Mdm2 (MDM2 proto-oncogene) - Rat Genome Database

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Gene: Mdm2 (MDM2 proto-oncogene) Rattus norvegicus
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Symbol: Mdm2
Name: MDM2 proto-oncogene
RGD ID: 1305332
Description: Enables p53 binding activity; signaling receptor binding activity; and ubiquitin protein ligase activity. Involved in several processes, including cellular response to hormone stimulus; negative regulation of proteolysis; and response to alkaloid. Located in several cellular components, including cytosol; nucleus; and synapse. Used to study ichthyosis; post-traumatic stress disorder; and transient cerebral ischemia. Biomarker of breast cancer; intermittent claudication; liver disease; pancreatitis; and priapism. Human ortholog(s) of this gene implicated in chronic myeloid leukemia; glioblastoma; hepatocellular carcinoma; pancreatic ductal carcinoma; and sarcoma. Orthologous to human MDM2 (MDM2 proto-oncogene); PARTICIPATES IN altered p53 signaling pathway; p53 signaling pathway; cell cycle pathway, mitotic; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: double minute 2; E3 ubiquitin-protein ligase Mdm2; LOC314856; MDM2 oncogene, E3 ubiquitin protein ligase; Mdm2 p53 binding protein homolog; Mdm2 p53 binding protein homolog (mouse); MDM2 proto-oncogene, E3 ubiquitin protein ligase; p53 E3 ubiquitin protein ligase; transformed mouse 3T3 cell double minute 2; transformed mouse 3T3 cell double minute 2 homolog (mouse)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2753,290,660 - 53,315,205 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl753,290,664 - 53,314,915 (-)Ensembl
Rnor_6.0760,719,060 - 60,743,618 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl760,719,066 - 60,743,328 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0760,719,023 - 60,743,581 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4756,996,694 - 57,020,926 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1757,018,654 - 57,054,110 (-)NCBI
Celera750,062,029 - 50,086,121 (-)NCBICelera
Cytogenetic Map7q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(+)-schisandrin B  (EXP)
(-)-demecolcine  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(S)-nicotine  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (ISO)
1,10-phenanthroline  (ISO)
1,2-dimethylhydrazine  (ISO)
1-nitropyrene  (ISO)
10-Hydroxycamptothecin  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
1H-[1,2,4]oxadiazolo[4,3-a]quinoxalin-1-one  (ISO)
2,2',3,3',6,6'-hexachlorobiphenyl  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-tetrachlorobiphenyl  (ISO)
2,2',4,5-tetrachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,2-bis(hydroxymethyl)-1-azabicyclo[2.2.2]octan-3-one  (ISO)
2,3,3',4,4',5,5'-Heptachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-acetamidofluorene  (EXP,ISO)
2-nitrofluorene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,3'-diindolylmethane  (ISO)
3-phenylprop-2-enal  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (EXP)
4-hydroperoxycyclophosphamide  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-azacytidine  (ISO)
5-fluorouracil  (ISO)
7,12-dimethyltetraphene  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
adefovir pivoxil  (ISO)
aflatoxin B1  (EXP,ISO)
aflatoxin M1  (ISO)
alpha-naphthoflavone  (ISO)
alvocidib  (ISO)
amifostine  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
amphibole asbestos  (ISO)
amsacrine  (ISO)
androstane  (ISO)
antimycin A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (EXP,ISO)
aspartame  (ISO)
atorvastatin calcium  (ISO)
atrazine  (EXP)
avobenzone  (ISO)
azoxystrobin  (ISO)
benzene  (EXP,ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
beta-naphthoflavone  (EXP)
biphenyl-4-amine  (ISO)
bis(2-chloroethyl) sulfide  (EXP,ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
brassinolide  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
camptothecin  (ISO)
