNK cascade  (IEA,ISO)
positive regulation of MAP kinase activity  (ISO)
positive regulation of NF-kappaB transcription factor activity  (ISO)
positive regulation of osteoclast development  (IEA,ISO)
positive regulation of osteoclast differentiation  (IBA,IMP,ISO)
positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  (IEA,ISO)
positive regulation of phosphorylation  (IEA,ISO)
positive regulation of T cell activation  (IEA,ISO)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
regulation of osteoclast differentiation  (ISO)
response to ethanol  (IEP)
response to immobilization stress  (IEP)
tooth eruption  (IEA,ISO)
tumor necrosis factor-mediated signaling pathway  (IEA,ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. Expression of RANKL/RANK/OPG in primary and metastatic human prostate cancer as markers of disease stage and functional regulation. Chen G, etal., Cancer. 2006 Jul 15;107(2):289-98.
3. 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.
4. Anti-TNF-alpha therapy enhances the effects of enzyme replacement therapy in rats with mucopolysaccharidosis type VI. Eliyahu E, etal., PLoS One. 2011;6(8):e22447. doi: 10.1371/journal.pone.0022447. Epub 2011 Aug 22.
5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6. Serum levels of the osteoprotegerin, receptor activator of nuclear factor kappa-B ligand, metalloproteinase-1 (MMP-1) and tissue inhibitors of MMP-1 levels are increased in men 6 months after acute myocardial infarction. Halapas A, etal., Clin Chem Lab Med. 2008;46(4):510-6.
7. Ethanol increases osteoclastogenesis associated with the increased expression of RANK, PU.1 and MITF in vitro and in vivo. Iitsuka N, etal., Int J Mol Med. 2012 Jul;30(1):165-72. doi: 10.3892/ijmm.2012.974. Epub 2012 Apr 20.
8. RANK ligand-induced elevation of cytosolic Ca2+ accelerates nuclear translocation of nuclear factor kappa B in osteoclasts. Komarova SV, etal., J Biol Chem 2003 Mar 7;278(10):8286-93. Epub 2002 Dec 20.
9. 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.
10. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
11. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
12. Evidence that the rat osteopetrotic mutation toothless (tl) is not in the TNFSF11 (TRANCE, RANKL, ODF, OPGL) gene. Odgren PR, etal., Int J Dev Biol 2001 Dec;45(8):853-9.
13. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
14. Chronic stress may modulate periodontal disease: a study in rats. Peruzzo DC, etal., J Periodontol. 2008 Apr;79(4):697-704.
15. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
16. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
17. GOA pipeline RGD automated data pipeline
18. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
19. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
20. Robust and comprehensive analysis of 20 osteoporosis candidate genes by very high-density single-nucleotide polymorphism screen among 405 white nuclear families identified significant association and gene-gene interaction. Xiong DH, etal., J Bone Miner Res. 2006 Nov;21(11):1678-95.
21. Cloning, sequencing, and functional characterization of the rat homologue of receptor activator of NF-kappaB ligand. Xu J, etal., J Bone Miner Res 2000 Nov;15(11):2178-86.
Additional References at PubMed
PMID:9367155   PMID:9950424   PMID:11051546   PMID:11859102   PMID:12490655   PMID:14662855   PMID:14672351   PMID:14734743   PMID:15248232   PMID:15304486   PMID:15485831   PMID:15657444  
PMID:15704000   PMID:15724149   PMID:15750601   PMID:15844004   PMID:16874862   PMID:17053831   PMID:17241109   PMID:17442941   PMID:17476578   PMID:17608585   PMID:18166509   PMID:18269914  
PMID:18432284   PMID:18476557   PMID:18597628   PMID:18606301   PMID:19008464   PMID:19040304   PMID:19105036   PMID:19252502   PMID:19298785   PMID:19325147   PMID:19501680   PMID:19537860  
PMID:19539794   PMID:19560569   PMID:19714640   PMID:19715671   PMID:19940926   PMID:20439489   PMID:20444587   PMID:20480144   PMID:20595654   PMID:21048959   PMID:21078845   PMID:21176538  
PMID:21602131   PMID:21771583   PMID:21841309   PMID:21982707   PMID:22027774   PMID:22073305   PMID:22194983   PMID:22298642   PMID:22353912   PMID:22428075   PMID:22437732   PMID:22451653  
PMID:22848465   PMID:22878484   PMID:22948539   PMID:23271279   PMID:23334376   PMID:23395171   PMID:23404413   PMID:23500899   PMID:23553492   PMID:23636419   PMID:23769040   PMID:23954550  
PMID:23980096   PMID:24039232   PMID:24190884   PMID:24321069   PMID:25200151   PMID:25257532   PMID:25406873   PMID:26234751   PMID:26270535   PMID:26489619   PMID:26677102   PMID:26722385  
PMID:26962001   PMID:27122093   PMID:27154288   PMID:28092862   PMID:28473060   PMID:28774557   PMID:28898718   PMID:29211121   PMID:29240821   PMID:29297549   PMID:30199848   PMID:31092061  
PMID:31773672   PMID:31828174   PMID:32307402   PMID:32372426   PMID:32722636   PMID:32964459   PMID:34610044   PMID:34946658   PMID:34948030   PMID:35842599   PMID:36054965   PMID:38923421  


