Traf6 (TNF receptor associated factor 6) - Rat Genome Database

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Gene: Traf6 (TNF receptor associated factor 6) Rattus norvegicus
Analyze
Symbol: Traf6
Name: TNF receptor associated factor 6
RGD ID: 1306853
Description: Predicted to enable enzyme binding activity; identical protein binding activity; and ubiquitin-ubiquitin ligase activity. Involved in several processes, including interleukin-1-mediated signaling pathway; regulation protein catabolic process at postsynapse; and response to ischemia. Part of protein-containing complex. Is active in glutamatergic synapse and postsynapse. Orthologous to human TRAF6 (TNF receptor associated factor 6); PARTICIPATES IN interleukin-1 signaling pathway; nuclear factor kappa B signaling pathway; p38 MAPK signaling pathway; INTERACTS WITH 17beta-estradiol; 2,6-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: E3 ubiquitin-protein ligase TRAF6; LOC311245; RING-type E3 ubiquitin transferase TRAF6; TNF receptor-associated factor 6; TNF receptor-associated factor 6, E3 ubiquitin protein ligase
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
GRCr83108,418,537 - 108,443,330 (+)NCBIGRCr8
mRatBN7.2387,963,517 - 87,988,316 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl387,963,514 - 87,983,507 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx391,457,599 - 91,477,545 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03100,056,626 - 100,076,572 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0397,885,654 - 97,905,485 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0391,252,829 - 91,271,607 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl391,252,829 - 91,271,607 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0397,912,482 - 97,935,027 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4386,827,582 - 86,847,408 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1386,728,165 - 86,742,912 (+)NCBI
Celera387,069,225 - 87,089,051 (+)NCBICelera
Cytogenetic Map3q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,6-dinitrotoluene  (EXP)
2-amino-2-deoxy-D-galactopyranose  (ISO)
2-amino-2-deoxy-D-glucopyranose  (ISO)
3-phenylprop-2-enal  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
6-propyl-2-thiouracil  (EXP)
acetic acid  (ISO)
acetylsalicylic acid  (ISO)
aldehydo-D-glucosamine  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
ampicillin  (ISO)
angiotensin II  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
apigenin  (ISO)
apocynin  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atorvastatin calcium  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
Bergenin  (ISO)
beta-D-glucosamine  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
boldenone  (EXP)
C60 fullerene  (EXP)
cadmium dichloride  (ISO)
cadmium selenide  (ISO)
camptothecin  (ISO)
cefoxitin  (ISO)
clofibrate  (ISO)
clothianidin  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
corticosterone  (EXP,ISO)
crocin-1  (ISO)
curcumin  (EXP,ISO)
cyclosporin A  (ISO)
DAPT  (EXP,ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (EXP,ISO)
doxorubicin  (ISO)
enalapril  (ISO)
erlotinib hydrochloride  (ISO)
ethanol  (EXP,ISO)
ferric oxide  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
fructose  (ISO)
furosemide  (EXP)
Fusarenone X  (ISO)
Fusaric acid  (ISO)
gentamycin  (ISO)
glyburide  (EXP)
glycyrrhetinate  (ISO)
glycyrrhetinic acid  (ISO)
glyphosate  (ISO)
hydrogen peroxide  (EXP,ISO)
hydroquinone  (ISO)
hydroxychloroquine  (ISO)
kaempferol  (ISO)
ketoconazole  (EXP)
lactulose  (EXP)
lipoarabinomannan  (ISO)
lipopolysaccharide  (EXP,ISO)
lycopene  (ISO)
maneb  (ISO)
mangiferin  (ISO)
melittin  (ISO)
methamphetamine  (EXP,ISO)
methimazole  (EXP)
methylglyoxal  (ISO)
methylmercury chloride  (ISO)
metronidazole  (ISO)
N-acetyl-L-cysteine  (EXP)
neomycin  (ISO)
nickel dichloride  (ISO)
niclosamide  (ISO)
Nonylphenol  (EXP)
ochratoxin A  (ISO)
p-menthan-3-ol  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
pentachlorophenol  (ISO)
perfluorooctanoic acid  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