cannabidiol  (ISO)
cantharidin  (ISO)
capsaicin  (ISO)
Carbadox  (EXP)
carbamazepine  (ISO)
carbonyl cyanide p-trifluoromethoxyphenylhydrazone  (ISO)
chlorambucil  (ISO)
chloroacetaldehyde  (ISO)
chloroethene  (ISO)
chloroprene  (ISO)
chlorpromazine  (EXP)
chlorpyrifos  (ISO)
choline  (ISO)
chrysene  (ISO)
cidofovir anhydrous  (ISO)
cisplatin  (EXP,ISO)
clofibrate  (ISO)
cobalt atom  (ISO)
cobalt dichloride  (EXP,ISO)
copper atom  (ISO)
copper(0)  (ISO)
coumarin  (ISO)
crocidolite asbestos  (ISO)
cryptolepine  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
cylindrospermopsin  (ISO)
cyproconazole  (EXP)
DAPT  (ISO)
DDT  (ISO)
deguelin  (ISO)
deoxynivalenol  (ISO)
diallyl disulfide  (EXP)
diallyl trisulfide  (ISO)
diarsenic trioxide  (EXP,ISO)
diazinon  (EXP)
dibenz[a,h]anthracene  (ISO)
diclofenac  (EXP)
dieldrin  (EXP)
diepoxybutane  (ISO)
diethylstilbestrol  (EXP,ISO)
dimethylarsinic acid  (EXP,ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
ellipticine  (ISO)
endosulfan  (EXP)
epoxiconazole  (EXP)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
etoposide  (EXP,ISO)
EUK-134  (ISO)
fenbendazole  (EXP)
fenofibrate  (EXP)
fipronil  (EXP)
flavanones  (ISO)
flucytosine  (ISO)
fluoranthene  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (EXP,ISO)
formononetin  (EXP)
fumonisin B1  (ISO)
furan  (EXP)
furosemide  (EXP)
ganciclovir  (ISO)
geldanamycin  (ISO)
gemcitabine  (ISO)
genistein  (ISO)
gentamycin  (EXP)
glyphosate  (ISO)
GW 501516  (EXP)
hydrogen peroxide  (EXP,ISO)
hydroxyurea  (ISO)
ifosfamide  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
irinotecan  (ISO)
isoflurane  (EXP)
kojic acid  (EXP)
L-ascorbic acid  (EXP)
L-methionine  (ISO)
leflunomide  (ISO)
leptomycin B  (ISO)
Leucomalachite green  (EXP)
linalool  (ISO)
lipopolysaccharide  (ISO)
lupeol  (ISO)
luteolin  (EXP)
LY294002  (ISO)
mancozeb  (ISO)
manganese atom  (EXP)
manganese(0)  (EXP)
manganese(II) chloride  (EXP)
menadione  (ISO)
mercury dibromide  (ISO)
mercury dichloride  (ISO)
metformin  (EXP)
methapyrilene  (EXP)
methotrexate  (ISO)
methyl caffeate  (ISO)
methyl methanesulfonate  (ISO)
methylarsonic acid  (EXP,ISO)
methylmercury chloride  (ISO)
methylmercury(1+)  (EXP)
microcystin-LR  (EXP,ISO)
mifepristone  (ISO)
mitomycin C  (ISO)
mitoxantrone  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monocrotaline  (ISO)
monosodium L-glutamate  (ISO)
motexafin gadolinium  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-acetylsphingosine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-ethyl-N-nitrosourea  (EXP,ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-methyl-N-nitrosourea  (EXP)
N-nitrosodiethylamine  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
N-nitrosomorpholine  (EXP)
N-Vinyl-2-pyrrolidone  (EXP)
nefazodone  (EXP)
nickel atom  (ISO)
nickel dichloride  (EXP,ISO)
nicotinamide  (ISO)
nicotine  (ISO)
nimesulide  (EXP)
Nodularin  (ISO)
Nutlin-3  (ISO)
O-methyleugenol  (EXP)
ochratoxin A  (EXP,ISO)
ortho-Aminoazotoluene  (ISO)
ouabain  (ISO)
oxaliplatin  (EXP)
oxfendazole  (EXP)
p-chloromercuribenzoic acid  (ISO)
paclitaxel  (ISO)
paracetamol  (EXP,ISO)
Paraoxon-methyl  (ISO)
paraquat  (EXP,ISO)
parathion  (ISO)
parathion-methyl  (ISO)
PCB138  (ISO)
PD123319  (ISO)
pentachlorophenol  (ISO)
perfluorooctanoic acid  (EXP)
phenobarbital  (EXP,ISO)
phenylmercury acetate  (ISO)
phenytoin  (ISO)
PhIP  (ISO)
phlorizin  (ISO)
phosphoramide mustard  (EXP)
picoxystrobin  (ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP)
platycodin D  (ISO)
poly(vinylpyrrolidone)  (ISO)
potassium bromate  (ISO)
potassium dichromate  (EXP)
pravastatin  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
prochloraz  (EXP)
procymidone  (EXP)
promethazine  (EXP)
propanal  (ISO)
quercetin  (EXP,ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
rifampicin  (ISO)
rotenone  (ISO)
ruthenium atom  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
simvastatin  (ISO)