Genomics

Comparative Map Data
Tnfsf11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81560,083,008 - 60,114,479 (-)NCBIGRCr8
mRatBN7.21553,673,850 - 53,705,325 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1553,673,877 - 53,705,445 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1557,808,333 - 57,838,504 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01558,926,702 - 58,956,875 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01555,751,584 - 55,781,751 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01560,482,527 - 60,512,704 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1560,482,527 - 60,512,704 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01565,726,538 - 65,757,935 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.01564,155,680 - 64,186,116 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41559,397,837 - 59,428,014 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11559,413,616 - 59,443,794 (-)NCBI
Celera1553,271,197 - 53,300,935 (-)NCBICelera
Cytogenetic Map15q11NCBI
TNFSF11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381342,562,736 - 42,608,013 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1342,562,736 - 42,608,013 (+)EnsemblGRCh38hg38GRCh38
GRCh371343,136,872 - 43,182,149 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361342,043,795 - 42,080,148 (+)NCBINCBI36Build 36hg18NCBI36
Build 341342,043,794 - 42,080,148NCBI
Celera1324,194,611 - 24,239,896 (+)NCBICelera
Cytogenetic Map13q14.11NCBI
HuRef1323,940,423 - 23,985,716 (+)NCBIHuRef
CHM1_11343,104,338 - 43,149,624 (+)NCBICHM1_1
T2T-CHM13v2.01341,782,656 - 41,827,951 (+)NCBIT2T-CHM13v2.0
Tnfsf11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391478,514,886 - 78,545,483 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1478,514,885 - 78,545,483 (-)EnsemblGRCm39 Ensembl
GRCm381478,277,446 - 78,308,043 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1478,277,445 - 78,308,043 (-)EnsemblGRCm38mm10GRCm38
MGSCv371478,677,253 - 78,707,850 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361477,009,005 - 77,042,170 (-)NCBIMGSCv36mm8
Celera1475,790,488 - 75,821,164 (-)NCBICelera
Cytogenetic Map14D3NCBI
cM Map1441.26NCBI
Tnfsf11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955518430,642 - 462,705 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955518431,401 - 462,063 (+)NCBIChiLan1.0ChiLan1.0
TNFSF11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21442,065,957 - 42,099,896 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11333,169,616 - 33,203,518 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01323,750,835 - 23,784,740 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
TNFSF11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1228,226,931 - 8,257,926 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl228,227,555 - 8,258,645 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha228,218,782 - 8,249,783 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0228,445,691 - 8,476,717 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl228,446,327 - 8,477,037 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1228,136,967 - 8,174,247 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0228,193,944 - 8,224,951 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0228,205,225 - 8,236,245 (-)NCBIUU_Cfam_GSD_1.0
Tnfsf11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945152,785,812 - 152,819,281 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367471,255,803 - 1,288,252 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367471,255,803 - 1,288,252 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNFSF11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1124,468,110 - 24,505,477 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11124,468,011 - 24,505,421 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21125,117,332 - 25,154,855 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TNFSF11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1320,717,884 - 20,761,520 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl320,727,592 - 20,760,408 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605723,446,636 - 23,492,542 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnfsf11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474812,527,478 - 12,555,405 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474812,527,221 - 12,555,551 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tnfsf11
228 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:28
Count of miRNA genes:25
Interacting mature miRNAs:26
Transcripts:ENSRNOT00000013210
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)154063126898288169Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
724545Niddm54Non-insulin dependent diabetes mellitus QTL 540.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)155079449473699215Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)152788577486257085Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)152803066582262678Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152211793367117933Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)152280624098288169Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)152280624098288169Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)153405413979054139Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153361105871477291Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153361105871477291Rat
2317050Aia24Adjuvant induced arthritis QTL 242.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)155284790873690657Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)152803066582262678Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)152803066582262678Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)152280624098288169Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)152803066582262678Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
6 1 21 18 17 7 6 7 4 33 11 13 9 13 10

