Dnmt1 (DNA methyltransferase 1) - Rat Genome Database

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Gene: Dnmt1 (DNA methyltransferase 1) Rattus norvegicus
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Symbol: Dnmt1
Name: DNA methyltransferase 1
RGD ID: 620979
Description: Enables several functions, including DNA (cytosine-5-)-methyltransferase activity; estrogen receptor binding activity; and histone deacetylase binding activity. Involved in several processes, including DNA metabolic process; cellular response to growth factor stimulus; and nervous system development. Located in cytoplasm; neuronal cell body; and nucleus. Part of protein-containing complex. Used to study choline deficiency disease and lung carcinoma. Biomarker of choline deficiency disease; congenital heart disease; congestive heart failure; liver disease (multiple); and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in Graves' disease; autosomal dominant cerebellar ataxia, deafness and narcolepsy; hereditary sensory neuropathy; hereditary sensory neuropathy type 1E; and lung non-small cell carcinoma. Orthologous to human DNMT1 (DNA methyltransferase 1); PARTICIPATES IN DNA modification pathway; glycine N-methyltransferase deficiency pathway; homocystinuria pathway; INTERACTS WITH (S)-nicotine; 1,2-dimethylhydrazine; 1-[3-(dimethylamino)propyl]-1-(4-fluorophenyl)-1,3-dihydro-2-benzofuran-5-carbonitrile.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: DNA (cytosine-5)-methyltransferase 1; DNA (cytosine-5-)-methyltransferase 1; DNA methyltransferase (cytosine-5) 1; DNA methyltransferase I; DNA MTase RnoIP; m.RnoIP; MCMT
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Dnmt1tm1(Myh6-cre)Cqin  
Genetic Models: SD-Dnmt1tm1(Myh6-cre)Cqin
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2819,440,611 - 19,486,659 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl819,440,611 - 19,486,659 (-)Ensembl
Rnor_6.0821,922,515 - 21,968,495 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl821,922,515 - 21,968,495 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0821,978,830 - 22,024,656 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4819,926,995 - 19,973,256 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1819,927,666 - 19,973,220 (-)NCBI
Celera820,835,612 - 20,881,380 (-)NCBICelera
Cytogenetic Map8q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acute myeloid leukemia  (ISO)
adenocarcinoma  (ISO)
Alcoholic Fatty Liver  (ISO)
alopecia areata  (ISO)
anxiety disorder  (ISO)
asthma  (ISO)
Ataxia  (ISO)
autoimmune disease  (ISO)
autosomal dominant cerebellar ataxia, deafness and narcolepsy  (ISO)
Beckwith-Wiedemann syndrome  (ISO)
Binge Drinking  (ISO)
Brain Injuries  (IEP)
Breast Neoplasms  (ISO)
bronchiolo-alveolar adenocarcinoma  (ISO)
Carcinogenesis  (IDA)
carcinoma  (ISO)
cardiomyopathy  (ISO)
cerebellar ataxia  (ISO)
Charcot-Marie-Tooth disease  (ISO)
choline deficiency disease  (IDA,IEP)
chronic myeloid leukemia  (ISO)
clear cell renal cell carcinoma  (ISO)
Colonic Neoplasms  (IDA,ISO)
Colorectal Neoplasms  (IEP)
congenital heart disease  (IEP)
congestive heart failure  (IEP)
dementia  (ISO)
Endometrial Neoplasms  (ISO)
Endometrioid Carcinomas  (ISO)
endometriosis  (ISO)
endometriosis of uterus  (ISO)
Experimental Arthritis  (ISO)
Fetal Growth Retardation  (IEP)
Graves' disease  (ISO)
Hearing Loss  (ISO)
hepatocellular carcinoma  (IEP)
hereditary sensory neuropathy  (ISO)
hereditary sensory neuropathy type 1E  (ISO)
Hyperalgesia  (IMP)
hypertrophic cardiomyopathy  (ISO)
liver cirrhosis  (IEP)
lung cancer  (ISO)
lung carcinoma  (IDA)
lung non-small cell carcinoma  (ISO)