sirolimus  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sorafenib  (ISO)
staurosporine  (ISO)
succimer  (ISO)
sunitinib  (ISO)
T-2 toxin  (EXP,ISO)
tamoxifen  (ISO)
tanespimycin  (ISO)
tauroursodeoxycholic acid  (EXP)
tebufenpyrad  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
tetraphene  (ISO)
theaflavin  (ISO)
thioacetamide  (EXP)
thymoquinone  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP,ISO)
trichloroethene  (EXP,ISO)
trichostatin A  (ISO)
triphenyl phosphate  (EXP)
Triptolide  (ISO)
triptonide  (ISO)
trovafloxacin  (ISO)
urethane  (ISO)
ursodeoxycholic acid  (EXP,ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vincristine  (ISO)
vorinostat  (ISO)
wortmannin  (ISO)
zidovudine  (ISO)
zinc acetate  (ISO)
zinc atom  (ISO)
zinc pyrithione  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
amyloid fibril formation  (ISO)
apoptotic process  (ISO)
atrial septum development  (ISO)
atrioventricular valve morphogenesis  (ISO)
blood vessel development  (ISO)
blood vessel remodeling  (ISO)
cardiac septum morphogenesis  (ISO)
cellular response to actinomycin D  (ISO)
cellular response to alkaloid  (IEP)
cellular response to antibiotic  (IEP)
cellular response to estrogen stimulus  (IEP)
cellular response to gamma radiation  (ISO)
cellular response to growth factor stimulus  (IEP)
cellular response to hydrogen peroxide  (IEP)
cellular response to hypoxia  (ISO)
cellular response to organic cyclic compound  (IEP)
cellular response to organic substance  (IEP)
cellular response to peptide hormone stimulus  (IEP)
cellular response to UV-C  (IEP)
cellular response to vitamin B1  (IEP)
DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest  (ISO)
endocardial cushion morphogenesis  (ISO)
establishment of protein localization  (ISO)
heart development  (ISO)
heart valve development  (ISO)
negative regulation of apoptotic process  (IMP)
negative regulation of cysteine-type endopeptidase activity involved in apoptotic process  (IMP)
negative regulation of DNA damage response, signal transduction by p53 class mediator  (ISO)
negative regulation of gene expression  (IMP)
negative regulation of intrinsic apoptotic signaling pathway by p53 class mediator  (ISO)
negative regulation of neuron projection development  (IMP)
negative regulation of protein processing  (IMP)
negative regulation of signal transduction by p53 class mediator  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of transcription, DNA-templated  (IDA,ISO)
positive regulation of cell cycle  (ISO)
positive regulation of gene expression  (IMP)
positive regulation of mitotic cell cycle  (ISO)
positive regulation of muscle cell differentiation  (ISO)
positive regulation of proteasomal ubiquitin-dependent protein catabolic process  (ISO)
positive regulation of protein export from nucleus  (IMP)
positive regulation of vascular associated smooth muscle cell migration  (IMP)
positive regulation of vascular associated smooth muscle cell proliferation  (IMP)
protein autoubiquitination  (ISO)
protein destabilization  (ISO)
protein localization to nucleus  (ISO)
protein sumoylation  (IEA)
protein ubiquitination  (IDA,IMP,ISO)
protein-containing complex assembly  (ISO)
proteolysis involved in cellular protein catabolic process  (ISO)
regulation of cell cycle  (ISO)
regulation of gene expression  (ISO)
regulation of heart rate  (ISO)
regulation of protein catabolic process  (ISO)
regulation of transcription by RNA polymerase II  (IBA)
response to antibiotic  (ISO)
response to cocaine  (IEP)
response to ether  (IEP)
response to formaldehyde  (IEP)
response to iron ion  (IEP)
response to magnesium ion  (IEP)
response to morphine  (IEP)
response to steroid hormone  (IEP)
response to toxic substance  (IEP)
response to water-immersion restraint stress  (IDA)
response to xenobiotic stimulus  (IEP)
traversing start control point of mitotic cell cycle  (ISO)
ubiquitin-dependent protein catabolic process  (ISO)
ventricular septum development  (ISO)

