Tnfrsf11a (TNF receptor superfamily member 11A) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Tnfrsf11a (TNF receptor superfamily member 11A) Rattus norvegicus
Analyze
Symbol: Tnfrsf11a
Name: TNF receptor superfamily member 11A
RGD ID: 1563614
Description: Predicted to enable cytokine binding activity and tumor necrosis factor receptor activity. Involved in several processes, including cellular response to zinc ion starvation; osteoclast differentiation; and response to insulin. Located in cytoplasm. Biomarker of myocarditis. Human ortholog(s) of this gene implicated in Paget's disease of bone; autosomal recessive osteopetrosis 7; bone development disease; familial expansile osteolysis; and osteoporosis. Orthologous to human TNFRSF11A (TNF receptor superfamily member 11a); PARTICIPATES IN cytokine mediated signaling pathway; rheumatoid arthritis pathway; INTERACTS WITH 2,6-dinitrotoluene; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC498206; RANK; RGD1563614; similar to Tumor necrosis factor receptor superfamily, member 11a; tumor necrosis factor receptor superfamily member 11a; Tumor necrosis factor receptor superfamily, member 11a; tumor necrosis factor receptor superfamily, member 11a, NFKB activator
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21321,928,370 - 21,986,719 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1321,928,408 - 21,986,695 (+)Ensembl
Rnor_6.01325,778,306 - 25,835,802 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1325,778,317 - 25,835,957 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01330,966,261 - 30,997,692 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41311,958,002 - 12,014,371 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1321,798,588 - 21,856,355 (+)NCBICelera
Cytogenetic Map13p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,6-dinitrotoluene  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (EXP,ISO)
azadirachtin A  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
cadmium dichloride  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
choline  (ISO)
cisplatin  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
cyclosporin A  (ISO)
desferrioxamine B  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (EXP,ISO)
dorsomorphin  (ISO)
ellagic acid  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
folic acid  (ISO)
furosemide  (EXP)
gentamycin  (EXP)
glycidol  (EXP)
indole-3-methanol  (EXP)
isoflurane  (EXP)
kaempferol  (ISO)
L-methionine  (ISO)
lead diacetate  (EXP)
lipopolysaccharide  (ISO)
mangiferin  (ISO)
modafinil  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
N-nitrosodiethylamine  (EXP)
naringin  (ISO)
nitrates  (EXP)
o-anisidine  (ISO)
O-methyleugenol  (ISO)
ozone  (EXP,ISO)
p-menthan-3-ol  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
pentobarbital  (EXP)
pirinixic acid  (ISO)
progesterone  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium fluoride  (ISO)
thioacetamide  (EXP)
thymol  (ISO)
thymol sulfate(1-)  (ISO)
titanium atom  (ISO)
titanium dioxide  (EXP,ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zinc atom  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. 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.
3. 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.
4. Increased expression of the receptor for activation of NF-kappaB and decreased runt-related transcription factor 2 expression in bone of rats with streptozotocin-induced diabetes. Hie M and Tsukamoto I, Int J Mol Med. 2010 Oct;26(4):611-8. doi: 10.3892/ijmm_00000506.
5. Zinc deficiency decreases osteoblasts and osteoclasts associated with the reduced expression of Runx2 and RANK. Hie M, etal., Bone. 2011 Dec;49(6):1152-9. doi: 10.1016/j.bone.2011.08.019. Epub 2011 Aug 26.
6. Identification of a prognostic 5-Gene expression signature for gastric cancer. Hou JY, etal., J Cancer Res Clin Oncol. 2017 Apr;143(4):619-629. doi: 10.1007/s00432-016-2324-z. Epub 2016 Dec 29.
7. Mutations in TNFRSF11A, affecting the signal peptide of RANK, cause familial expansile osteolysis. Hughes AE, etal., Nat Genet. 2000 Jan;24(1):45-8.
8. 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.
9. NF-kappa B genes have a major role in inflammatory breast cancer. Lerebours F, etal., BMC Cancer. 2008 Feb 4;8:41.
10. 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.
11. Expressions of RANKL/RANK and M-CSF/c-fms in root resorption lacunae in rat molar by heavy orthodontic force. Nakano Y, etal., Eur J Orthod. 2011 Aug;33(4):335-43. doi: 10.1093/ejo/cjq068. Epub 2010 Sep 10.
12. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
13. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
14. GOA pipeline RGD automated data pipeline
15. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
16. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
17. Comprehensive gene review and curation RGD comprehensive gene curation
18. Suppression of NFkappaB and its Regulated Gene Products by Oral Administration of Green Tea Polyphenols in an Autochthonous Mouse Prostate Cancer Model. Siddiqui IA, etal., Pharm Res. 2008 Mar 4;.
Additional References at PubMed
PMID:9367155   PMID:10500098   PMID:11051546   PMID:11805147   PMID:12296995   PMID:18606301   PMID:19325147   PMID:19940926   PMID:20074454   PMID:21327437   PMID:21844205   PMID:22848465  
PMID:23443487   PMID:25406873   PMID:29211121   PMID:29297549   PMID:29529595  