medulloblastoma  (ISO)
meningioma  (ISO)
middle cerebral artery infarction  (ISO)
mucoepidermoid carcinoma  (ISO)
Neoplasm Invasiveness  (ISO)
Oral Lichen Planus  (ISO)
Ovarian Neoplasms  (ISO)
pancreatic ductal carcinoma  (ISO)
Pancreatic Intraepithelial Neoplasia  (ISO)
Peritoneal Fibrosis  (IEP)
Pituitary Stalk Interruption Syndrome  (ISO)
prostate adenocarcinoma  (ISO)
prostate cancer  (ISO)
prostate carcinoma in situ  (ISO)
Prostatic Neoplasms  (ISO)
rheumatoid arthritis  (ISO)
schizophrenia  (ISO)
sleep disorder  (ISO)
Stomach Neoplasms  (ISO)
systemic lupus erythematosus  (ISO)
type 2 diabetes mellitus  (IEP)
urinary bladder cancer  (ISO)
Uterine Cervical Neoplasms  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(S)-nicotine  (EXP)
1,2-dimethylhydrazine  (EXP,ISO)
1-[3-(dimethylamino)propyl]-1-(4-fluorophenyl)-1,3-dihydro-2-benzofuran-5-carbonitrile  (EXP)
1-chloro-2,4-dinitrobenzene  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dinitrotoluene  (EXP)
3,3'-diindolylmethane  (ISO)
3,5-diethoxycarbonyl-1,4-dihydrocollidine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-\{[4-(dimethylamino)phenyl]diazenyl\}phenyl-beta-lactoside  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-(hydroxymethyl)cytosine  (ISO)
5-aza-2'-deoxycytidine  (EXP,ISO)
5-azacytidine  (EXP,ISO)
6-prenylnaringenin  (ISO)
7,12-dimethyltetraphene  (EXP,ISO)
8-hydroxy-2'-deoxyguanosine  (ISO)
acetamide  (EXP)
acetic acid  (ISO)
acrylamide  (ISO)
aflatoxin B1  (EXP)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
allethrin  (EXP)
amitriptyline  (EXP)
amphetamine  (EXP)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
arsane  (EXP,ISO)
arsenic atom  (EXP,ISO)
arsenous acid  (EXP,ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
benzophenanthridine  (ISO)
berberine  (ISO)
beta-naphthoflavone  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (ISO)
Brodifacoum  (ISO)
buta-1,3-diene  (ISO)
butyric acid  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (ISO)
caffeine  (EXP)
calciol  (ISO)
calcitriol  (ISO)
cantharidin  (ISO)
carbon nanotube  (ISO)
casticin  (ISO)
choline  (ISO)
chromium atom  (ISO)
cisplatin  (EXP,ISO)
citalopram  (EXP)
cladribine  (ISO)
clofibrate  (EXP)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
curcumin  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cyhalothrin  (EXP)
cypermethrin  (EXP)
D-glucose  (ISO)
daidzein  (EXP)
daidzein 7-O-beta-D-glucoside  (EXP)
DDE  (EXP)
DDT  (EXP)
deoxynivalenol  (EXP,ISO)
desferrioxamine B  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (EXP,ISO)
dibutyl phthalate  (ISO)
dicrotophos  (ISO)
diethylstilbestrol  (ISO)
Difenacoum  (ISO)
dihydro-beta-erythroidine  (EXP)
dimethyl sulfate  (ISO)
dimethyl sulfoxide  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
doxorubicin  (EXP,ISO)
elemental selenium  (EXP)
endosulfan  (ISO)
Enterolactone  (ISO)
entinostat  (EXP)
enzyme inhibitor  (ISO)
ethanol  (ISO)
etoposide  (EXP,ISO)
fenvalerate  (EXP)
fisetin  (ISO)
Flocoumafen  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
fumonisin B1  (ISO)
gemcitabine  (ISO)
genistein  (EXP,ISO)
genistein 7-O-beta-D-glucoside  (EXP)
glucaric acid  (ISO)
glucose  (ISO)
glycine betaine  (ISO)
glycitein  (EXP)
glycitin  (EXP)
glyphosate  (ISO)
guggulsterone  (ISO)
hexadecanoic acid  (ISO)
hexane  (EXP)
homocysteine  (ISO)
hydrogen peroxide  (EXP,ISO)
hydroquinone  (ISO)
hydroxyurea  (ISO)
hypochlorous acid  (ISO)
ionomycin  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
lead diacetate  (EXP,ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
leptomycin B  (ISO)
linsidomine  (EXP)
magnesium atom  (ISO)
methamphetamine  (EXP)
