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 several functions, including 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
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83108,418,537 - 108,443,330 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3108,418,513 - 108,443,328 (+)EnsemblGRCr8
mRatBN7.2387,963,517 - 87,988,316 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl387,963,514 - 87,983,507 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx391,457,599 - 91,477,545 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03100,056,626 - 100,076,572 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0397,885,654 - 97,905,485 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0391,252,829 - 91,271,607 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl391,252,829 - 91,271,607 (+)Ensemblrn6Rnor6.0
Rnor_5.0397,912,482 - 97,935,027 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4386,827,582 - 86,847,408 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera387,069,225 - 87,089,051 (+)NCBICelera
RGSC_v3.1386,728,165 - 86,742,912 (+)NCBI
Cytogenetic Map3q31NCBI
JBrowse:




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)
4,4'-sulfonyldiphenol  (ISO)
6-propyl-2-thiouracil  (EXP)
acetic acid  (ISO)
acetylsalicylic acid  (ISO)
alcohol  (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 atom  (ISO)
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)
CU-CPT22  (ISO)
curcumin  (EXP,ISO)
cyclosporin A  (ISO)
DAPT  (EXP,ISO)
deoxynivalenol  (ISO)
desloratadine  (EXP)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (EXP,ISO)
doxorubicin  (ISO)
enalapril  (ISO)
erianin  (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)
monocrotaline  (EXP)
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)
PF-3758309  (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)
salvianolic acid B  (ISO)
sevoflurane  (EXP)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (EXP,ISO)
sodium fluoride  (EXP)
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)
usnic acid  (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
activation of protein kinase activity  (ISO)
animal organ morphogenesis  (ISO)
antigen processing and presentation of exogenous peptide antigen via MHC class II  (ISO)
antiviral innate immune response  (ISO)
autophagosome assembly  (ISO)
bone remodeling  (ISO)
bone resorption  (ISO)
canonical NF-kappaB signal transduction  (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)
cellular response to oxygen-containing compound  (IEA)
cytokine-mediated signaling pathway  (IMP)
cytoplasmic pattern recognition receptor signaling pathway  (ISO)
DNA damage response  (IEA)
immune response  (ISO)
immune system process  (IEA)
in utero embryonic development  (ISO)
innate immune response  (IBA)
interleukin-1-mediated signaling pathway  (IEA,IMP,ISO)
interleukin-17-mediated signaling pathway  (ISO)
interleukin-17A-mediated signaling pathway  (ISO)
interleukin-33-mediated signaling pathway  (ISO)
intracellular signaling cassette  (IEA)
JNK cascade  (IMP)
lipopolysaccharide-mediated signaling pathway  (IBA,ISO)
myeloid dendritic cell differentiation  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
neural tube closure  (ISO)
non-canonical NF-kappaB signal transduction  (ISO)
obsolete positive regulation of NF-kappaB transcription factor activity  (ISO)
odontogenesis of dentin-containing tooth  (ISO)
ossification  (ISO)
osteoclast differentiation  (ISO)
positive regulation of canonical NF-kappaB signal transduction  (ISO,ISS)
positive regulation of interleukin-12 production  (ISO)
positive regulation of interleukin-2 production  (ISO)
positive regulation of interleukin-6 production  (ISO)
positive regulation of JNK cascade  (ISO)
positive regulation of leukocyte adhesion to vascular endothelial cell  (ISO)
positive regulation of lipopolysaccharide-mediated signaling pathway  (ISO)
positive regulation of osteoclast differentiation  (ISO)
positive regulation of smooth muscle cell proliferation  (IMP)
positive regulation of T cell cytokine production  (ISO)
positive regulation of T cell proliferation  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of type I interferon production  (ISO)
protein autoubiquitination  (ISO)
protein branched polyubiquitination  (ISO,ISS)
protein K63-linked ubiquitination  (ISO,ISS)
protein polyubiquitination  (ISO)
protein ubiquitination  (IEA,ISO)
regulation of apoptotic process  (IEA)
regulation of canonical NF-kappaB signal transduction  (IBA,IEA)
regulation of immunoglobulin production  (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  (IEA,ISO)
synapse assembly  (EXP,IDA,IMP)
T cell receptor signaling pathway  (ISO)
T-helper 1 type immune response  (ISO)
toll-like receptor 4 signaling pathway  (ISO)
tumor necrosis factor-mediated signaling pathway  (ISO)

