Atm ATM serine/threonine kinase [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Atmprovided by RGD
Official Full Name: ATM serine/threonine kinaseprovided by RGD
Primary source: RGD:1593265
See related: Ensembl:ENSRNOG00000029773 AllianceGenome:RGD:1593265
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: 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). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 259.9), Thymus (RPKM 189.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q24

Exon count:: 67

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (62724939..62829040, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (53828741..53932773, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (58015938..58119973, complement)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Oxidative stress induces apoptosis via calpain- and caspase-3-mediated cleavage of ATM in pancreatic acinar cells.
Title: Oxidative stress induces apoptosis via calpain- and caspase-3-mediated cleavage of ATM in pancreatic acinar cells.
ATM and P53 differentially regulate pancreatic beta cell survival in Ins1E cells.
Title: ATM and P53 differentially regulate pancreatic beta cell survival in Ins1E cells.
Ataxia-Telangiectasia Mutated is located in cardiac mitochondria and impacts oxidative phosphorylation.
Title: Ataxia-Telangiectasia Mutated is located in cardiac mitochondria and impacts oxidative phosphorylation.
Expression of the ATM-Chk2 pathway increased in early stages of PAH formation, but decreased in late stages. In primary cultured PA-SMCs, KU60019 increased cell proliferation and inhibited cell apoptosis.
Title: Ataxia-Telangiectasia Mutated (ATM) Protein Signaling Participates in Development of Pulmonary Arterial Hypertension in Rats.
pharmacological inhibition of ATM kinase (KU55933) reduced activation of ATM kinase, but not p53, suggesting that HG-mediated activation of p53 and ATM could represent independent pro-apoptotic events..these data indicate that sustained activation of Rac1-p38MAPK signaling axis leads to activation of p53 leading to beta-cell dysfunction under the duress of chronic hyperglycemic conditions
Title: Exposure to chronic hyperglycemic conditions results in Ras-related C3 botulinum toxin substrate 1 (Rac1)-mediated activation of p53 and ATM kinase in pancreatic β-cells.
Low ATM expression is associated with neurodegenerative disease.
Title: A rat model of ataxia-telangiectasia: evidence for a neurodegenerative phenotype.
These data provide support for a proinflammatory phenotype that is manifested in the Atm mutant rat as hind-limb paralysis.
Title: Rats with a missense mutation in Atm display neuroinflammation and neurodegeneration subsequent to accumulation of cytosolic DNA following unrepaired DNA damage.
cytokines stimulate H2AX phosphorylation (gammaH2AX formation) in rat islets and insulinoma cells in a nitric oxide- and ATM-dependent manner.
Title: Nitric oxide induces ataxia telangiectasia mutated (ATM) protein-dependent γH2AX protein formation in pancreatic β cells.
We examined whether cellular expression of ataxia telangiectasia mutated, p53, Akt, and glycogen synthase kinase-3beta, were involved in the striatal neurodegeneration in the brains of rats
Title: Expression pattern of ataxia telangiectasia mutated (ATM), p53, Akt, and glycogen synthase kinase-3β in the striatum of rats treated with 3-nitropropionic acid.
ATM, a gene known to be involved in DNA repair and cell cycle control, plays a role in the effect of metformin upstream of AMP-activated protein kinase, and variation in this gene alters glycemic response to metformin
Title: Common variants near ATM are associated with glycemic response to metformin in type 2 diabetes.

Submit: New GeneRIF Correction See all GeneRIFs (15)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH135390 (e-PCR)
- UniSTS:218667