Genomics

Comparative Map Data
Tnfrsf11a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21321,928,370 - 21,986,719 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1321,928,408 - 21,986,695 (+)Ensembl
Rnor_6.01325,778,306 - 25,835,802 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1325,778,317 - 25,835,957 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01330,966,261 - 30,997,692 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41311,958,002 - 12,014,371 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1321,798,588 - 21,856,355 (+)NCBICelera
Cytogenetic Map13p11NCBI
TNFRSF11A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381862,325,310 - 62,391,288 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1862,325,287 - 62,391,288 (+)EnsemblGRCh38hg38GRCh38
GRCh371859,992,543 - 60,058,521 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361858,143,528 - 58,204,484 (+)NCBINCBI36hg18NCBI36
Build 341858,143,527 - 58,204,482NCBI
Celera1856,711,789 - 56,772,745 (+)NCBI
Cytogenetic Map18q21.33NCBI
HuRef1856,726,294 - 56,766,005 (+)NCBIHuRef
CHM1_11859,988,087 - 60,050,490 (+)NCBICHM1_1
T2T-CHM13v2.01862,528,176 - 62,594,158 (+)NCBI
Tnfrsf11a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391105,708,448 - 105,777,172 (+)NCBIGRCm39mm39
GRCm39 Ensembl1105,708,443 - 105,775,709 (+)Ensembl
GRCm381105,780,673 - 105,849,444 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1105,780,718 - 105,847,981 (+)EnsemblGRCm38mm10GRCm38
MGSCv371107,677,300 - 107,744,558 (+)NCBIGRCm37mm9NCBIm37
MGSCv361107,608,270 - 107,672,989 (+)NCBImm8
Celera1108,658,349 - 108,696,865 (+)NCBICelera
Cytogenetic Map1E2.1NCBI
Tnfrsf11a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540246,264,164 - 46,296,368 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540246,242,329 - 46,298,157 (+)NCBIChiLan1.0ChiLan1.0
TNFRSF11A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11859,032,727 - 59,075,044 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1859,034,770 - 59,075,044 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01855,695,394 - 55,761,307 (+)NCBIMhudiblu_PPA_v0panPan3
TNFRSF11A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1114,504,595 - 14,555,956 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl114,503,033 - 14,556,041 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha115,469,086 - 15,523,233 (-)NCBI
ROS_Cfam_1.0114,362,189 - 14,416,396 (-)NCBI
ROS_Cfam_1.0 Ensembl114,362,936 - 14,416,396 (-)Ensembl
UMICH_Zoey_3.1114,398,162 - 14,452,574 (-)NCBI
UNSW_CanFamBas_1.0114,331,546 - 14,385,610 (-)NCBI
UU_Cfam_GSD_1.0114,578,257 - 14,632,411 (-)NCBI
Tnfrsf11a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494427,705,806 - 27,756,172 (-)NCBI
SpeTri2.0NW_0049364972,944,841 - 2,986,113 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNFRSF11A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1159,128,038 - 159,187,481 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11159,128,039 - 159,187,476 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21176,590,571 - 176,650,002 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TNFRSF11A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11817,385,251 - 17,446,442 (-)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660608,239,048 - 8,304,073 (+)NCBIVero_WHO_p1.0
Tnfrsf11a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247928,029,364 - 8,084,424 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247928,029,383 - 8,087,824 (+)NCBIHetGla_female_1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2317027Aia22Adjuvant induced arthritis QTL 222.29joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)13134266636Rat
738036Lnnr4Liver neoplastic nodule remodeling QTL 43.64liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)13142356786Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
631672Iddm12Insulin dependent diabetes mellitus QTL 122.20.0032blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)13599466834535351Rat
61339Bp24Blood pressure QTL 240.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)13599466844807491Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)13931346554313465Rat
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)13931346554313465Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)13983154154831541Rat
2303031Bp326Blood pressure QTL 326arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131176653523001904Rat
2317034Aia9Adjuvant induced arthritis QTL 94.62joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)131176653532331607Rat
2317044Aia23Adjuvant induced arthritis QTL 232.3joint integrity trait (VT:0010548)ankle joint diameter (CMO:0002148)131176653532331607Rat
1300163Cardf1Cardiac cell morphology QTL 14.18aorta morphology trait (VT:0000272)artery lesion measurement (CMO:0000975)131192944945417941Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131192944946193066Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131491565559915655Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131515872260158722Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131769443653050594Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:116
Count of miRNA genes:97
Interacting mature miRNAs:104
Transcripts:ENSRNOT00000021129
Prediction methods:Microtar, Miranda, Rnahybrid
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 5
Low 33 51 35 19 35 8 11 59 35 32 11 8
Below cutoff 10 6 6 6 10 9

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000021129   ⟹   ENSRNOP00000021129
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1321,928,408 - 21,986,695 (+)Ensembl
Rnor_6.0 Ensembl1325,778,317 - 25,835,957 (+)Ensembl
RefSeq Acc Id: NM_001271235   ⟹   NP_001258164
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21321,928,408 - 21,986,695 (+)NCBI
Rnor_6.01325,778,306 - 25,835,802 (+)NCBI
Rnor_5.01330,966,261 - 30,997,692 (+)NCBI
Celera1321,798,588 - 21,856,355 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769487   ⟹   XP_008767709
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21321,928,370 - 21,986,719 (+)NCBI
Rnor_6.01325,778,329 - 25,835,802 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001258164 (Get FASTA)   NCBI Sequence Viewer  
  XP_008767709 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL91736 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001258164   ⟸   NM_001271235
- Peptide Label: precursor
- UniProtKB: F1M8Z6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008767709   ⟸   XM_008769487
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000021129   ⟸   ENSRNOT00000021129
Protein Domains
TNFR-Cys

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M8Z6-F1-model_v2 AlphaFold F1M8Z6 1-633 view protein structure

Transcriptome

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

Promoters
RGD ID:13698746
Promoter ID:EPDNEW_R9271
Type:initiation region
Name:Tnfrsf11a_1
Description:TNF receptor superfamily member 11A
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_6.01325,778,305 - 25,778,365EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 25805115 25805116 A G snv MR/N (MCW), GK/Ox (RGD), MHS/Gib (RGD), MR/N (2020), MNS/Gib (RGD), WAG/Rij (RGD), GK/FarMcwi (2019), WAG/RijCrl (2020)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
13 21955408 21955409 A G snv GK/FarMcwi (2019), WAG/RijCrl (2020), MR/N (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1563614 AgrOrtholog
BioCyc Gene G2FUF-18630 BioCyc
Ensembl Genes ENSRNOG00000015615 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000021129 ENTREZGENE
  ENSRNOP00000021129.4 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000021129 ENTREZGENE
  ENSRNOT00000021129.5 UniProtKB/TrEMBL
InterPro RANK_CRD_2 UniProtKB/TrEMBL
  TNFR_11 UniProtKB/TrEMBL
  TNFR_11A UniProtKB/TrEMBL
  TNFR_Cys_rich_reg UniProtKB/TrEMBL
  TNFRSF11A_N UniProtKB/TrEMBL
KEGG Report rno:498206 UniProtKB/TrEMBL
NCBI Gene 498206 ENTREZGENE
Pfam RANK_CRD_2 UniProtKB/TrEMBL
  TNFR_c6 UniProtKB/TrEMBL
PhenoGen Tnfrsf11a PhenoGen
PRINTS TNFACTORR11 UniProtKB/TrEMBL
  TNFACTORR11A UniProtKB/TrEMBL
PROSITE TNFR_NGFR_1 UniProtKB/TrEMBL
  TNFR_NGFR_2 UniProtKB/TrEMBL
SMART TNFR UniProtKB/TrEMBL
UniProt F1M8Z6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-07-05 Tnfrsf11a  TNF receptor superfamily member 11A  Tnfrsf11a  tumor necrosis factor receptor superfamily member 11a  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-11-25 Tnfrsf11a  tumor necrosis factor receptor superfamily member 11a  Tnfrsf11a  tumor necrosis factor receptor superfamily, member 11a, NFKB activator  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-02-02 Tnfrsf11a  tumor necrosis factor receptor superfamily, member 11a, NFKB activator  Tnfrsf11a  Tumor necrosis factor receptor superfamily, member 11a  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Tnfrsf11a  Tumor necrosis factor receptor superfamily, member 11a   Tnfrsf11a_predicted  Tumor necrosis factor receptor superfamily, member 11a (predicted)  'predicted' is removed 2292626 APPROVED
2007-02-05 Tnfrsf11a_predicted  Tumor necrosis factor receptor superfamily, member 11a (predicted)  RGD1563614_predicted  similar to Tumor necrosis factor receptor superfamily, member 11a (predicted)  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1563614_predicted  similar to Tumor necrosis factor receptor superfamily, member 11a (predicted)  LOC498206  similar to Tumor necrosis factor receptor superfamily, member 11a  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498206  similar to Tumor necrosis factor receptor superfamily, member 11a      Symbol and Name status set to provisional 70820 PROVISIONAL