Tnfaip3 (TNF alpha induced protein 3) - Rat Genome Database

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Gene: Tnfaip3 (TNF alpha induced protein 3) Rattus norvegicus
Analyze
Symbol: Tnfaip3
Name: TNF alpha induced protein 3
RGD ID: 1589275
Description: Predicted to enable several functions, including K63-linked polyubiquitin modification-dependent protein binding activity; deubiquitinase activity; and enzyme binding activity. Predicted to be involved in several processes, including negative regulation of macromolecule metabolic process; negative regulation of signal transduction; and protein modification by small protein conjugation or removal. Predicted to act upstream of or within several processes, including negative regulation of interleukin-1 beta production; positive regulation of cellular protein catabolic process; and protein K63-linked deubiquitination. Predicted to be active in cytoplasm and nucleus. Human ortholog(s) of this gene implicated in familial Behcet-like autoinflammatory syndrome. Orthologous to human TNFAIP3 (TNF alpha induced protein 3); PARTICIPATES IN nuclear factor kappa B signaling pathway; tumor necrosis factor mediated signaling pathway; INTERACTS WITH 1-naphthyl isothiocyanate; acrylamide; aflatoxin B1.
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOC683206; similar to Tumor necrosis factor, alpha-induced protein 3 (Putative DNA binding protein A20) (Zinc finger protein A20); tumor necrosis factor alpha-induced protein 3; tumor necrosis factor, alpha-induced protein 3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2113,709,211 - 13,724,291 (-)NCBI
Rnor_6.0 Ensembl114,402,913 - 14,412,807 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0114,401,103 - 14,416,369 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0115,952,235 - 15,963,951 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera112,159,804 - 12,174,919 (-)NCBICelera
Cytogenetic Map1p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(S)-amphetamine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1,4-phenylenediamine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,3-dimethoxynaphthalene-1,4-dione  (ISO)
2-butoxyethanol  (ISO)
2-hydroxypropanoic acid  (ISO)
2-nitrofluorene  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-nitroquinoline N-oxide  (ISO)
5-fluorouracil  (ISO)
7,12-dimethyltetraphene  (ISO)
8-Br-cAMP  (ISO)
acrolein  (ISO)
acrylamide  (EXP)
actinomycin D  (ISO)
adenosine  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (EXP,ISO)
alpha-pinene  (ISO)
amiodarone  (ISO)
amphetamine  (EXP)
antimony(0)  (ISO)
antimycin A  (ISO)
antirheumatic drug  (ISO)
aripiprazole  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
Berbamine  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
boron nitride  (ISO)
bortezomib  (ISO)
butan-1-ol  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
carmustine  (ISO)
cholate  (EXP)
choline  (ISO)
chromium atom  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
clonidine  (ISO)
clonidine (amino form)  (ISO)
clonidine (imino form)  (ISO)
cobalt atom  (ISO)
cobalt(2+) sulfate  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
crotonaldehyde  (ISO)
cycloheximide  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cylindrospermopsin  (ISO)
cytarabine  (ISO)
D-mannitol  (ISO)
decabromodiphenyl ether  (EXP)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dichloromethane  (ISO)
diclofenac  (ISO)
dieldrin  (ISO)
dioxygen  (ISO)
dipotassium bis[mu-tartrato(4-)]diantimonate(2-) trihydrate  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
eriodictyol  (ISO)
erythromycin estolate  (EXP)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
ethylbenzene  (ISO)
eugenol  (ISO)
fenthion  (ISO)
fluoranthene  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
gemcitabine  (ISO)
gliclazide  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
Heptachlor epoxide  (ISO)
homocysteine  (ISO)
hydrogen peroxide  (ISO)
ibrutinib  (ISO)
isobutanol  (ISO)
kaempferol  (ISO)
L-methionine  (ISO)
leflunomide  (ISO)
levofloxacin  (ISO)
lipopolysaccharide  (ISO)