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. Circulating MicroRNAs in Extracellular Vesicles as Potential Biomarkers of Alcohol-Induced Neuroinflammation in Adolescence: Gender Differences. Ibáñez F, etal., Int J Mol Sci. 2020 Sep 14;21(18):6730. doi: 10.3390/ijms21186730.
7. 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.
8. Pathogen recognition by the innate immune system. Kumar H, etal., Int Rev Immunol. 2011 Feb;30(1):16-34.
9. 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.
10. 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.
11. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
12. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
13. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. 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.
16. 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.
17. 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.
18. 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.
19. 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 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3108,418,513 - 108,443,328 (+)EnsemblGRCr8
mRatBN7.2387,963,517 - 87,988,316 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl387,963,514 - 87,983,507 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx391,457,599 - 91,477,545 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03100,056,626 - 100,076,572 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0397,885,654 - 97,905,485 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0391,252,829 - 91,271,607 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl391,252,829 - 91,271,607 (+)Ensemblrn6Rnor6.0
Rnor_5.0397,912,482 - 97,935,027 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4386,827,582 - 86,847,408 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera387,069,225 - 87,089,051 (+)NCBICelera
RGSC_v3.1386,728,165 - 86,742,912 (+)NCBI
Cytogenetic Map3q31NCBI
TRAF6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381136,483,769 - 36,510,272 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1136,483,769 - 36,510,292 (-)Ensemblhg38GRCh38
GRCh371136,505,319 - 36,531,822 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361136,467,302 - 36,488,398 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm382101,678,420 - 101,701,668 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2101,678,429 - 101,701,669 (+)Ensemblmm10GRCm38
MGSCv372101,518,597 - 101,541,133 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (+)Ensembl
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 (-)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1831,278,398 - 31,300,151 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01832,281,552 - 32,303,317 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (+)EnsemblSpeTri2.0 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 (+)EnsemblsusScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462476710,729,766 - 10,803,253 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Traf6
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1579,516,005 - 79,535,306 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Traf6
167 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300178Hrtrt4Heart rate QTL 43.74heart pumping trait (VT:2000009)heart rate (CMO:0000002)351490129111359995Rat
1358293Bw38Body weight QTL 3860.0000031body mass (VT:0001259)body weight (CMO:0000012)374364268119364268Rat
61377Edpm3Estrogen-dependent pituitary mass QTL 37.050.038pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)373592611110333156Rat
2301414Kidm37Kidney mass QTL 370.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)396509147141509147Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)373592512136118980Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)373592512136118980Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)351581665184004958Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)367641776167835660Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)358601291153936591Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)349872657138829559Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)373592512136118980Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)385062224136118980Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)385062224136118980Rat
7387306Bw124Body weight QTL 1243.20.0003body mass (VT:0001259)body weight (CMO:0000012)3104545086149545086Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)381425008141509147Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)370845569136091483Rat
1600376Arunc5Aerobic running capacity QTL 50.21exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)393829559138829559Rat
2302273Gluco35Glucose level QTL 355.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)3101255536134750886Rat
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)379649560177741895Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)396509147141509147Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)367641995130815812Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)370311536115311536Rat
631200Cm25Cardiac mass QTL 254.80.0001heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)381541464126563126Rat
12879848Bw181Body weght QTL 1810.015body mass (VT:0001259)body weight (CMO:0000012)390755164141509147Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)336721849110333156Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)342158111124558371Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31141509147Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)398651826167012663Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)342158111124558371Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35675975141509147Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)367641995130815812Rat

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

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000006148   ⟹   ENSRNOP00000006148
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3108,418,513 - 108,443,328 (+)Ensembl
mRatBN7.2 Ensembl387,963,514 - 87,983,507 (+)Ensembl
Rnor_6.0 Ensembl391,252,829 - 91,271,607 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000101806   ⟹   ENSRNOP00000086655
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3108,418,773 - 108,443,328 (+)Ensembl
mRatBN7.2 Ensembl387,970,969 - 87,983,507 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000136072   ⟹   ENSRNOP00000098865
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3108,418,747 - 108,443,328 (+)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
Protein Sequences
Protein RefSeqs NP_001101224 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960852 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960853 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI68921 (Get FASTA)   NCBI Sequence Viewer  
  B5DF45 (Get FASTA)   NCBI Sequence Viewer  
  EDL79625 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000006148
  ENSRNOP00000006148.4
RefSeq Acc Id: NP_001101224   ⟸   NM_001107754
- UniProtKB: B5DF45 (UniProtKB/Swiss-Prot),   A0A8I6A434 (UniProtKB/TrEMBL)
- Sequence:
Ensembl 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)
Ensembl Acc Id: ENSRNOP00000086655   ⟸   ENSRNOT00000101806
Ensembl Acc Id: ENSRNOP00000098865   ⟸   ENSRNOT00000136072
Protein Domains
MATH

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
Ensembl Transcript ENSRNOT00000006148 ENTREZGENE
  ENSRNOT00000006148.6 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.40.10 UniProtKB/Swiss-Prot
  Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2, Chain A UniProtKB/Swiss-Prot
InterPro MATH/TRAF_dom UniProtKB/Swiss-Prot
  TNF_rcpt--assoc_TRAF UniProtKB/Swiss-Prot
  TRAF-like UniProtKB/Swiss-Prot
  TRAF6 UniProtKB/Swiss-Prot
  TRAF6_MATH UniProtKB/Swiss-Prot
  TRAF6_Z2 UniProtKB/Swiss-Prot
  TRAF_MEP1_MATH_dom UniProtKB/Swiss-Prot
  Znf_C3HC4_RING-type UniProtKB/Swiss-Prot
  Znf_RING UniProtKB/Swiss-Prot
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot
  Znf_RING_CS UniProtKB/Swiss-Prot
  Znf_TRAF UniProtKB/Swiss-Prot
KEGG Report rno:311245 UniProtKB/Swiss-Prot
NCBI Gene 311245 ENTREZGENE
PANTHER PTHR10131 UniProtKB/Swiss-Prot
  TNF RECEPTOR-ASSOCIATED FACTOR 6 UniProtKB/Swiss-Prot
Pfam TRAF-mep_MATH UniProtKB/Swiss-Prot
  TRAF6_Z2 UniProtKB/Swiss-Prot
  zf-C3HC4 UniProtKB/Swiss-Prot
  zf-TRAF UniProtKB/Swiss-Prot
PhenoGen Traf6 PhenoGen
PIRSF TRAF UniProtKB/Swiss-Prot
PROSITE MATH UniProtKB/Swiss-Prot
  ZF_RING_1 UniProtKB/Swiss-Prot
  ZF_RING_2 UniProtKB/Swiss-Prot
  ZF_TRAF UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000004639 RatGTEx
SMART MATH UniProtKB/Swiss-Prot
  RING UniProtKB/Swiss-Prot
Superfamily-SCOP RING/U-box UniProtKB/Swiss-Prot
  TRAF domain-like UniProtKB/Swiss-Prot
UniProt A0A8I6A434 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0KWP9_RAT 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