platycodin D  (EXP)
poly(I:C)  (ISO)
potassium dichromate  (ISO)
procyanidin B1  (ISO)
progesterone  (EXP,ISO)
quercetin  (ISO)
resveratrol  (ISO)
sevoflurane  (EXP)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
streptozocin  (EXP,ISO)
sulfadimethoxine  (EXP)
sulfasalazine  (ISO)
telmisartan  (ISO)
testosterone  (EXP,ISO)
thapsigargin  (EXP)
thioacetamide  (EXP)
thiram  (ISO)
titanium atom  (EXP)
titanium dioxide  (ISO)
tropisetron  (EXP)
urethane  (ISO)
vancomycin  (ISO)
xanthohumol  (ISO)
zinc atom  (ISO)
zinc oxide  (ISO)
zinc protoporphyrin  (EXP)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
animal organ morphogenesis  (ISO)
antigen processing and presentation of exogenous peptide antigen via MHC class II  (IEA,ISO)
antiviral innate immune response  (IEA,ISO)
autophagosome assembly  (IEA,ISO)
bone remodeling  (ISO)
bone resorption  (IEA,ISO)
canonical NF-kappaB signal transduction  (IEA,ISO)
CD40 signaling pathway  (ISO)
cell development  (ISO)
cellular response to angiotensin  (IEP)
cellular response to cytokine stimulus  (ISO)
cellular response to hydrogen peroxide  (IEP)
cellular response to lipopolysaccharide  (ISO)
cytokine-mediated signaling pathway  (IMP)
cytoplasmic pattern recognition receptor signaling pathway  (IEA,ISO)
DNA damage response  (IEA)
immune response  (ISO)
in utero embryonic development  (IEA,ISO)
innate immune response  (IBA)
interleukin-1-mediated signaling pathway  (IEA,IMP,ISO)
interleukin-17-mediated signaling pathway  (IEA,ISO)
interleukin-17A-mediated signaling pathway  (IEA,ISO)
interleukin-33-mediated signaling pathway  (IEA,ISO)
JNK cascade  (IMP)
lipopolysaccharide-mediated signaling pathway  (IBA,IEA,ISO)
myeloid dendritic cell differentiation  (IEA,ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of transcription by RNA polymerase II  (IEA,ISO)
neural tube closure  (IEA,ISO)
non-canonical NF-kappaB signal transduction  (IEA,ISO)
odontogenesis of dentin-containing tooth  (IEA,ISO)
ossification  (IEA,ISO)
osteoclast differentiation  (IEA,ISO)
positive regulation of canonical NF-kappaB signal transduction  (IEA,ISO,ISS)
positive regulation of interleukin-12 production  (IEA,ISO)
positive regulation of interleukin-2 production  (IEA,ISO)
positive regulation of interleukin-6 production  (IEA,ISO)
positive regulation of leukocyte adhesion to vascular endothelial cell  (IEA,ISO)
positive regulation of lipopolysaccharide-mediated signaling pathway  (IEA,ISO)
positive regulation of osteoclast differentiation  (IEA,ISO)
positive regulation of smooth muscle cell proliferation  (IMP)
positive regulation of T cell cytokine production  (IEA,ISO)
positive regulation of T cell proliferation  (IEA,ISO)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
positive regulation of type I interferon production  (IEA,ISO)
protein autoubiquitination  (IEA,ISO)
protein K63-linked ubiquitination  (IBA,IEA,ISO,ISS)
protein polyubiquitination  (ISO)
protein ubiquitination  (ISO)
regulation of apoptotic process  (IEA)
regulation of canonical NF-kappaB signal transduction  (IBA)
regulation of immunoglobulin production  (IEA,ISO)
regulation of neurotransmitter receptor localization to postsynaptic specialization membrane  (ISO)
regulation protein catabolic process at postsynapse  (IDA,IEP,IMP)
response to interleukin-1  (ISO)
response to ischemia  (IEP)
signal transduction  (ISO)
synapse assembly  (EXP,IDA,IMP)
T cell receptor signaling pathway  (IEA,ISO)
T-helper 1 type immune response  (IEA,ISO)
toll-like receptor 4 signaling pathway  (IEA,ISO)
tumor necrosis factor-mediated signaling pathway  (IBA)

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. The pro-atherogenic cytokine interleukin-18 induces CXCL16 expression in rat aortic smooth muscle cells via MyD88, interleukin-1 receptor-associated kinase, tumor necrosis factor receptor-associated factor 6, c-Src, phosphatidylinositol 3-kinase, Akt, c-Jun N-terminal kinase, and activator protein-1 signaling. Chandrasekar B, etal., J Biol Chem. 2005 Jul 15;280(28):26263-77. Epub 2005 May 11.