luteolin  (ISO)
LY294002  (ISO)
maneb  (ISO)
melatonin  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
methapyrilene  (ISO)
methotrexate  (ISO)
methylisothiazolinone  (ISO)
methylmercury chloride  (ISO)
methylseleninic acid  (ISO)
mono(2-ethylhexyl) phthalate  (EXP)
N-acetyl-L-cysteine  (ISO)
nickel atom  (ISO)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
nifedipine  (ISO)
o-anisidine  (ISO)
o-xylene  (ISO)
ochratoxin A  (ISO)
ozone  (ISO)
p-menthan-3-ol  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paraquat  (ISO)
pemetrexed  (ISO)
pentanal  (ISO)
perfluorononanoic acid  (ISO)
phenethyl isothiocyanate  (ISO)
phenformin  (EXP)
phenobarbital  (ISO)
phenol  (ISO)
phenylephrine  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
piperonyl butoxide  (ISO)
pirinixic acid  (ISO)
potassium dichromate  (ISO)
progesterone  (ISO)
propanal  (ISO)
propiconazole  (ISO)
protein kinase inhibitor  (ISO)
quercetin  (ISO)
quinolin-8-ol  (ISO)
rac-lactic acid  (ISO)
raloxifene  (ISO)
resveratrol  (EXP,ISO)
rotenone  (EXP,ISO)
serpentine asbestos  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium dodecyl sulfate  (ISO)
succimer  (ISO)
sulforaphane  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
terbufos  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP)
titanium dioxide  (ISO)
tolbutamide  (ISO)
toluene  (ISO)
Tributyltin oxide  (ISO)
trichloroethene  (ISO)
triclosan  (ISO)
trimethyltin  (ISO)
troglitazone  (ISO)
trovafloxacin  (ISO)
Tungsten carbide  (ISO)
urethane  (ISO)
ursodeoxycholic acid  (ISO)
valproic acid  (ISO)
vanadyl sulfate  (ISO)
vincristine  (ISO)
withaferin A  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
B-1 B cell homeostasis  (ISO)
cell migration  (IBA)
cellular response to hydrogen peroxide  (ISO)
cellular response to lipopolysaccharide  (ISO)
cytoskeleton organization  (IBA)
establishment of protein localization to vacuole  (ISO)
negative regulation of B cell activation  (ISO)
negative regulation of CD40 signaling pathway  (ISO)
negative regulation of cell death  (ISO)
negative regulation of chronic inflammatory response  (ISO)
negative regulation of cyclin-dependent protein serine/threonine kinase activity  (ISO)
negative regulation of endothelial cell apoptotic process  (ISO)
negative regulation of extrinsic apoptotic signaling pathway via death domain receptors  (ISO)
negative regulation of I-kappaB kinase/NF-kappaB signaling  (ISO)
negative regulation of inflammatory response  (ISO)
negative regulation of innate immune response  (ISO)
negative regulation of interleukin-1 beta production  (ISO)
negative regulation of interleukin-2 production  (ISO)
negative regulation of interleukin-6 production  (ISO)
negative regulation of NF-kappaB transcription factor activity  (ISO)
negative regulation of nucleotide-binding oligomerization domain containing 1 signaling pathway  (ISO)
negative regulation of nucleotide-binding oligomerization domain containing 2 signaling pathway  (ISO)
negative regulation of protein ubiquitination  (ISO)
negative regulation of smooth muscle cell proliferation  (ISO)
negative regulation of toll-like receptor 3 signaling pathway  (ISO)
negative regulation of toll-like receptor 5 signaling pathway  (ISO)
negative regulation of tumor necrosis factor production  (ISO)
positive regulation of cellular protein catabolic process  (ISO)
positive regulation of hepatocyte proliferation  (ISO)
positive regulation of protein catabolic process  (ISO)
positive regulation of Wnt signaling pathway  (IBA)
protein deubiquitination  (ISO)
protein deubiquitination involved in ubiquitin-dependent protein catabolic process  (IBA)
protein K11-linked deubiquitination  (ISO)
protein K29-linked deubiquitination  (IBA)
protein K33-linked deubiquitination  (IBA)
protein K48-linked deubiquitination  (ISO)
protein K48-linked ubiquitination  (ISO)
protein K63-linked deubiquitination  (ISO)
regulation of germinal center formation  (ISO)
response to molecule of bacterial origin  (ISO)
response to muramyl dipeptide  (ISO)
tolerance induction to lipopolysaccharide  (ISO)

