Atm (ATM serine/threonine kinase) - Rat Genome Database

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Gene: Atm (ATM serine/threonine kinase) Rattus norvegicus
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Symbol: Atm
Name: ATM serine/threonine kinase
RGD ID: 1593265
Description: Predicted to enable identical protein binding activity; phosphotransferase activity, alcohol group as acceptor; and protein N-terminus binding activity. Involved in several processes, including positive regulation of neuron apoptotic process; positive regulation of nitrogen compound metabolic process; and regulation of microglial cell activation. Located in cytoplasm and nucleus. Used to study ataxia telangiectasia; disease of cellular proliferation; infertility; leukemia; and lymphoma. Biomarker of pre-malignant neoplasm and status epilepticus. Human ortholog(s) of this gene implicated in several diseases, including colorectal cancer; endometrial cancer; lung carcinoma (multiple); neurodegenerative disease (multiple); and senile cataract. Orthologous to human ATM (ATM serine/threonine kinase); PARTICIPATES IN ataxia telangiectasia-mutated (ATM) signaling pathway; homologous recombination pathway of double-strand break repair; nuclear factor kappa B signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2-amino-2-deoxy-D-galactopyranose; 7,12-dimethyltetraphene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Ataxia telangiectasia gene mutated in human beings; ataxia telangiectasia mutated; ataxia telangiectasia mutated homolog; ataxia telangiectasia mutated homolog (human); ataxia telangiectasia mutated homolog (human) (mapped); Atm_mapped; serine-protein kinase ATM
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Atmm1Kyo   Atmem1Kyo  
Genetic Models: F344-Atmm1Kyo F344-Atmem1Kyo
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2853,828,741 - 53,932,773 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl853,831,093 - 53,932,437 (-)Ensembl
Rnor_6.0858,015,938 - 58,119,973 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl858,015,940 - 58,120,045 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0856,598,503 - 56,703,115 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4856,894,746 - 56,996,565 (-)NCBIRGSC3.4rn4RGSC3.4
Celera853,321,802 - 53,423,212 (-)NCBICelera
Cytogenetic Map8q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Acute Liver Failure  (IEP,ISO)
adenocarcinoma  (ISO)
adenoid cystic carcinoma  (ISO)
adrenocortical carcinoma  (ISO)
Alzheimer's disease  (ISO)
Arenaviridae infectious disease  (ISO)
arteriosclerosis  (ISO)
ataxia telangiectasia  (IMP,ISO)
Ataxia-Telangiectasia Variant  (ISO)
B-Cell Chronic Lymphocytic Leukemia  (ISO)
bilateral breast cancer  (ISO)
bile duct cancer  (ISO)
brain cancer  (ISO)
Brain Neoplasms  (ISO)
breast cancer  (ISO)
Breast Cancer, Familial  (ISO)
breast carcinoma  (ISO)
Breast Neoplasms  (ISO)
cataract  (ISO)
cerebellar ataxia  (ISO)
Chromosome 11, Partial Trisomy 11q  (ISO)
clear cell renal cell carcinoma  (ISO)
colon cancer  (ISO)
colon carcinoma  (ISO)
Colonic Neoplasms  (ISO)
colorectal cancer  (ISO)
dilated cardiomyopathy  (ISO)
disease of cellular proliferation  (IMP,ISO)
endometrial cancer  (ISO)
endometrial carcinoma  (ISO)
endometrial serous adenocarcinoma  (ISO)
esophagus squamous cell carcinoma  (ISO)
Experimental Colitis  (ISO)
Familial Pancreatic Carcinoma  (ISO)
Familial Prostate Cancer  (ISO)
Fibrosis  (ISO)
Gastro-Enteropancreatic Neuroendocrine Tumor  (ISO)
genetic disease  (ISO)
glioblastoma  (ISO)
Helicobacter Infections  (ISO)
hepatoblastoma  (ISO)
hepatocellular carcinoma  (ISO)
hereditary breast ovarian cancer syndrome  (ISO)
Hereditary Neoplastic Syndromes  (ISO)
herpes simplex virus keratitis  (ISO)
Herpesviridae Infections  (ISO)
high grade glioma  (ISO)
human immunodeficiency virus infectious disease  (ISO)
Hypercholesterolemia  (ISO)
infertility  (IMP)
influenza A  (ISO)
Insulin Resistance  (IEP,ISO)
intellectual disability  (ISO)
Kidney Reperfusion Injury  (IEP)
leukemia  (IMP)
liver cancer  (ISO)
lung non-small cell carcinoma  (ISO)
lung small cell carcinoma  (ISO)
lung squamous cell carcinoma  (ISO)
lymphoma  (IMP)
mantle cell lymphoma  (ISO)
melanoma  (ISO)
Metabolic Syndrome  (ISO)
microcephaly  (ISO)
multiple myeloma  (ISO)
myocardial infarction  (ISO)