Cellular Component

References

References - curated
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57. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
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59. RGD automated import pipeline for gene-chemical interactions
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Additional References at PubMed
PMID:8058315   PMID:8417333   PMID:9153395   PMID:9271120   PMID:9450543   PMID:9529249   PMID:10360174   PMID:10608892   PMID:10707090   PMID:10722742   PMID:10906133   PMID:11278372  
PMID:11718560   PMID:11983168   PMID:12145204   PMID:12154087   PMID:12630860   PMID:12915590   PMID:12927808   PMID:14767071   PMID:15053879   PMID:15195100   PMID:15199126   PMID:15314173  
PMID:15456867   PMID:15485902   PMID:15577914   PMID:15678128   PMID:15878855   PMID:16129783   PMID:16173922   PMID:16213212   PMID:16339144   PMID:16479015   PMID:16737965   PMID:16914427  
PMID:17142452   PMID:17159902   PMID:17237821   PMID:17290220   PMID:17310983   PMID:17591690   PMID:17936559   PMID:18382127   PMID:18560357   PMID:18566590   PMID:18614532   PMID:18784257  
PMID:19090619   PMID:19656744   PMID:20153724   PMID:20173098   PMID:20810912   PMID:20818388   PMID:21281824   PMID:21726810   PMID:21900752   PMID:22046440   PMID:22173032   PMID:22405968  
PMID:22493164   PMID:22821713   PMID:22835827   PMID:22869143   PMID:24003224   PMID:24120868   PMID:24506068   PMID:25058273   PMID:25063292   PMID:25417702   PMID:25720496   PMID:25912675  
PMID:28100501   PMID:28596723   PMID:28798142   PMID:29295817   PMID:29344658   PMID:30001240   PMID:30360646   PMID:30998966   PMID:31973811  


Genomics

Comparative Map Data
Mdm2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2753,290,660 - 53,315,205 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl753,290,664 - 53,314,915 (-)Ensembl
Rnor_6.0760,719,060 - 60,743,618 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl760,719,066 - 60,743,328 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0760,719,023 - 60,743,581 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4756,996,694 - 57,020,926 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1757,018,654 - 57,054,110 (-)NCBI
Celera750,062,029 - 50,086,121 (-)NCBICelera
Cytogenetic Map7q22NCBI
MDM2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1268,808,177 - 68,845,544 (+)EnsemblGRCh38hg38GRCh38
GRCh381268,808,149 - 68,850,686 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371269,201,952 - 69,244,466 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361267,488,247 - 67,520,481 (+)NCBINCBI36hg18NCBI36
Build 341267,488,246 - 67,520,481NCBI
Celera1268,865,796 - 68,903,026 (+)NCBI
Cytogenetic Map12q15NCBI
HuRef1266,252,410 - 66,289,884 (+)NCBIHuRef
CHM1_11269,170,604 - 69,207,918 (+)NCBICHM1_1
Mdm2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910117,524,780 - 117,546,663 (-)NCBIGRCm39mm39
GRCm39 Ensembl10117,524,780 - 117,546,663 (-)Ensembl
GRCm3810117,688,875 - 117,710,758 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10117,688,875 - 117,710,758 (-)EnsemblGRCm38mm10GRCm38
MGSCv3710117,125,961 - 117,147,772 (-)NCBIGRCm37mm9NCBIm37
MGSCv3610117,091,898 - 117,113,709 (-)NCBImm8
Celera10119,626,758 - 119,648,336 (-)NCBICelera
Cytogenetic Map10D2NCBI
cM Map1066.32NCBI
Mdm2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545815,263,739 - 15,286,808 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545815,264,028 - 15,287,290 (+)NCBIChiLan1.0ChiLan1.0
MDM2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11269,102,083 - 69,133,278 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1269,102,084 - 69,133,278 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01266,322,340 - 66,357,010 (+)NCBIMhudiblu_PPA_v0panPan3
MDM2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11010,936,288 - 10,963,118 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1010,893,719 - 10,962,596 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1010,869,091 - 10,894,634 (+)NCBI
ROS_Cfam_1.01011,060,051 - 11,086,867 (+)NCBI
UMICH_Zoey_3.11010,928,429 - 10,953,972 (+)NCBI
UNSW_CanFamBas_1.01011,174,449 - 11,199,967 (+)NCBI
UU_Cfam_GSD_1.01011,296,600 - 11,322,142 (+)NCBI
Mdm2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494547,377,991 - 47,400,191 (-)NCBI
SpeTri2.0NW_0049365456,709,903 - 6,732,334 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MDM2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl533,086,994 - 33,178,089 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1533,105,717 - 33,137,602 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2535,889,682 - 35,921,569 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MDM2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11164,434,203 - 64,465,490 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1164,434,261 - 64,469,890 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666037181,237,754 - 181,268,657 (-)NCBIVero_WHO_p1.0