Cellular Component
cytoplasm  (IBA,ISO)
nucleus  (IBA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:8797804   PMID:10385526   PMID:11009421   PMID:11389905   PMID:11463333   PMID:12167698   PMID:12885753   PMID:14748687   PMID:15258597   PMID:15474016   PMID:15962316   PMID:16816117  
PMID:18006655   PMID:18223652   PMID:18342009   PMID:18952128   PMID:19285159   PMID:19912257   PMID:20392859   PMID:20430393   PMID:20458337   PMID:21088135   PMID:21127049   PMID:21220427  
PMID:21923101   PMID:23609450   PMID:23827681   PMID:24012418   PMID:25416956   PMID:25502805   PMID:26231971   PMID:26991692   PMID:28094437   PMID:30561431   PMID:31515488  


Genomics

Comparative Map Data
Tnfaip3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2113,709,211 - 13,724,291 (-)NCBI
Rnor_6.0 Ensembl114,402,913 - 14,412,807 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0114,401,103 - 14,416,369 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0115,952,235 - 15,963,951 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera112,159,804 - 12,174,919 (-)NCBICelera
Cytogenetic Map1p12NCBI
TNFAIP3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl6137,867,214 - 137,883,312 (+)EnsemblGRCh38hg38GRCh38
GRCh386137,866,317 - 137,883,312 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh376138,188,396 - 138,204,449 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366138,230,274 - 138,246,142 (+)NCBINCBI36hg18NCBI36
Build 346138,230,273 - 138,246,141NCBI
Celera6138,928,721 - 138,944,581 (+)NCBI
Cytogenetic Map6q23.3NCBI
HuRef6135,750,495 - 135,766,617 (+)NCBIHuRef
CHM1_16138,450,716 - 138,466,833 (+)NCBICHM1_1
Tnfaip3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391018,876,658 - 18,891,158 (-)NCBIGRCm39mm39
GRCm39 Ensembl1018,876,658 - 18,891,405 (-)Ensembl
GRCm381019,000,910 - 19,015,410 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1019,000,910 - 19,015,657 (-)EnsemblGRCm38mm10GRCm38
MGSCv371018,720,716 - 18,735,216 (-)NCBIGRCm37mm9NCBIm37
MGSCv361018,690,332 - 18,704,783 (-)NCBImm8
Celera1018,907,568 - 18,922,063 (-)NCBICelera
Cytogenetic Map10A3NCBI
cM Map108.08NCBI
Tnfaip3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543621,566,423 - 21,578,469 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543621,566,591 - 21,581,551 (-)NCBIChiLan1.0ChiLan1.0
TNFAIP3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.16139,705,255 - 139,721,264 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6139,705,255 - 139,720,819 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v06135,617,465 - 135,634,085 (+)NCBIMhudiblu_PPA_v0panPan3
TNFAIP3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1130,247,432 - 30,262,992 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl130,251,059 - 30,261,001 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha131,130,692 - 31,146,131 (+)NCBI
ROS_Cfam_1.0130,415,149 - 30,430,593 (+)NCBI
UMICH_Zoey_3.1130,293,899 - 30,309,336 (+)NCBI
UNSW_CanFamBas_1.0130,175,668 - 30,191,127 (+)NCBI
UU_Cfam_GSD_1.0130,484,573 - 30,499,998 (+)NCBI
Tnfaip3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946125,345,739 - 125,359,816 (+)NCBI
SpeTri2.0NW_0049365605,124,955 - 5,138,988 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNFAIP3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl126,473,938 - 26,489,822 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1126,474,158 - 26,489,771 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2129,825,892 - 29,841,634 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TNFAIP3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11335,537,103 - 35,553,396 (-)NCBI
ChlSab1.1 Ensembl1335,537,102 - 35,549,197 (-)Ensembl
Vero_WHO_p1.0NW_0236660407,722,304 - 7,738,445 (-)NCBI

Position Markers
D1Rat250  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2113,717,158 - 13,717,273 (+)MAPPER
Rnor_6.0114,409,169 - 14,409,285NCBIRnor6.0
Rnor_5.0115,960,301 - 15,960,417UniSTSRnor5.0
Celera112,167,753 - 12,167,867UniSTS
RH 3.4 Map1143.6UniSTS
RH 3.4 Map1143.6RGD
RH 2.0 Map157.6RGD
SHRSP x BN Map110.34RGD


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1124368159Rat
2298546Neuinf4Neuroinflammation QTL 45.1nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1128468970Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1134993530Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1134993530Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)1134993530Rat
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1164407321Rat
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)125439343579402Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)125439343579402Rat
1578669Bss9Bone structure and strength QTL 96.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)125439343579402Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)125439386904217Rat
1600360Mcs16Mammary carcinoma susceptibility QTL 162.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1186804543724576Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1457869349578693Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15655769122614963Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1565577285706974Rat
1300167Hrtrt2Heart rate QTL 24.35heart pumping trait (VT:2000009)heart rate (CMO:0000002)11131448975844121Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)11131448983657083Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11131448983657083Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11131448983657083Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11131448983657083Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)11131465834993348Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)11249343957493439Rat
2302038Pia31Pristane induced arthritis QTL 315.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)11362925158629251Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:75
Count of miRNA genes:72
Interacting mature miRNAs:75
Transcripts:ENSRNOT00000074583
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 8 19 2 11
Low 1 43 49 41 41 8 11 74 35 39 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_001060914 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003748656 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006222835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006222836 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017588908 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589828 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589829 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589831 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098825 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098827 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098833 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098843 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039098854 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005497282 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH473994 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000008 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000074583   ⟹   ENSRNOP00000065542
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl114,402,913 - 14,412,807 (-)Ensembl
RefSeq Acc Id: XM_039098825   ⟹   XP_038954753
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2113,709,211 - 13,722,918 (-)NCBI
RefSeq Acc Id: XM_039098827   ⟹   XP_038954755
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2113,709,211 - 13,724,290 (-)NCBI
RefSeq Acc Id: XM_039098833   ⟹   XP_038954761
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2113,709,211 - 13,723,500 (-)NCBI
RefSeq Acc Id: XM_039098843   ⟹   XP_038954771
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2113,709,211 - 13,724,290 (-)NCBI
RefSeq Acc Id: XM_039098854   ⟹   XP_038954782
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2113,712,896 - 13,724,291 (-)NCBI
RefSeq Acc Id: XR_005497282
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2113,709,211 - 13,722,918 (-)NCBI
Reference Sequences
RefSeq Acc Id: ENSRNOP00000065542   ⟸   ENSRNOT00000074583
RefSeq Acc Id: XP_038954755   ⟸   XM_039098827
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038954771   ⟸   XM_039098843
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038954761   ⟸   XM_039098833
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038954753   ⟸   XM_039098825
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038954782   ⟸   XM_039098854
- Peptide Label: isoform X3
Protein Domains
A20-type   OTU

Transcriptome

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

Promoters
RGD ID:13689519
Promoter ID:EPDNEW_R34
Type:single initiation site
Name:Tnfaip3_1
Description:TNF alpha induced protein 3
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_6.0114,412,891 - 14,412,951EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1589275 AgrOrtholog
Ensembl Genes ENSRNOG00000049517 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000065542 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074583 UniProtKB/TrEMBL
InterPro A20 UniProtKB/TrEMBL
  OTU UniProtKB/TrEMBL
  Znf_A20 UniProtKB/TrEMBL
NCBI Gene 683206 ENTREZGENE
PANTHER PTHR13367:SF3 UniProtKB/TrEMBL
Pfam OTU UniProtKB/TrEMBL
  zf-A20 UniProtKB/TrEMBL
PhenoGen Tnfaip3 PhenoGen
PROSITE OTU UniProtKB/TrEMBL
  ZF_A20 UniProtKB/TrEMBL
SMART ZnF_A20 UniProtKB/TrEMBL
UniProt M0R7V5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-02 Tnfaip3  TNF alpha induced protein 3  Tnfaip3  tumor necrosis factor, alpha-induced protein 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-08-13 Tnfaip3  tumor necrosis factor, alpha-induced protein 3  LOC683206  similar to Tumor necrosis factor, alpha-induced protein 3 (Putative DNA binding protein A20) (Zinc finger protein A20)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC683206  similar to Tumor necrosis factor, alpha-induced protein 3 (Putative DNA binding protein A20) (Zinc finger protein A20)      Symbol and Name status set to provisional 70820 PROVISIONAL