nasopharynx carcinoma  (ISO)
oral mucosa leukoplakia  (ISO)
oral squamous cell carcinoma  (ISO)
osteoporosis  (ISO)
Otorhinolaryngologic Neoplasms  (ISO)
ovarian cancer  (ISO)
ovarian carcinoma  (ISO)
Ovarian Neoplasms  (ISO)
pancreatic cancer  (ISO)
pancreatic carcinoma  (ISO)
papillary renal cell carcinoma  (ISO)
Parkinson's disease  (ISO)
peripheral T-cell lymphoma  (ISO)
Pneumococcal Meningitis  (ISO)
polycythemia vera  (ISO)
pre-malignant neoplasm  (IEP)
Prenatal Exposure Delayed Effects  (ISO)
primary cutaneous T-cell non-Hodgkin lymphoma  (ISO)
prostate carcinoma in situ  (ISO)
Prostatic Neoplasms  (ISO)
Radiation Pneumonitis  (ISO)
Retroviridae Infections  (ISO)
Rhabdoviridae Infections  (ISO)
senile cataract  (ISO)
Sepsis  (ISO)
Spinal Cord Injuries  (IEP)
squamous cell carcinoma  (ISO)
status epilepticus  (IEP)
stomach cancer  (ISO)
Stomach Neoplasms  (ISO)
Streptococcus pneumonia  (ISO)
T-cell prolymphocytic leukemia  (ISO)
thyroid gland cancer  (ISO)
thyroid gland papillary carcinoma  (ISO)
urinary bladder cancer  (ISO)
Ventricular Dysfunction, Left  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(1S)-bornane-2,3-dione  (ISO)
(S)-nicotine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-amino-2-deoxy-D-galactopyranose  (EXP)
2-methylcholine  (ISO)
3-aminobenzamide  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-amino-1,8-naphthalimide  (ISO)
4-hydroxynon-2-enal  (ISO)
5-(hydroxymethyl)cytosine  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-chloro-7-iodoquinolin-8-ol  (ISO)
7,12-dimethyltetraphene  (EXP,ISO)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
acrylamide  (ISO)
actinomycin D  (ISO)
Aflatoxin G1  (ISO)
aflatoxin M1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
amphetamine  (EXP)
amphibole asbestos  (ISO)
anthocyanin  (ISO)
antimycin A  (ISO)
aphidicolin  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (EXP,ISO)
asbestos  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bexarotene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (ISO)
bortezomib  (ISO)
Brevetoxin B  (ISO)
busulfan  (ISO)
butanal  (ISO)
Butylbenzyl phthalate  (ISO)
Butylparaben  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calcitriol  (ISO)
camptothecin  (ISO)
cannabidiol  (ISO)
capsaicin  (ISO)
carbamate ester  (ISO)
carbon nanotube  (ISO)
casticin  (ISO)
CCCP  (ISO)
chlordecone  (ISO)
chloroquine  (ISO)
chlorpyrifos  (ISO)
chromium(6+)  (ISO)
cisplatin  (EXP,ISO)
clofarabine  (ISO)
cobalt atom  (ISO)
cocaine  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
curcumin  (ISO)
cyclosporin A  (ISO)
cypermethrin  (ISO)
cyproconazole  (EXP)
daunorubicin  (ISO)
deguelin  (ISO)
desferrioxamine B  (ISO)
diarsenic trioxide  (EXP,ISO)
diazinon  (EXP,ISO)
dibutyl phthalate  (ISO)
dichlorvos  (EXP)
dicoumarol  (ISO)
dicrotophos  (ISO)
dieldrin  (EXP)
diepoxybutane  (ISO)
diethyl maleate  (ISO)
dihydroxyacetone  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
emodin  (ISO)
endosulfan  (ISO)
epoxiconazole  (EXP)
erlotinib hydrochloride  (ISO)
ethanol  (EXP)
Ethyl maltol  (ISO)
etoposide  (ISO)
fenhexamid  (ISO)
flavanones  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
furan  (EXP)
furosemide  (EXP)
gadodiamide hydrate  (ISO)
gallic acid  (ISO)
geneticin  (ISO)
genistein  (ISO)
gentamycin  (EXP,ISO)
hellebrigenin  (ISO)
hexamethylcyclotrisiloxane  (ISO)
hydrazine  (ISO)
hydrogen peroxide  (ISO)
hydroxyurea  (ISO)
irinotecan  (ISO)
iron atom  (ISO)
iron trichloride  (ISO)
iron(0)  (ISO)
isocyanates  (ISO)
isoflavones  (ISO)
kaempferol  (ISO)
kojic acid  (ISO)
L-ascorbic acid  (ISO)
Lasiocarpine  (ISO)
lead diacetate  (ISO)
lithium atom  (ISO)
lithium hydride  (ISO)
lovastatin  (EXP)
LY294002  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
metformin  (ISO)
methotrexate  (ISO)
methoxsalen  (ISO)
methylparaben  (ISO)
mitoxantrone  (EXP,ISO)
monocrotaline  (ISO)
motexafin gadolinium  (ISO)
myristicin  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-acetyl-L-cysteine  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
nickel dichloride  (EXP,ISO)
nicotine  (ISO)
nitrates  (EXP)
nocodazole  (ISO)
O-methyleugenol  (EXP,ISO)
octamethylcyclotetrasiloxane  (ISO)
ouabain  (ISO)
ozone  (ISO)
p-menthan-3-ol  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
paromomycin  (ISO)
PCB138  (ISO)