Sequence


Ensembl Acc Id: ENSRNOT00000013210   ⟹   ENSRNOP00000013210
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1562,067,565 - 62,097,749 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000049056   ⟹   ENSRNOP00000044212
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1560,482,527 - 60,512,704 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000107778   ⟹   ENSRNOP00000078615
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1553,673,877 - 53,705,445 (-)Ensembl
RefSeq Acc Id: NM_057149   ⟹   NP_476490
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81560,083,008 - 60,114,479 (-)NCBI
mRatBN7.21553,673,850 - 53,705,325 (-)NCBI
Rnor_6.01560,482,527 - 60,512,704 (-)NCBI
Rnor_5.01564,155,680 - 64,186,116 (-)NCBI
RGSC_v3.41559,397,837 - 59,428,014 (-)RGD
Celera1553,271,197 - 53,300,935 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_476490 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAG17031 (Get FASTA)   NCBI Sequence Viewer  
  AAL23963 (Get FASTA)   NCBI Sequence Viewer  
  EDM02337 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000078615.1
GenBank Protein Q9ESE2 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_476490   ⟸   NM_057149
- UniProtKB: Q9ESE2 (UniProtKB/Swiss-Prot),   Q91ZI9 (UniProtKB/Swiss-Prot),   D3ZXV1 (UniProtKB/TrEMBL),   G3V794 (UniProtKB/TrEMBL),   A6HTX4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000044212   ⟸   ENSRNOT00000049056
Ensembl Acc Id: ENSRNOP00000013210   ⟸   ENSRNOT00000013210
Ensembl Acc Id: ENSRNOP00000078615   ⟸   ENSRNOT00000107778
Protein Domains
THD

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9ESE2-F1-model_v2 AlphaFold Q9ESE2 1-318 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620784 AgrOrtholog
BioCyc Gene G2FUF-13017 BioCyc
Ensembl Genes ENSRNOG00000009559 Ensembl
  ENSRNOG00000049547 Ensembl
  ENSRNOG00000071047 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000107778.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro TNF_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF_ligand_10/11 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tumour_necrosis_fac-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:117516 UniProtKB/Swiss-Prot
NCBI Gene 117516 ENTREZGENE
PANTHER TUMOR NECROSIS FACTOR FAMILY MEMBER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 11 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam TNF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tnfsf11 PhenoGen
PIRSF TNF10_TNF11 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE TNF_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000009559 RatGTEx
  ENSRNOG00000049547 RatGTEx
  ENSRNOG00000071047 RatGTEx
SMART TNF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49842 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A6HTX4 ENTREZGENE, UniProtKB/TrEMBL
  D3ZXV1 ENTREZGENE
  G3V794 ENTREZGENE, UniProtKB/TrEMBL
  Q91ZI9 ENTREZGENE
  Q9ESE2 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary D3ZXV1 UniProtKB/TrEMBL
  Q91ZI9 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Tnfsf11  TNF superfamily member 11  LOC103689974  tumor necrosis factor ligand superfamily member 11  Data merged from RGD:9144322 737654 PROVISIONAL
2017-03-21 Tnfsf11  TNF superfamily member 11  Tnfsf11  tumor necrosis factor superfamily member 11  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-11-25 Tnfsf11  tumor necrosis factor superfamily member 11  Tnfsf11  tumor necrosis factor (ligand) superfamily, member 11  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-08-25 LOC103689974  tumor necrosis factor ligand superfamily member 11      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Tnfsf11  tumor necrosis factor (ligand) superfamily, member 11      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Tnfsf11  tumor necrosis factor (ligand) superfamily, member 11      Symbol and Name status set to provisional 70820 PROVISIONAL