Atm (e-PCR), detects polymorphism
- UniSTS:506743

RH143065 (e-PCR)
- UniSTS:232312

RH141713 (e-PCR)
- UniSTS:223706

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 1-phosphatidylinositol-3-kinase activity	ISO Inferred from Sequence Orthology more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables DNA-dependent protein kinase activity	ISO Inferred from Sequence Orthology more info
enables histone H2AXS139 kinase activity	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein kinase activity	ISO Inferred from Sequence Orthology more info
enables protein serine/threonine kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein serine/threonine kinase activity	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA damage checkpoint signaling	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within DNA damage checkpoint signaling	ISO Inferred from Sequence Orthology more info
involved_in DNA damage checkpoint signaling	ISO Inferred from Sequence Orthology more info
involved_in DNA damage response	IDA Inferred from Direct Assay more info	PubMed
involved_in DNA damage response	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in DNA damage response	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within DNA repair	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within V(D)J recombination	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within brain development	ISO Inferred from Sequence Orthology more info
involved_in cellular response to X-ray	ISO Inferred from Sequence Orthology more info
involved_in cellular response to gamma radiation	ISO Inferred from Sequence Orthology more info
involved_in cellular response to ionizing radiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to nitrosative stress	ISO Inferred from Sequence Orthology more info
involved_in cellular response to reactive oxygen species	ISO Inferred from Sequence Orthology more info
involved_in cellular response to retinoic acid	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within chromosome organization involved in meiotic cell cycle	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within determination of adult lifespan	ISO Inferred from Sequence Orthology more info
involved_in double-strand break repair	IBA Inferred from Biological aspect of Ancestor more info
involved_in double-strand break repair	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within double-strand break repair via homologous recombination	ISO Inferred from Sequence Orthology more info
involved_in establishment of RNA localization to telomere	ISO Inferred from Sequence Orthology more info
involved_in establishment of protein-containing complex localization to telomere	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within female gamete generation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within female gonad development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within female meiotic nuclear division	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within heart development	ISO Inferred from Sequence Orthology more info
involved_in histone mRNA catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within immune system process	ISO Inferred from Sequence Orthology more info
involved_in intrinsic apoptotic signaling pathway in response to DNA damage	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within intrinsic apoptotic signaling pathway in response to DNA damage	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lipoprotein catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within male meiotic nuclear division	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within meiotic telomere clustering	ISO Inferred from Sequence Orthology more info
involved_in mitotic G2 DNA damage checkpoint signaling	ISO Inferred from Sequence Orthology more info
involved_in mitotic spindle assembly checkpoint signaling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within multicellular organism growth	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of B cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of TORC1 signaling	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of TORC1 signaling	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of telomere capping	ISO Inferred from Sequence Orthology more info
acts_upstream_of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within oocyte development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ovarian follicle development	ISO Inferred from Sequence Orthology more info
involved_in pexophagy	ISO Inferred from Sequence Orthology more info
involved_in phosphatidylinositol-3-phosphate biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of DNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA damage response, signal transduction by p53 class mediator	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neuron apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of telomerase catalytic core complex assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of telomere maintenance via telomerase	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of telomere maintenance via telomere lengthening	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within post-embryonic development	ISO Inferred from Sequence Orthology more info
involved_in pre-B cell allelic exclusion	ISO Inferred from Sequence Orthology more info
involved_in regulation of autophagy	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell cycle	ISO Inferred from Sequence Orthology more info
involved_in regulation of microglial cell activation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of telomere maintenance via telomerase	ISO Inferred from Sequence Orthology more info
involved_in replicative senescence	ISO Inferred from Sequence Orthology more info
involved_in response to hypoxia	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within response to ionizing radiation	ISO Inferred from Sequence Orthology more info
involved_in response to ionizing radiation	ISO Inferred from Sequence Orthology more info
involved_in signal transduction in response to DNA damage	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within somitogenesis	ISO Inferred from Sequence Orthology more info
involved_in telomere maintenance	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within thymus development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of DNA repair complex	ISO Inferred from Sequence Orthology more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in chromosome, telomeric region	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
is_active_in peroxisomal matrix	ISO Inferred from Sequence Orthology more info
located_in site of double-strand break	IEA Inferred from Electronic Annotation more info
is_active_in site of double-strand break	ISO Inferred from Sequence Orthology more info
located_in spindle	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: serine-protein kinase ATM

Names: Ataxia telangiectasia gene mutated in human beings; ataxia telangiectasia mutated homolog