pentamidine  (ISO)
pentanal  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
phenytoin  (ISO)
phosphoramide mustard  (EXP)
pirinixic acid  (ISO)
potassium bromate  (ISO)
potassium chromate  (ISO)
Pranoprofen  (ISO)
prochloraz  (EXP)
promethazine  (EXP)
propiconazole  (ISO)
propylparaben  (ISO)
pyrroloquinoline quinone  (EXP)
quercetin  (ISO)
resveratrol  (EXP,ISO)
rifampicin  (ISO)
rotenone  (ISO)
ruxolitinib  (ISO)
S-nitrosoglutathione  (ISO)
silibinin  (ISO)
silicon dioxide  (ISO)
silver(1+) nitrate  (ISO)
simvastatin  (ISO)
sodium arsenite  (ISO)
sodium chromate  (ISO)
sodium fluoride  (ISO)
sterigmatocystin  (ISO)
sunitinib  (ISO)
T-2 toxin  (ISO)
temozolomide  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thimerosal  (ISO)
trichostatin A  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
usnic acid  (ISO)
valproic acid  (EXP,ISO)
veliparib  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
wortmannin  (ISO)
zearalenone  (ISO)
zinc acetate  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
apoptotic process  (IEP)
brain development  (ISO)
cellular response to DNA damage stimulus  (IDA,IMP,ISO)
cellular response to gamma radiation  (ISO)
cellular response to nitrosative stress  (ISO)
cellular response to retinoic acid  (ISO)
cellular response to X-ray  (ISO)
chromosome organization involved in meiotic cell cycle  (ISO)
determination of adult lifespan  (ISO)
DNA damage checkpoint signaling  (IBA,ISO)
DNA damage induced protein phosphorylation  (ISO)
DNA repair  (ISO)
double-strand break repair via homologous recombination  (ISO)
establishment of RNA localization to telomere  (ISO)
female gamete generation  (ISO)
female gonad development  (ISO)
female meiotic nuclear division  (ISO)
heart development  (ISO)
histone mRNA catabolic process  (ISO)
histone phosphorylation  (IEA)
immune system process  (ISO)
intrinsic apoptotic signaling pathway in response to DNA damage  (IBA,ISO)
lipoprotein catabolic process  (ISO)
male meiotic nuclear division  (ISO)
meiotic telomere clustering  (ISO)
mitotic G2 DNA damage checkpoint signaling  (ISO)
mitotic spindle assembly checkpoint signaling  (ISO)
multicellular organism growth  (ISO)
negative regulation of B cell proliferation  (ISO)
negative regulation of telomere capping  (ISO)
negative regulation of TORC1 signaling  (IBA,ISO)
neuron apoptotic process  (ISO)
oocyte development  (ISO)
ovarian follicle development  (ISO)
peptidyl-serine autophosphorylation  (ISO)
peptidyl-serine phosphorylation  (ISO)
phosphatidylinositol-3-phosphate biosynthetic process  (IEA)
positive regulation of apoptotic process  (ISO)
positive regulation of cell adhesion  (ISO)
positive regulation of cell migration  (ISO)
positive regulation of DNA catabolic process  (IMP)
positive regulation of DNA damage response, signal transduction by p53 class mediator  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of neuron apoptotic process  (IMP,ISO)
positive regulation of neuron death  (IMP)
positive regulation of response to DNA damage stimulus  (IMP)
positive regulation of telomerase catalytic core complex assembly  (ISO)
positive regulation of telomere maintenance via telomerase  (ISO)
positive regulation of telomere maintenance via telomere lengthening  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
post-embryonic development  (ISO)
pre-B cell allelic exclusion  (ISO)
protein autophosphorylation  (ISO)
protein phosphorylation  (IBA,ISO)
regulation of autophagy  (ISO)
regulation of cell cycle  (IMP,ISO)
regulation of cellular response to gamma radiation  (IMP)
regulation of microglial cell activation  (IMP)
regulation of telomerase activity  (ISO)
regulation of telomere maintenance via telomerase  (ISO)
replicative senescence  (ISO)
response to hypoxia  (IDA)
response to ionizing radiation  (ISO)
somitogenesis  (ISO)
telomere maintenance  (IBA)
thymus development  (ISO)
V(D)J recombination  (ISO)

Cellular Component

References

References - curated
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66. Warren R, etal., Am J Physiol Lung Cell Mol Physiol. 2019 Nov 1;317(5):L591-L601. doi: 10.1152/ajplung.00031.2019. Epub 2019 Sep 11.
67. Westbrook AM and Schiestl RH, Cancer Res. 2010 Mar 1;70(5):1875-84. doi: 10.1158/0008-5472.CAN-09-2584. Epub 2010 Feb 23.
68. Wu CW, etal., PLoS One. 2013;8(2):e57036. doi: 10.1371/journal.pone.0057036. Epub 2013 Feb 21.