2. Mechanisms and functions of p38 MAPK signalling. Cuadrado A and Nebreda AR, Biochem J. 2010 Aug 1;429(3):403-17. doi: 10.1042/BJ20100323.
3. Astrocyte reactivity to unconjugated bilirubin requires TNF-alpha and IL-1beta receptor signaling pathways. Fernandes A, etal., Glia. 2011 Jan;59(1):14-25. doi: 10.1002/glia.21072. Epub 2010 Oct 21.
4. 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.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. The ubiquitin E3 ligase TRAF6 exacerbates pathological cardiac hypertrophy via TAK1-dependent signalling. Ji YX, etal., Nat Commun. 2016 Jun 1;7:11267. doi: 10.1038/ncomms11267.
7. Pathogen recognition by the innate immune system. Kumar H, etal., Int Rev Immunol. 2011 Feb;30(1):16-34.
8. Ischemic Preconditioning-Induced SOCS-1 Protects Rat Intestinal Ischemia Reperfusion Injury via Degradation of TRAF6. Liu SZ, etal., Dig Dis Sci. 2017 Jan;62(1):105-114. doi: 10.1007/s10620-016-4277-0. Epub 2016 Aug 18.
9. Proteasome-independent polyubiquitin linkage regulates synapse scaffolding, efficacy, and plasticity. Ma Q, etal., Proc Natl Acad Sci U S A. 2017 Oct 10;114(41):E8760-E8769. doi: 10.1073/pnas.1620153114. Epub 2017 Sep 25.
10. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
11. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
12. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. The expression of SOCS1 and TLR4-NFkappaB pathway molecules in neoplastic cells as potential biomarker for the aggressive tumor phenotype in laryngeal carcinoma. Starska K, etal., Folia Histochem Cytobiol. 2009 Jan;47(3):401-10. doi: 10.2478/v10042-009-0075-2.
15. Suppressor of cytokine signaling-1 gene therapy induces potent antitumor effect in patient-derived esophageal squamous cell carcinoma xenograft mice. Sugase T, etal., Int J Cancer. 2017 Jun 1;140(11):2608-2621. doi: 10.1002/ijc.30666. Epub 2017 Mar 10.
16. The Interaction of TRAF6 With Neuroplastin Promotes Spinogenesis During Early Neuronal Development. Vemula SK, etal., Front Cell Dev Biol. 2020 Dec 9;8:579513. doi: 10.3389/fcell.2020.579513. eCollection 2020.
17. TLR-4, IL-1R and TNF-R signaling to NF-kappaB: variations on a common theme. Verstrepen L, etal., Cell Mol Life Sci. 2008 Oct;65(19):2964-78.