methyl methanesulfonate  (ISO)
methylarsonic acid  (EXP)
methylmercury chloride  (EXP)
mitomycin C  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
myricetin  (ISO)
N-acetyl-L-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-ethyl-N-nitrosourea  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
nickel atom  (ISO)
nicotinamide  (ISO)
nicotine  (EXP)
okadaic acid  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
pelargonidin  (ISO)
pentachlorophenol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (EXP,ISO)
PhIP  (EXP,ISO)
phorbol 13-acetate 12-myristate  (ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP,ISO)
piroxicam  (ISO)
procyanidin B2  (ISO)
pterostilbene  (ISO)
Pyridostigmine bromide  (ISO)
quercetin  (ISO)
quinoline  (ISO)
resveratrol  (EXP,ISO)
rosmarinic acid  (ISO)
S-adenosyl-L-homocysteine  (ISO)
S-adenosyl-L-methioninate  (ISO)
S-adenosyl-L-methionine  (ISO)
selenium atom  (EXP)
silicon dioxide  (ISO)
sinefungin  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
Soman  (EXP)
streptozocin  (ISO)
sulforaphane  (ISO)
T-2 toxin  (EXP)
tamoxifen  (ISO)
temozolomide  (ISO)
testosterone  (EXP,ISO)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
topotecan  (EXP)
Tributyltin oxide  (ISO)
trichloroethene  (ISO)
triclosan  (ISO)
trimellitic anhydride  (ISO)
trimethylarsine oxide  (EXP)
triptonide  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
uranium atom  (EXP)
valproic acid  (EXP)
vancomycin  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
withaferin A  (ISO)
zearalenone  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (IEP)
brain development  (IEP)
C-5 methylation of cytosine  (IEA)
cellular response to amino acid stimulus  (IEA,ISO)
cellular response to lead ion  (IEP)
cellular response to nerve growth factor stimulus  (IEP)
cellular response to platelet-derived growth factor stimulus  (IEP)
cellular response to transforming growth factor beta stimulus  (IMP)
chromatin organization  (IEA)
DNA hypermethylation  (IMP)
DNA methylation  (ISO)
DNA methylation involved in embryo development  (IEA,ISO)
DNA methylation on cytosine  (IDA,ISO)
DNA methylation on cytosine within a CG sequence  (IDA)
gene silencing  (IEA,ISO)
maintenance of DNA methylation  (IDA,IEA,ISO)
negative regulation of gene expression  (ISO)
negative regulation of histone H3-K9 methylation  (IEA,ISO)
negative regulation of transcription by RNA polymerase II  (IEA,ISO)
negative regulation of transcription, DNA-templated  (ISO)
negative regulation of vascular associated smooth muscle cell apoptotic process  (IEA,ISO)
negative regulation of vascular associated smooth muscle cell differentiation involved in phenotypic switching  (IEA,ISO)
neuron differentiation  (IEP)
positive regulation of DNA methylation-dependent heterochromatin assembly  (IEA,ISO,ISS)
positive regulation of gene expression  (IEA,ISO)
positive regulation of histone H3-K4 methylation  (IEA,ISO)
positive regulation of vascular associated smooth muscle cell proliferation  (IEA,ISO)
Ras protein signal transduction  (IEA,ISO,ISS)
regulation of cell population proliferation  (ISO)
regulation of gene expression  (ISO)
response to activity  (IEP)
response to caffeine  (IEP)
response to estradiol  (IEP)
response to ethanol  (IEP)
response to heat  (IEP)
response to ionizing radiation  (IEP)
response to lead ion  (IEP)
response to lipopolysaccharide  (IEP)
response to nutrient levels  (IEP)
response to organic substance  (IEP)
response to testosterone  (IEP)
response to toxic substance  (IEP)
response to vitamin A  (IEP)
response to xenobiotic stimulus  (IDA,IEP,IMP)
S-adenosylmethionine metabolic process  (IDA)

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
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Additional References at PubMed
PMID:1606615   PMID:8702988   PMID:8889548   PMID:9722504   PMID:10615135   PMID:10888872   PMID:10919675   PMID:11399088   PMID:11942627   PMID:14519686   PMID:15063176   PMID:15326124  
PMID:16424344   PMID:16491076   PMID:16791210   PMID:16887828   PMID:17245608   PMID:17254711   PMID:17576694   PMID:17931718   PMID:18413740   PMID:18754681   PMID:20548288   PMID:20573698  
PMID:21745816   PMID:22295098   PMID:22784989   PMID:22841775   PMID:23028046   PMID:24105743   PMID:24276224   PMID:24527678   PMID:24623306   PMID:25194984   PMID:25449846   PMID:25532521  
PMID:26093272   PMID:27021683   PMID:27697222   PMID:29117290   PMID:29155363   PMID:29555308   PMID:30229399   PMID:32008164   PMID:32313015   PMID:32800775   PMID:33284093  


Genomics

Comparative Map Data
Dnmt1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2819,440,611 - 19,486,659 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl819,440,611 - 19,486,659 (-)Ensembl
Rnor_6.0821,922,515 - 21,968,495 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl821,922,515 - 21,968,495 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0821,978,830 - 22,024,656 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4819,926,995 - 19,973,256 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1819,927,666 - 19,973,220 (-)NCBI
Celera820,835,612 - 20,881,380 (-)NCBICelera
Cytogenetic Map8q13NCBI
DNMT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1910,133,342 - 10,231,286 (-)EnsemblGRCh38hg38GRCh38
GRCh381910,133,346 - 10,194,953 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371910,244,022 - 10,305,629 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361910,105,022 - 10,166,811 (-)NCBINCBI36hg18NCBI36
Build 341910,105,022 - 10,166,811NCBI
Celera1910,139,454 - 10,201,147 (-)NCBI
Cytogenetic Map19p13.2NCBI
HuRef199,824,670 - 9,886,268 (-)NCBIHuRef
CHM1_11910,244,307 - 10,306,021 (-)NCBICHM1_1
Dnmt1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39920,818,501 - 20,871,184 (-)NCBIGRCm39mm39
GRCm39 Ensembl920,818,505 - 20,871,184 (-)Ensembl
GRCm38920,907,206 - 20,959,888 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl920,907,209 - 20,959,888 (-)EnsemblGRCm38mm10GRCm38
MGSCv37920,711,653 - 20,757,317 (-)NCBIGRCm37mm9NCBIm37
MGSCv36920,657,611 - 20,703,267 (-)NCBImm8
Celera918,175,907 - 18,221,569 (-)NCBICelera
Cytogenetic Map9A3NCBI
cM Map97.66NCBI
Dnmt1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554951,465,480 - 1,505,462 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554951,465,529 - 1,505,379 (-)NCBIChiLan1.0ChiLan1.0
DNMT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11910,342,478 - 10,390,397 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1910,342,478 - 10,406,972 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0199,681,847 - 9,745,334 (-)NCBIMhudiblu_PPA_v0panPan3
DNMT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12050,872,213 - 50,928,352 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2050,879,527 - 50,928,029 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2050,741,748 - 50,797,884 (+)NCBI
ROS_Cfam_1.02051,393,895 - 51,450,128 (+)NCBI
UMICH_Zoey_3.12050,599,735 - 50,657,798 (+)NCBI
UNSW_CanFamBas_1.02051,028,945 - 51,085,072 (+)NCBI
UU_Cfam_GSD_1.02051,269,676 - 51,325,956 (+)NCBI
Dnmt1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118209,789,213 - 209,834,531 (+)NCBI
SpeTri2.0NW_004936659520,181 - 565,496 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DNMT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl268,981,564 - 69,029,919 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1268,981,564 - 69,040,364 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2269,309,511 - 69,357,838 (-)NCBISscrofa10.2Sscrofa10.2susScr3
DNMT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.169,199,006 - 9,263,890 (-)NCBI
ChlSab1.1 Ensembl69,199,003 - 9,263,607 (-)Ensembl
Vero_WHO_p1.0NW_02366607410,795,260 - 10,857,063 (+)NCBI
Dnmt1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248282,316,042 - 2,358,866 (-)NCBI

Position Markers
RH128464  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2819,441,331 - 19,441,531 (+)MAPPERmRatBN7.2
Rnor_6.0821,923,236 - 21,923,435NCBIRnor6.0
Rnor_5.0821,979,551 - 21,979,750UniSTSRnor5.0
RGSC_v3.4819,927,716 - 19,927,915UniSTSRGSC3.4
Celera820,836,333 - 20,836,532UniSTS
RH 3.4 Map8181.0UniSTS
Cytogenetic Map8q13UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
2317882Alcrsp24Alcohol response QTL 243.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)8125902202Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)81898416884531599Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)8971222053356647Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)8767057852670578Rat
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)8971246341866876Rat
1354595Despr4Despair related QTL 42.160.0036locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)8768895552688955Rat
1354627Despr14Despair related QTL 140.0056locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)8768895552688955Rat
1558646Swd5Spike wave discharge measurement QTL 53.450.00036brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)81490675159906751Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)8873663553736635Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8470581049705810Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8470581049705810Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8470581049705810Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)8873663553736635Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)81629044461290444Rat
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8124597739Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8209764047097640Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8209764047097640Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8209764047097640Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8209764047097640Rat


Genetic Models
This gene Dnmt1 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2536
Count of miRNA genes:286
Interacting mature miRNAs:352
Transcripts:ENSRNOT00000064304, ENSRNOT00000064932, ENSRNOT00000064978, ENSRNOT00000067325
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 28 40 24 19 24 1 1 72 25 34 11 1
Low 15 17 17 17 7 10 2 10 7 7
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB056446 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC135310 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF116344 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF116345 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BF555651 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CA504141 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CA511167 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CA513509 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB712236 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB732375 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB738113 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473993 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CV075240 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  D64060 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DV214494 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DY313807 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EV768908 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EV775426 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000190 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X95084 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000064932   ⟹   ENSRNOP00000063831
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl819,440,611 - 19,486,659 (-)Ensembl
Rnor_6.0 Ensembl821,922,515 - 21,968,495 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000067325   ⟹   ENSRNOP00000063029
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl821,923,489 - 21,968,415 (-)Ensembl
RefSeq Acc Id: NM_053354   ⟹   NP_445806
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2819,440,611 - 19,486,659 (-)NCBI
Rnor_6.0821,922,515 - 21,968,495 (-)NCBI
Rnor_5.0821,978,830 - 22,024,656 (-)NCBI
RGSC_v3.4819,926,995 - 19,973,256 (-)RGD
Celera820,835,612 - 20,881,380 (-)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_445806   ⟸   NM_053354
- UniProtKB: F1LQT9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000063029   ⟸   ENSRNOT00000067325
RefSeq Acc Id: ENSRNOP00000063831   ⟸   ENSRNOT00000064932
Transcriptome

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

Promoters
RGD ID:13695780
Promoter ID:EPDNEW_R6293
Type:initiation region
Name:Dnmt1_1
Description:DNA methyltransferase 1
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_6.0821,968,445 - 21,968,505EPDNEW

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)
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: 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)
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: 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)
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
F344/Stm (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: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/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
FHH/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)
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)
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)
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)
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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 (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)
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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
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)
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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/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)
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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/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)
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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
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)
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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)
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)
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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 (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)
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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 (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)
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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
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)
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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
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 (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)
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
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620979 AgrOrtholog
Ensembl Genes ENSRNOG00000039859 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000063029 UniProtKB/TrEMBL
  ENSRNOP00000063831 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000064932 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000067325 UniProtKB/TrEMBL
Gene3D-CATH 2.30.30.490 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro BAH_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BAH_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C5_DNA_meth_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C5_MeTfrase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C5_meth_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cytosine_MeTrfase1_RFD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DMAP1-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DNMT1-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM-dependent_MTases UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_CXXC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:84350 UniProtKB/TrEMBL
NCBI Gene 84350 ENTREZGENE
Pfam BAH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DMAP_binding UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DNA_methylase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DNMT1-RFD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  zf-CXXC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Dnmt1 PhenoGen
PIRSF DNMT1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS C5METTRFRASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE BAH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C5_MTASE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C5_MTASE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DMAP1_BIND UniProtKB/Swiss-Prot
  SAM_MT_C5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_CXXC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART BAH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DMAP_binding UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53335 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt D3ZS06_RAT UniProtKB/TrEMBL
  DNMT1_RAT UniProtKB/Swiss-Prot
  F1LQT9 ENTREZGENE, UniProtKB/TrEMBL
  Q9Z330 ENTREZGENE
UniProt Secondary P70487 UniProtKB/Swiss-Prot
  Q9R252 UniProtKB/Swiss-Prot
  Q9WTX3 UniProtKB/Swiss-Prot
  Q9WU57 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-18 Dnmt1  DNA methyltransferase 1  Dnmt1  DNA (cytosine-5-)-methyltransferase 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-11-11 Dnmt1  DNA (cytosine-5-)-methyltransferase 1  Dnmt1  DNA methyltransferase (cytosine-5) 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-22 Dnmt1  DNA methyltransferase (cytosine-5) 1  Dnmt1  DNA (cytosine-5-)-methyltransferase 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Dnmt1  DNA (cytosine-5-)-methyltransferase 1      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Dnmt1  DNA (cytosine-5-)-methyltransferase 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction may bind to annexin V 631943
gene_regulation activity is regulated posttranslationally 632518