69. Wu D, etal., J Lipid Res. 2005 Jul;46(7):1380-7. Epub 2005 May 1.
70. Xu Y Nat Rev Immunol. 2006 Apr;6(4):261-70.
71. Yamaguchi S, etal., Leuk Res. 2005 Mar;29(3):307-16. doi: 10.1016/j.leukres.2004.07.003.
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73. Zhang L, etal., Int J Radiat Oncol Biol Phys. 2010 Aug 1;77(5):1360-8. doi: 10.1016/j.ijrobp.2009.07.1675. Epub 2010 Feb 18.
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Additional References at PubMed
PMID:8843194   PMID:9733515   PMID:9925639   PMID:10639175   PMID:10710310   PMID:11040211   PMID:11248063   PMID:11375976   PMID:11536012   PMID:11679583   PMID:11943150   PMID:12937170  
PMID:15149599   PMID:15364958   PMID:15509711   PMID:15542845   PMID:15640358   PMID:15790808   PMID:15916964   PMID:16086026   PMID:16213212   PMID:16687486   PMID:16777961   PMID:17010969  
PMID:17476307   PMID:17694070   PMID:17875758   PMID:18162465   PMID:18571408   PMID:19061978   PMID:19208651   PMID:19448632   PMID:20096447   PMID:20111719   PMID:20213763   PMID:20876357  
PMID:21186350   PMID:22505033   PMID:23836881   PMID:23878245   PMID:24217620   PMID:24550317   PMID:24610783   PMID:26323318   PMID:26586427   PMID:26586433   PMID:27664052   PMID:27829214  
PMID:28220272   PMID:28344092   PMID:28894083   PMID:29203878   PMID:30612738   PMID:30886180   PMID:31315051   PMID:31401888   PMID:32810137  


Genomics

Comparative Map Data
Atm
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2853,828,741 - 53,932,773 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl853,831,093 - 53,932,437 (-)Ensembl
Rnor_6.0858,015,938 - 58,119,973 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl858,015,940 - 58,120,045 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0856,598,503 - 56,703,115 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4856,894,746 - 56,996,565 (-)NCBIRGSC3.4rn4RGSC3.4
Celera853,321,802 - 53,423,212 (-)NCBICelera
Cytogenetic Map8q24NCBI
ATM
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811108,223,067 - 108,369,102 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl11108,223,044 - 108,369,102 (+)EnsemblGRCh38hg38GRCh38
GRCh3711108,093,794 - 108,239,829 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3611107,598,769 - 107,745,036 (+)NCBINCBI36hg18NCBI36
Celera11105,248,510 - 105,394,764 (+)NCBI
Cytogenetic Map11q22.3NCBI
HuRef11104,019,183 - 104,165,444 (+)NCBIHuRef
CHM1_111107,976,660 - 108,122,959 (+)NCBICHM1_1
T2T-CHM13v2.011108,230,609 - 108,376,596 (+)NCBI
Atm
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39953,348,422 - 53,448,125 (-)NCBIGRCm39mm39
GRCm39 Ensembl953,350,449 - 53,448,040 (-)Ensembl
GRCm38953,437,122 - 53,536,828 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl953,439,149 - 53,536,740 (-)EnsemblGRCm38mm10GRCm38
MGSCv37953,245,227 - 53,344,776 (-)NCBIGRCm37mm9NCBIm37
MGSCv36953,201,763 - 53,298,968 (-)NCBImm8
Celera950,696,862 - 50,796,451 (-)NCBICelera
Cytogenetic Map9A5.3NCBI
cM Map929.12NCBI
Atm
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541210,426,135 - 10,530,545 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541210,422,753 - 10,531,406 (+)NCBIChiLan1.0ChiLan1.0
ATM
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.111106,584,228 - 106,728,457 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11106,584,228 - 106,727,041 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v011103,109,979 - 103,256,405 (+)NCBIMhudiblu_PPA_v0panPan3
ATM
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1524,180,129 - 24,297,207 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl524,182,135 - 24,297,207 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha524,107,778 - 24,222,696 (-)NCBI
ROS_Cfam_1.0524,211,375 - 24,326,057 (-)NCBI
ROS_Cfam_1.0 Ensembl524,211,375 - 24,326,057 (-)Ensembl
UMICH_Zoey_3.1524,258,890 - 24,373,424 (-)NCBI
UNSW_CanFamBas_1.0524,160,300 - 24,274,920 (-)NCBI
UU_Cfam_GSD_1.0524,218,488 - 24,333,125 (-)NCBI
Atm
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494791,001,856 - 91,178,286 (+)NCBI
SpeTri2.0NW_004936551359,134 - 534,672 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATM
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl936,620,658 - 36,759,554 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1936,620,656 - 36,759,555 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2940,746,630 - 40,837,766 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Sscrofa10.2940,926,043 - 40,945,434 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ATM
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1199,653,208 - 99,786,889 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl199,653,139 - 99,791,520 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604326,170,879 - 26,305,849 (-)NCBIVero_WHO_p1.0
Atm
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247842,937,499 - 3,078,216 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247842,933,172 - 3,080,131 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH143065  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2853,921,312 - 53,921,471 (+)MAPPERmRatBN7.2
Rnor_6.0858,108,501 - 58,108,659NCBIRnor6.0
Rnor_5.0856,691,121 - 56,691,279UniSTSRnor5.0
RGSC_v3.4856,985,443 - 56,985,601UniSTSRGSC3.4
Celera853,412,090 - 53,412,248UniSTS
RH 3.4 Map8583.1UniSTS
Cytogenetic Map8q24UniSTS
RH135390  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2853,920,992 - 53,921,186 (+)MAPPERmRatBN7.2
Rnor_6.0858,108,181 - 58,108,374NCBIRnor6.0
Rnor_5.0856,690,801 - 56,690,994UniSTSRnor5.0
RGSC_v3.4856,985,123 - 56,985,316UniSTSRGSC3.4
Celera853,411,770 - 53,411,963UniSTS
RH 3.4 Map8582.5UniSTS
Cytogenetic Map8q24UniSTS
RH141713  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2853,829,570 - 53,829,754 (+)MAPPERmRatBN7.2
Rnor_6.0858,016,768 - 58,016,951NCBIRnor6.0
Rnor_5.0856,599,333 - 56,599,516UniSTSRnor5.0
RGSC_v3.4856,893,224 - 56,893,407UniSTSRGSC3.4
Celera853,320,280 - 53,320,463UniSTS
RH 3.4 Map8584.7UniSTS
Cytogenetic Map8q24UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
1558646Swd5Spike wave discharge measurement QTL 53.450.00036brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)81490675159906751Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)81629044461290444Rat
631271Lecl1Lens clarity QTL 10.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)81898416884531599Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)81933115293965294Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)82266233067662330Rat
2303564Gluco43Glucose level QTL 433blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)82613018771130187Rat
2303572Insul13Insulin level QTL 132blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)82613018771130187Rat
631648Stl5Serum triglyceride level QTL 540.0003blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)82720571554998217Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)82720571599103503Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)82720571599103503Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)82720571599103503Rat
1331804Cm30Cardiac mass QTL 303.77443heart mass (VT:0007028)heart wet weight (CMO:0000069)82824291253961020Rat
1300146Rf17Renal function QTL 172.9renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)82824291273242912Rat
8662823Vetf5Vascular elastic tissue fragility QTL 51.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)82824291299525068Rat
724514Uae15Urinary albumin excretion QTL 152.9urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)82950266570386295Rat
1549908Neudeg1Neurodegradation QTL 15.50nervous system integrity trait (VT:0010566)logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)83018886794457446Rat
1331744Bp217Blood pressure QTL 2173.398arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83084815458482492Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83084815461290444Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)83084815461290444Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83084815461290444Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)83084815461290444Rat
11556286Cm81Cardiac mass QTL 810.01heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)83084815461290444Rat
1359033Bp273Blood pressure QTL 273arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83084815461290444Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83084815482460899Rat
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83084815482460899Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83084815482460899Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83084815482460899Rat