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)7986646760460686Rat
738033Anxrr6Anxiety related response QTL 64.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)71557388960573889Rat
2317059Aia15Adjuvant induced arthritis QTL 152.46joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)71700459862004598Rat
10755451Coatc11Coat color QTL 110coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)71794435762944357Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)71965431784928080Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72192119566921195Rat
1641885Alcrsp9Alcohol response QTL 9alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)72409960669099606Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72475184169751841Rat
70190Mcs6Mammary carcinoma susceptibility QTL 62.29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)72673740163902784Rat
1300138Hrtrt9Heart rate QTL 94.72heart pumping trait (VT:2000009)heart rate (CMO:0000002)72940968353612950Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)72940968374409683Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72940968384928080Rat
10755453Coatc12Coat color QTL 120coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)73111283276112832Rat
7411605Foco14Food consumption QTL 1424.10.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)73429328279293282Rat
631534Lnnr1Liver neoplastic nodule remodeling QTL 13.850.001liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)73429328279293282Rat
631513Scl7Serum cholesterol level QTL 74.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)73796056982960569Rat
2303629Vencon3Ventilatory control QTL 37.25respiration trait (VT:0001943)respiration rate (CMO:0000289)74110969256793354Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
634326Hc3Hypercalciuria QTL 32.1urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)74278731487787314Rat
10053722Scort27Serum corticosterone level QTL 272.410.0083blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)74322875088228750Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)743747012108555253Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)743747099102228765Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)74486753389867533Rat
738030Anxrr8Anxiety related response QTL 84.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)74659007091590070Rat
10059605Kidm47Kidney mass QTL 472.910.05kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)74725178365728867Rat
2293696Bmd32Bone mineral density QTL 325.10.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)74765143992651439Rat
2293707Bss32Bone structure and strength QTL 327.640.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)74765143992651439Rat
2300178Bmd54Bone mineral density QTL 545.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)74765143992651439Rat
2293644Bmd29Bone mineral density QTL 295.40.0001femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)74765143992651439Rat
2293667Bss42Bone structure and strength QTL 427.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)74765143992651439Rat
2293678Bss24Bone structure and strength QTL 246.710.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)74765143992651439Rat
2293685Bmd21Bone mineral density QTL 214.20.0003femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)74765143992651439Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:759
Count of miRNA genes:296
Interacting mature miRNAs:376
Transcripts:ENSRNOT00000066767
Prediction methods:Microtar, Miranda
Result types:miRGate_prediction

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

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


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 51 35 19 35 8 11 74 35 41 11 8
Low 6 6 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000066767   ⟹   ENSRNOP00000063449
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl753,290,666 - 53,314,915 (-)Ensembl
Rnor_6.0 Ensembl760,719,066 - 60,743,328 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086116   ⟹   ENSRNOP00000069425
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl753,290,664 - 53,314,909 (-)Ensembl
Rnor_6.0 Ensembl760,719,631 - 60,742,660 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000096862   ⟹   ENSRNOP00000079885
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl753,290,664 - 53,309,889 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000102407   ⟹   ENSRNOP00000092330
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl753,290,666 - 53,314,909 (-)Ensembl
RefSeq Acc Id: NM_001108099   ⟹   NP_001101569
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2753,290,666 - 53,314,915 (-)NCBI
Rnor_6.0760,719,066 - 60,743,328 (-)NCBI
Rnor_5.0760,719,023 - 60,743,581 (-)NCBI
RGSC_v3.4756,996,694 - 57,020,926 (-)RGD
Celera750,062,029 - 50,086,121 (-)RGD
Sequence:
RefSeq Acc Id: XM_006241382   ⟹   XP_006241444
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2753,290,660 - 53,315,205 (-)NCBI
Rnor_6.0760,719,060 - 60,743,618 (-)NCBI
Rnor_5.0760,719,023 - 60,743,581 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241383   ⟹   XP_006241445
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2753,290,660 - 53,314,609 (-)NCBI
Rnor_6.0760,719,060 - 60,743,026 (-)NCBI
Rnor_5.0760,719,023 - 60,743,581 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039079126   ⟹   XP_038935054
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2753,290,660 - 53,314,737 (-)NCBI
RefSeq Acc Id: XM_039079127   ⟹   XP_038935055
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2753,290,660 - 53,315,205 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001101569   ⟸   NM_001108099
- UniProtKB: D3ZVH5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241444   ⟸   XM_006241382
- Peptide Label: isoform X2
- UniProtKB: A0A0G2JVC1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006241445   ⟸   XM_006241383
- Peptide Label: isoform X2
- UniProtKB: A0A0G2JVC1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000063449   ⟸   ENSRNOT00000066767
RefSeq Acc Id: ENSRNOP00000069425   ⟸   ENSRNOT00000086116
RefSeq Acc Id: XP_038935055   ⟸   XM_039079127
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038935054   ⟸   XM_039079126
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000092330   ⟸   ENSRNOT00000102407
RefSeq Acc Id: ENSRNOP00000079885   ⟸   ENSRNOT00000096862
Protein Domains
RanBP2-type   RING-type   SWIB/MDM2

Transcriptome

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

Promoters
RGD ID:13695222
Promoter ID:EPDNEW_R5740
Type:single initiation site
Name:Mdm2_1
Description:MDM2 proto-oncogene
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R5741  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0760,742,660 - 60,742,720EPDNEW
RGD ID:13695216
Promoter ID:EPDNEW_R5741
Type:initiation region
Name:Mdm2_2
Description:MDM2 proto-oncogene
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R5740  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0760,743,296 - 60,743,356EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
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
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
Visual CSV TAB Printer
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
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
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
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/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
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
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
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
Visual CSV TAB Printer
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
Visual CSV TAB Printer
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
Visual CSV TAB Printer
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
Visual CSV TAB Printer
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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
7 60720773 60720774 C T snv SBN/Ygl (MCW), WN/N (2020), SBN/Ygl (RGD), WN/N (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305332 AgrOrtholog
Ensembl Genes ENSRNOG00000006304 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000063449 UniProtKB/TrEMBL
  ENSRNOP00000069425 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000066767 UniProtKB/TrEMBL
  ENSRNOT00000086116 UniProtKB/TrEMBL
Gene3D-CATH 1.10.245.10 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
InterPro Mdm2 UniProtKB/TrEMBL
  MDM2_E3_ligase UniProtKB/TrEMBL
  MDM2_mRING-HC-C2H2C4 UniProtKB/TrEMBL
  p53_neg-reg_MDM_2/4 UniProtKB/TrEMBL
  SWIB_MDM2_dom_sf UniProtKB/TrEMBL
  SWIB_MDM2_domain UniProtKB/TrEMBL
  Znf_RanBP2 UniProtKB/TrEMBL
  Znf_RanBP2_sf UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
KEGG Report rno:314856 UniProtKB/TrEMBL
NCBI Gene 314856 ENTREZGENE
PANTHER PTHR13844:SF15 UniProtKB/TrEMBL
Pfam SWIB UniProtKB/TrEMBL
  zf-RanBP UniProtKB/TrEMBL
PhenoGen Mdm2 PhenoGen
PIRSF MDM2 UniProtKB/TrEMBL
  p53_MDM_2/4 UniProtKB/TrEMBL
PROSITE SWIB_MDM2 UniProtKB/TrEMBL
  ZF_RANBP2_1 UniProtKB/TrEMBL
  ZF_RANBP2_2 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
Superfamily-SCOP MDM2 UniProtKB/TrEMBL
  SSF90209 UniProtKB/TrEMBL
UniProt A0A0G2JVC1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZVH5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-22 Mdm2  MDM2 proto-oncogene  Mdm2  MDM2 proto-oncogene, E3 ubiquitin protein ligase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-07-10 Mdm2  MDM2 proto-oncogene, E3 ubiquitin protein ligase  Mdm2  MDM2 oncogene, E3 ubiquitin protein ligase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-11-22 Mdm2  MDM2 oncogene, E3 ubiquitin protein ligase  Mdm2  p53 E3 ubiquitin protein ligase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-09 Mdm2  p53 E3 ubiquitin protein ligase  Mdm2  p53 E3 ubiquitin protein ligase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-05 Mdm2  p53 E3 ubiquitin protein ligase  Mdm2  Mdm2 p53 binding protein homolog (mouse)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-10-24 Mdm2  Mdm2 p53 binding protein homolog (mouse)  Mdm2  transformed mouse 3T3 cell double minute 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-17 Mdm2  transformed mouse 3T3 cell double minute 2  Mdm2_predicted  transformed mouse 3T3 cell double minute 2 homolog (mouse) (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Mdm2_predicted  transformed mouse 3T3 cell double minute 2 homolog (mouse) (predicted)    transformed mouse 3T3 cell double minute 2 (predicted)  Name updated 1299863 APPROVED
2005-01-12 Mdm2_predicted  transformed mouse 3T3 cell double minute 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED