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NM_000051.4(ATM):c.4802G>A (p.Ser1601Asn) AND ATM-related disorder

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Jan 27, 2023
Review status:
1 star out of maximum of 4 stars
criteria provided, single submitter
Somatic classification
of clinical impact:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Somatic classification
of oncogenicity:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Record status:
current
Accession:
RCV004551264.2

Allele description [Variation Report for NM_000051.4(ATM):c.4802G>A (p.Ser1601Asn)]

NM_000051.4(ATM):c.4802G>A (p.Ser1601Asn)

Gene:
ATM:ATM serine/threonine kinase [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
11q22.3
Genomic location:
Preferred name:
NM_000051.4(ATM):c.4802G>A (p.Ser1601Asn)
HGVS:
  • NC_000011.10:g.108294952G>A
  • NG_009830.1:g.77121G>A
  • NM_000051.4:c.4802G>AMANE SELECT
  • NM_001351834.2:c.4802G>A
  • NP_000042.3:p.Ser1601Asn
  • NP_000042.3:p.Ser1601Asn
  • NP_001338763.1:p.Ser1601Asn
  • LRG_135t1:c.4802G>A
  • LRG_135:g.77121G>A
  • LRG_135p1:p.Ser1601Asn
  • NC_000011.9:g.108165679G>A
  • NM_000051.3:c.4802G>A
  • p.S1601N
Protein change:
S1601N
Links:
dbSNP: rs587782506
NCBI 1000 Genomes Browser:
rs587782506
Molecular consequence:
  • NM_000051.4:c.4802G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001351834.2:c.4802G>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
ATM-related disorder
Synonyms:
ATM-related disorders; ATM-related condition
Identifiers:

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV004118011PreventionGenetics, part of Exact Sciences
criteria provided, single submitter

(ACMG Guidelines, 2015)
Uncertain significance
(Jan 27, 2023)
germlineclinical testing

PubMed (1)
[See all records that cite this PMID]

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]
PMID:
25741868
PMCID:
PMC4544753

Details of each submission

From PreventionGenetics, part of Exact Sciences, SCV004118011.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)

Description

The ATM c.4802G>A variant is predicted to result in the amino acid substitution p.Ser1601Asn. This variant has been reported in individuals with leukemia, polyposis, breast and ovarian cancer (Paglia et al. 2009. PubMed ID: 19404735; Skowronska et al. 2011. PubMed ID: 21933854. Table S1; Decker et al. 2017. PubMed ID: 28779002. Table S5; Feliubadaló et al. 2021. PubMed ID: 33280026. Table S3 and S4). This variant is reported in 0.0058% of alleles in individuals of Latino descent in gnomAD (http://gnomad.broadinstitute.org/variant/11-108165679-G-A). In ClinVar, this variant has conflicting interpretations of likely benign and uncertain significance (https://www.ncbi.nlm.nih.gov/clinvar/variation/142501/). At this time, the clinical significance of this variant is uncertain due to the absence of conclusive functional and genetic evidence.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Jul 15, 2024