1578755Pur5Proteinuria QTL 53.30.0001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)830848154101699754Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)830848154101699754Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)830848154101699754Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)830848259105647037Rat
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83085640475856404Rat
1582222Epfw2Epididymal fat weight QTL 23.20.0005epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)83173772976737729Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83555193880551938Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83558203280582032Rat
1331838Niddm61Non-insulin dependent diabetes mellitus QTL 613.530.0004blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)83646953599083736Rat
737824Hcar10Hepatocarcinoma resistance QTL 102.9liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)84071306682925667Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84071306693965294Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)84186687675097878Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)84186687686866876Rat
631216Stl9Serum triglyceride level QTL 94.710.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)84186701070386132Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84269268490165460Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)84329616998968765Rat
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)84329616998968765Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)84329616998968765Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)84329616998968765Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)84329616998968765Rat
12879883Kidm65Kidney mass QTL 650.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)84329616998968765Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)846531639119088624Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088624Rat
1331837Bw23Body weight QTL 234.190.00007body mass (VT:0001259)body weight (CMO:0000012)84653172299083736Rat
2303570Gluco48Glucose level QTL 482blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)84980583194805831Rat
2313086Bss60Bone structure and strength QTL 604.10.0001tibia length (VT:0004357)tibia length (CMO:0000450)85009524982460899Rat
4889938Bss89Bone structure and strength QTL 893.8tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)85009524982460899Rat
5684973Bss100Bone structure and strength QTL 1004.7tibia area (VT:1000281)tibia area measurement (CMO:0001382)85009524982460899Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)851351728107062046Rat


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

Predicted Target Of
Summary Value
Count of predictions:42
Count of miRNA genes:41
Interacting mature miRNAs:42
Transcripts:ENSRNOT00000050555
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 9 30 14 19 14 1 1 59 28 37 9 1
Low 1 34 27 27 27 7 10 15 7 4 2 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000050555   ⟹   ENSRNOP00000045529
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl853,831,093 - 53,932,437 (-)Ensembl
Rnor_6.0 Ensembl858,018,290 - 58,119,623 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086812   ⟹   ENSRNOP00000072646
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl858,015,940 - 58,120,045 (-)Ensembl
RefSeq Acc Id: NM_001106821   ⟹   NP_001100291
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2853,831,093 - 53,932,437 (-)NCBI
Rnor_6.0858,018,290 - 58,119,623 (-)NCBI
Rnor_5.0856,598,503 - 56,703,115 (-)NCBI
RGSC_v3.4856,894,746 - 56,996,565 (-)RGD
Celera853,321,802 - 53,423,212 (-)RGD
Sequence:
RefSeq Acc Id: XM_008766222   ⟹   XP_008764444
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2853,828,741 - 53,932,770 (-)NCBI
Rnor_6.0858,015,938 - 58,119,957 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039081068   ⟹   XP_038936996
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2853,828,741 - 53,932,770 (-)NCBI
RefSeq Acc Id: XM_039081069   ⟹   XP_038936997
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2853,828,741 - 53,932,760 (-)NCBI
RefSeq Acc Id: XM_039081070   ⟹   XP_038936998
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2853,828,741 - 53,932,753 (-)NCBI
RefSeq Acc Id: XM_039081071   ⟹   XP_038936999
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2853,848,954 - 53,932,772 (-)NCBI