18. Interleukin-1 (IL-1) pathway. Weber A, etal., Sci Signal. 2010 Jan 19;3(105):cm1. doi: 10.1126/scisignal.3105cm1.
Additional References at PubMed
PMID:10094049   PMID:10215628   PMID:10421844   PMID:11007897   PMID:11279055   PMID:11728344   PMID:11751921   PMID:12296995   PMID:12477932   PMID:12958312   PMID:14499111   PMID:14530355  
PMID:14699584   PMID:15125833   PMID:15322147   PMID:15361868   PMID:15705807   PMID:16079148   PMID:16246731   PMID:16252010   PMID:16378096   PMID:16831874   PMID:17135271   PMID:17633018  
PMID:18093978   PMID:18996842   PMID:19465916   PMID:19482181   PMID:19675569   PMID:19713527   PMID:20079715   PMID:20136795   PMID:20345905   PMID:20614026   PMID:20659889   PMID:21068390  
PMID:21072581   PMID:21435586   PMID:21984198   PMID:21988832   PMID:22095711   PMID:22493164   PMID:22521762   PMID:22829592   PMID:22863753   PMID:23001490   PMID:23042151   PMID:23776175  
PMID:25416956   PMID:25515214   PMID:25708205   PMID:26291555   PMID:26895894   PMID:26925748   PMID:27107012   PMID:27813153   PMID:27830143   PMID:27889748   PMID:27996060   PMID:28543180  
PMID:28771774   PMID:29304519   PMID:29745371   PMID:31177708   PMID:32029478   PMID:32299285   PMID:33165190   PMID:33183053   PMID:33385377   PMID:33744886   PMID:34643253   PMID:34719837  
PMID:35067167   PMID:35202642   PMID:35217880   PMID:35405432   PMID:35696800   PMID:35932799   PMID:37165439   PMID:37898386  


Genomics

Comparative Map Data
Traf6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83108,418,537 - 108,443,330 (+)NCBIGRCr8
mRatBN7.2387,963,517 - 87,988,316 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl387,963,514 - 87,983,507 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx391,457,599 - 91,477,545 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03100,056,626 - 100,076,572 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0397,885,654 - 97,905,485 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0391,252,829 - 91,271,607 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl391,252,829 - 91,271,607 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0397,912,482 - 97,935,027 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4386,827,582 - 86,847,408 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1386,728,165 - 86,742,912 (+)NCBI
Celera387,069,225 - 87,089,051 (+)NCBICelera
Cytogenetic Map3q31NCBI
TRAF6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381136,483,769 - 36,510,272 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1136,483,769 - 36,510,272 (-)EnsemblGRCh38hg38GRCh38
GRCh371136,505,319 - 36,531,822 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361136,467,302 - 36,488,398 (-)NCBINCBI36Build 36hg18NCBI36
Build 341136,467,298 - 36,488,398NCBI
Celera1136,661,891 - 36,684,256 (-)NCBICelera
Cytogenetic Map11p12NCBI
HuRef1136,207,402 - 36,234,755 (-)NCBIHuRef
CHM1_11136,504,096 - 36,530,410 (-)NCBICHM1_1
T2T-CHM13v2.01136,626,229 - 36,653,443 (-)NCBIT2T-CHM13v2.0
Traf6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392101,508,765 - 101,532,013 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2101,508,774 - 101,532,014 (+)EnsemblGRCm39 Ensembl
GRCm382101,678,420 - 101,701,668 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2101,678,429 - 101,701,669 (+)EnsemblGRCm38mm10GRCm38
MGSCv372101,518,597 - 101,541,133 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362101,479,279 - 101,501,815 (+)NCBIMGSCv36mm8
Celera2102,903,294 - 102,925,894 (+)NCBICelera
Cytogenetic Map2E2NCBI
cM Map253.9NCBI
Traf6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554229,932,680 - 9,949,100 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554229,925,765 - 9,950,354 (+)NCBIChiLan1.0ChiLan1.0
TRAF6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2938,702,879 - 38,731,477 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11138,707,533 - 38,736,877 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01136,457,633 - 36,483,616 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11136,330,336 - 36,356,334 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1136,335,609 - 36,356,334 (-)Ensemblpanpan1.1panPan2
TRAF6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11831,674,242 - 31,689,160 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1831,675,391 - 31,688,641 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1831,278,398 - 31,300,151 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01832,281,552 - 32,303,317 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1832,281,510 - 32,299,115 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11831,851,198 - 31,872,911 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01831,435,636 - 31,457,386 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01832,072,955 - 32,094,690 (+)NCBIUU_Cfam_GSD_1.0