NP_001100291.1

EC 2.7.11.1

XP_008764444.1

EC 2.7.11.1

XP_038936996.1

EC 2.7.11.1

XP_038936997.1

EC 2.7.11.1

XP_038936998.1

EC 2.7.11.1

XP_038937000.1

EC 2.7.11.1

XP_038937002.1

EC 2.7.11.1

XP_063121184.1

EC 2.7.11.1

XP_063121185.1

EC 2.7.11.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001106821.1 → NP_001100291.1 serine-protein kinase ATM

See identical proteins and their annotated locations for NP_001100291.1

Status: PROVISIONAL

Source sequence(s)

CH473975

UniProtKB/TrEMBL

A6J4J4, D4ACL8

Related

ENSRNOP00000045529.3, ENSRNOT00000050555.4

Conserved Domains (4) summary

cd05171
Location:2691 → 2970

PIKKc_ATM; Catalytic domain of Ataxia Telangiectasia Mutated

pfam02259
Location:2103 → 2497

FAT; FAT domain

pfam02260
Location:3034 → 3063

FATC; FATC domain

pfam11640
Location:11 → 165

TAN; Telomere-length maintenance and DNA damage repair

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086026.1 Reference GRCr8

Range

62724939..62829040 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039081069.2 → XP_038936997.1 serine-protein kinase ATM isoform X1

Conserved Domains (4) summary

cd05171
Location:2723 → 3002

PIKKc_ATM; Catalytic domain of Ataxia Telangiectasia Mutated

pfam02259
Location:2137 → 2529

FAT; FAT domain

pfam02260
Location:3066 → 3095

FATC; FATC domain

pfam11640
Location:8 → 165

TAN; Telomere-length maintenance and DNA damage repair
XM_039081070.2 → XP_038936998.1 serine-protein kinase ATM isoform X1

Conserved Domains (4) summary

cd05171
Location:2723 → 3002

PIKKc_ATM; Catalytic domain of Ataxia Telangiectasia Mutated

pfam02259
Location:2137 → 2529

FAT; FAT domain

pfam02260
Location:3066 → 3095

FATC; FATC domain

pfam11640
Location:8 → 165

TAN; Telomere-length maintenance and DNA damage repair
XM_008766222.4 → XP_008764444.1 serine-protein kinase ATM isoform X2

See identical proteins and their annotated locations for XP_008764444.1

UniProtKB/TrEMBL

A0A0G2K3I0

Conserved Domains (4) summary

cd05171
Location:2689 → 2968

PIKKc_ATM; Catalytic domain of Ataxia Telangiectasia Mutated

pfam02259
Location:2103 → 2495

FAT; FAT domain

pfam02260
Location:3032 → 3061

FATC; FATC domain

pfam11640
Location:11 → 165

TAN; Telomere-length maintenance and DNA damage repair
XM_039081068.2 → XP_038936996.1 serine-protein kinase ATM isoform X1

Conserved Domains (4) summary

cd05171
Location:2723 → 3002

PIKKc_ATM; Catalytic domain of Ataxia Telangiectasia Mutated

pfam02259
Location:2137 → 2529

FAT; FAT domain

pfam02260
Location:3066 → 3095

FATC; FATC domain

pfam11640
Location:8 → 165

TAN; Telomere-length maintenance and DNA damage repair
XM_039081072.2 → XP_038937000.1 serine-protein kinase ATM isoform X3

Conserved Domains (3) summary

cd05171
Location:2198 → 2477

PIKKc_ATM; Catalytic domain of Ataxia Telangiectasia Mutated

pfam02259
Location:1612 → 2004

FAT; FAT domain

pfam02260
Location:2541 → 2570

FATC; FATC domain
XM_039081074.2 → XP_038937002.1 serine-protein kinase ATM isoform X4

Conserved Domains (2) summary

pfam02259
Location:2137 → 2186

FAT; FAT domain

pfam11640
Location:8 → 165

TAN; Telomere-length maintenance and DNA damage repair
XM_063265114.1 → XP_063121184.1 serine-protein kinase ATM isoform X5
XM_063265115.1 → XP_063121185.1 serine-protein kinase ATM isoform X6