RefSeq Acc Id: XM_039081072   ⟹   XP_038937000
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2853,828,741 - 53,911,306 (-)NCBI
RefSeq Acc Id: XM_039081073   ⟹   XP_038937001
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2853,852,033 - 53,932,772 (-)NCBI
RefSeq Acc Id: XM_039081074   ⟹   XP_038937002
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2853,855,277 - 53,932,773 (-)NCBI
RefSeq Acc Id: XR_005487761
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2853,859,324 - 53,932,773 (-)NCBI
RefSeq Acc Id: XR_005487762
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2853,859,130 - 53,932,773 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001100291   ⟸   NM_001106821
- UniProtKB: D4ACL8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008764444   ⟸   XM_008766222
- Peptide Label: isoform X2
- UniProtKB: A0A0G2K3I0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000045529   ⟸   ENSRNOT00000050555
RefSeq Acc Id: ENSRNOP00000072646   ⟸   ENSRNOT00000086812
RefSeq Acc Id: XP_038936996   ⟸   XM_039081068
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936997   ⟸   XM_039081069
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038936998   ⟸   XM_039081070
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038937000   ⟸   XM_039081072
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038936999   ⟸   XM_039081071
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038937001   ⟸   XM_039081073
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038937002   ⟸   XM_039081074
- Peptide Label: isoform X6
Protein Domains
FAT   FATC   PI3K/PI4K

Transcriptome

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


Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
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/N (2020)
Visual CSV TAB Printer
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
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
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
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
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
BUF/N (2020)
Visual CSV TAB Printer
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
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
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
DA/OlaHsd (2019)
Visual CSV TAB Printer
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
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
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
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/Stm (2019)
Visual CSV TAB Printer
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
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
GK/FarMcwi (2019)
Visual CSV TAB Printer
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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
LEW/Crl (2019)
Visual CSV TAB Printer
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
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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/MavRrrcAek (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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/NRrrcMcwi (2019)
Visual CSV TAB Printer
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
MR/N (2020)
Visual CSV TAB Printer
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
MWF/Hsd (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
SR/JrHsd (2020)
Visual CSV TAB Printer
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
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
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
WAG/RijCrl (2020)
Visual CSV TAB Printer
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/N (2020)
Visual CSV TAB Printer
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/NCrl (2019)
Visual CSV TAB Printer
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
WN/N (2020)
Visual CSV TAB Printer
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
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 58085548 58085549 C T snv SR/JrHsd (2020), PVG/Seac (2019), LN/MavRrrcAek (2020), LE/Stm (2019), LEXF4/Stm (2020), LEXF3/Stm (2020), FXLE18/Stm (2020), SBH/Ygl (MCW), SR/JrHsd (MCW), LE/Stm (RGD), LN/MavRrrc (RGD), SBH/Ygl (RGD), SR/JrHsd (RGD), CDR
8 58098351 58098352 C T snv MR/N (2020), MWF/Hsd (2019), DA/OlaHsd (2019), ACI/N (2020), ACI/EurMcwi (2019), ACI/EurMcwi (RGD), ACI/EurMcwi (MCW), ACI/N (MCW)
8 58100739 58100740 C A snv SS/JrHsdMcwi (MCW), LH/MavRrrc (RGD), SS/Jr (RGD), SS/JrHsdMcwi (RGD), LH/MavRrrcAek (2020), SS/JrHsdMcwi (2019)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 56664310 56664311 C T snv LE/OrlBarth (UDEL)
8 56667951 56667952 C T snv SR/JrHsd (MCW), LN/MavRrrc (KNAW), SR/JrHsd (KNAW), LE/Stm (SOLiD) (KNAW), SBH/Ygl (KNAW), BUF/MNa (KyushuU), LE/Stm (KyushuU), SBH/Ygl (MCW), LE/Stm (Illumina) (KNAW)
8 56680754 56680755 C T snv BDIX/NemOda (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), NIG-III/Hok (KyushuU), Crl:SD (UDEL), ACI/EurMcwi (MCW), ACI/N (KNAW), ACI/EurMcwi (KNAW), DA/BklArbNsi (KNAW)
8 56683359 56683360 C A snv SS/JrHsdMcwi (KNAW), SS/Jr (KNAW), LH/MavRrrc (KNAW), SS/JrHsdMcwi (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 56962490 56962491 C T snv SR/JrHsd (ICL), SBH/Ygl (ICL), LN/MavRrrc (ICL), LE/Stm (ICL), LE/Stm (KNAW), SR/JrHsd (MCW)
8 56975293 56975294 C T snv LCR/2Mco (UMich), DA/BklArbNsi (ICAHN), HCR/2Mco (UMich), ACI/EurMcwi (ICL), ACI/N (KNAW), ACI/EurMcwi (MCW)
8 56977681 56977682 C A snv SS/JrHsdMcwi (MCW), SS/JrHsdMcwi (MDC), LH/MavRrrc (ICL), SS/Jr (ICL), SS/JrHsdMcwi (ICL)
8 56983083 56983084 C T snv FHH/EurMcwi (MCW), SR/JrHsd (MCW)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
8 53898358 53898359 C T snv LE/Stm (2019), LEXF4/Stm (2020), LEXF3/Stm (2020), FXLE18/Stm (2020), PVG/Seac (2019), LN/MavRrrcAek (2020), SR/JrHsd (2020)
8 53911161 53911162 C T snv MWF/Hsd (2019), MR/N (2020), DA/OlaHsd (2019), ACI/N (2020), ACI/EurMcwi (2019)
8 53913549 53913550 C A snv LH/MavRrrcAek (2020), SS/JrHsdMcwi (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1593265 AgrOrtholog
BioCyc Gene G2FUF-30436 BioCyc
Ensembl Genes ENSRNOG00000029773 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000045529 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000072646 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000050555 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000086812 UniProtKB/TrEMBL
Gene3D-CATH 1.10.1070.11 UniProtKB/TrEMBL
InterPro ARM-type_fold UniProtKB/TrEMBL
  ATM UniProtKB/TrEMBL
  FATC UniProtKB/TrEMBL
  Kinase-like_dom UniProtKB/TrEMBL
  PI3/4_kinase_cat UniProtKB/TrEMBL
  PI3/4_kinase_cat_sf UniProtKB/TrEMBL
  PI3/4_kinase_CS UniProtKB/TrEMBL
  PIK-rel_kinase_FAT UniProtKB/TrEMBL
  PIK_FAT UniProtKB/TrEMBL
  PIKKc_ATM UniProtKB/TrEMBL
  TAN UniProtKB/TrEMBL
KEGG Report rno:300711 UniProtKB/TrEMBL
NCBI Gene 300711 ENTREZGENE
PANTHER PTHR11139:SF72 UniProtKB/TrEMBL
Pfam FAT UniProtKB/TrEMBL
  FATC UniProtKB/TrEMBL
  PI3_PI4_kinase UniProtKB/TrEMBL
  TAN UniProtKB/TrEMBL
PhenoGen Atm PhenoGen
PROSITE FAT UniProtKB/TrEMBL
  FATC UniProtKB/TrEMBL
  PI3_4_KINASE_1 UniProtKB/TrEMBL
  PI3_4_KINASE_2 UniProtKB/TrEMBL
  PI3_4_KINASE_3 UniProtKB/TrEMBL
SMART FATC UniProtKB/TrEMBL
  PI3Kc UniProtKB/TrEMBL
  TAN UniProtKB/TrEMBL
Superfamily-SCOP ARM-type_fold UniProtKB/TrEMBL
  Kinase_like UniProtKB/TrEMBL
UniProt A0A0G2K3I0 ENTREZGENE, UniProtKB/TrEMBL
  D4ACL8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-06-25 Atm  ATM serine/threonine kinase  Atm  ataxia telangiectasia mutated  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-01-14 Atm  ataxia telangiectasia mutated  Atm  ataxia telangiectasia mutated homolog (human)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-04-12   ataxia telangiectasia mutated homolog (human)  Atm  ataxia telangiectasia mutated homolog (human) (mapped)  Name updated 737654 APPROVED
2007-04-10 Atm  ataxia telangiectasia mutated homolog (human) (mapped)  Atm_mapped  ataxia telangiectasia mutated homolog (human) (mapped)  Data Merged 737654 APPROVED
2006-11-20 Atm  ataxia telangiectasia mutated homolog (human) (mapped)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Atm_mapped  ataxia telangiectasia mutated homolog (human) (mapped)  Atm  ataxia telangiectasia mutated homolog (human)  Symbol and Name updated 1556543 APPROVED
2002-11-06 Atm  ataxia telangiectasia mutated homolog (human)    Ataxia telangiectasia gene mutated in human beings  Name updated 625702 APPROVED
2002-06-10 Atm  Ataxia telangiectasia gene mutated in human beings      Symbol and Name status set to approved 70586 APPROVED