Traf6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494728,732,923 - 28,750,178 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365331,857,666 - 1,876,120 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365331,857,685 - 1,874,973 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRAF6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl224,602,804 - 24,626,072 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1224,602,749 - 24,628,263 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2226,767,127 - 26,786,940 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TRAF6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1128,726,357 - 28,752,389 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl128,734,380 - 28,747,092 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038125,864,012 - 125,890,813 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Traf6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476710,729,413 - 10,748,455 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476710,729,766 - 10,803,253 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Traf6
115 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:470
Count of miRNA genes:242
Interacting mature miRNAs:283
Transcripts:ENSRNOT00000006148
Prediction methods:Microtar, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31086191289878372Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)33035677398535386Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333703347104104347Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
1331777Bw24Body weight QTL 243.503body mass (VT:0001259)body weight (CMO:0000012)33945463789115240Rat
1331795Rf30Renal function QTL 303.708urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)33945463789115240Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)341874578104104347Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1300178Hrtrt4Heart rate QTL 43.74heart pumping trait (VT:2000009)heart rate (CMO:0000002)34382736490905114Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)343827364121056321Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)350437042119183768Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)350437504115638231Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)353184593115665732Rat
61377Edpm3Estrogen-dependent pituitary mass QTL 37.050.038pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)35318469289878207Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)35378111291609953Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)35378111291609953Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35378111291609953Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)361017749121056321Rat
631200Cm25Cardiac mass QTL 254.80.0001heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)36113434889115068Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)364655305115665732Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)364655305115665732Rat
12879848Bw181Body weght QTL 1810.015body mass (VT:0001259)body weight (CMO:0000012)370348525121056321Rat
2301414Kidm37Kidney mass QTL 370.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)370653097121056321Rat
1600376Arunc5Aerobic running capacity QTL 50.21exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)373376539118376539Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
2302273Gluco35Glucose level QTL 355.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)380800231114297550Rat

Markers in Region
AW530200  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2387,980,006 - 87,980,173 (+)MAPPERmRatBN7.2
Rnor_6.0391,268,264 - 91,268,430NCBIRnor6.0
Rnor_5.0397,927,918 - 97,928,084UniSTSRnor5.0
RGSC_v3.4386,844,065 - 86,844,231UniSTSRGSC3.4
Celera387,085,708 - 87,085,874UniSTS
RH 3.4 Map3713.0UniSTS
Cytogenetic Map3q31UniSTS
BE115919  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2387,982,531 - 87,982,687 (+)MAPPERmRatBN7.2
Rnor_6.0391,270,789 - 91,270,944NCBIRnor6.0
Rnor_5.0397,930,443 - 97,930,598UniSTSRnor5.0
RGSC_v3.4386,846,590 - 86,846,745UniSTSRGSC3.4
Celera387,088,233 - 87,088,388UniSTS
RH 3.4 Map3711.8UniSTS
Cytogenetic Map3q31UniSTS
Traf6  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2387,982,280 - 87,982,691 (+)MAPPERmRatBN7.2
Rnor_6.0391,270,538 - 91,270,948NCBIRnor6.0
Rnor_5.0397,930,192 - 97,930,602UniSTSRnor5.0
RGSC_v3.4386,846,339 - 86,846,749UniSTSRGSC3.4
Celera387,087,982 - 87,088,392UniSTS
Cytogenetic Map3q31UniSTS


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 2 16 19 23 27 19 11
Low 1 43 41 41 41 8 11 51 8 22 8
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000006148   ⟹   ENSRNOP00000006148
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl387,963,514 - 87,983,507 (+)Ensembl
Rnor_6.0 Ensembl391,252,829 - 91,271,607 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000101806   ⟹   ENSRNOP00000086655
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl387,970,969 - 87,983,507 (+)Ensembl
RefSeq Acc Id: NM_001107754   ⟹   NP_001101224
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83108,418,537 - 108,438,364 (+)NCBI
mRatBN7.2387,963,517 - 87,983,350 (+)NCBI
Rnor_6.0391,252,829 - 91,271,607 (+)NCBI
Rnor_5.0397,912,482 - 97,935,027 (+)NCBI
RGSC_v3.4386,827,582 - 86,847,408 (+)RGD
Celera387,069,225 - 87,089,051 (+)RGD
Sequence:
RefSeq Acc Id: XM_039104924   ⟹   XP_038960852
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83108,418,805 - 108,443,330 (+)NCBI
mRatBN7.2387,963,786 - 87,988,316 (+)NCBI
RefSeq Acc Id: XM_039104925   ⟹   XP_038960853
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83108,418,565 - 108,443,330 (+)NCBI
mRatBN7.2387,963,544 - 87,988,316 (+)NCBI
RefSeq Acc Id: NP_001101224   ⟸   NM_001107754
- UniProtKB: B5DF45 (UniProtKB/Swiss-Prot),   A0A8I6A434 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000006148   ⟸   ENSRNOT00000006148
RefSeq Acc Id: XP_038960853   ⟸   XM_039104925
- Peptide Label: isoform X2
- UniProtKB: A0A8I6A434 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960852   ⟸   XM_039104924
- Peptide Label: isoform X1
- UniProtKB: B5DF45 (UniProtKB/Swiss-Prot),   A0A8I6A434 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000086655   ⟸   ENSRNOT00000101806
Protein Domains
MATH   RING-type   TRAF-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B5DF45-F1-model_v2 AlphaFold B5DF45 1-530 view protein structure

Transcriptome

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

Promoters
RGD ID:13692242
Promoter ID:EPDNEW_R2767
Type:multiple initiation site
Name:Traf6_1
Description:TNF receptor associated factor 6
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_6.0391,252,805 - 91,252,865EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306853 AgrOrtholog
BioCyc Gene G2FUF-48610 BioCyc
Ensembl Genes ENSRNOG00000004639 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055000156 UniProtKB/Swiss-Prot
  ENSRNOG00060002915 UniProtKB/Swiss-Prot
  ENSRNOG00065016611 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000006148 ENTREZGENE
  ENSRNOT00000006148.6 UniProtKB/Swiss-Prot
  ENSRNOT00000101806.1 UniProtKB/TrEMBL
  ENSRNOT00055000231 UniProtKB/Swiss-Prot
  ENSRNOT00060004720 UniProtKB/Swiss-Prot
  ENSRNOT00065027677 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro MATH/TRAF_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF_rcpt--assoc_TRAF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRAF-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRAF6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRAF6_MATH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRAF6_Z2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRAF_MEP1_MATH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_C3HC4_RING-type UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_RING UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_TRAF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:311245 UniProtKB/Swiss-Prot
NCBI Gene 311245 ENTREZGENE
PANTHER PTHR10131 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TNF RECEPTOR-ASSOCIATED FACTOR 6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam TRAF-mep_MATH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRAF6_Z2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  zf-C3HC4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  zf-TRAF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Traf6 PhenoGen
PIRSF TRAF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE MATH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_TRAF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000004639 RatGTEx
  ENSRNOG00055000156 RatGTEx
  ENSRNOG00060002915 RatGTEx
  ENSRNOG00065016611 RatGTEx
SMART MATH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RING UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRAF domain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6A434 ENTREZGENE, UniProtKB/TrEMBL
  B5DF45 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-25 Traf6  TNF receptor associated factor 6  Traf6  TNF receptor-associated factor 6, E3 ubiquitin protein ligase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-16 Traf6  TNF receptor-associated factor 6, E3 ubiquitin protein ligase  Traf6  Tnf receptor-associated factor 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Traf6  Tnf receptor-associated factor 6   Traf6_predicted  Tnf receptor-associated factor 6 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Traf6_predicted  Tnf receptor-associated factor 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED