NM_000051.4(ATM):c.4853G>A (p.Arg1618Gln) AND Hereditary cancer-predisposing syndrome

Clinical significance:Conflicting interpretations of pathogenicity, Likely benign(1);Uncertain significance(1) (Last evaluated: Aug 25, 2020)

Review status:1 star out of maximum of 4 stars

criteria provided, conflicting interpretations

Based on:
2 submissions [Details]
Record status:
current
Accession:
RCV000164315.6

Allele description [Variation Report for NM_000051.4(ATM):c.4853G>A (p.Arg1618Gln)]

NM_000051.4(ATM):c.4853G>A (p.Arg1618Gln)

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.4853G>A (p.Arg1618Gln)
HGVS:
  • NC_000011.10:g.108295003G>A
  • NG_009830.1:g.77172G>A
  • NM_000051.4:c.4853G>AMANE SELECT
  • NM_001351834.2:c.4853G>A
  • NP_000042.3:p.Arg1618Gln
  • NP_000042.3:p.Arg1618Gln
  • NP_001338763.1:p.Arg1618Gln
  • LRG_135t1:c.4853G>A
  • LRG_135:g.77172G>A
  • LRG_135p1:p.Arg1618Gln
  • NC_000011.9:g.108165730G>A
  • NM_000051.3:c.4853G>A
  • p.R1618Q
Protein change:
R1618Q
Links:
dbSNP: rs765759912
NCBI 1000 Genomes Browser:
rs765759912
Molecular consequence:
  • NM_000051.4:c.4853G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001351834.2:c.4853G>A - missense variant - [Sequence Ontology: SO:0001583]
Observations:
1

Condition(s)

Name:
Hereditary cancer-predisposing syndrome
Synonyms:
Neoplastic Syndromes, Hereditary; Tumor predisposition; Cancer predisposition; See all synonyms [MedGen]
Identifiers:
MONDO: MONDO:0015356; MedGen: C0027672

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000214946Ambry Geneticscriteria provided, single submitter
Uncertain significance
(Aug 25, 2020)
germlineclinical testing

Citation Link,

SCV000903054Color Health, Inccriteria provided, single submitter
Likely benign
(Feb 29, 2016)
germlineclinical testing

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

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknown1not providednot provided1not 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 Ambry Genetics, SCV000214946.6

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedclinical testingnot provided

Description

The p.R1618Q variant (also known as c.4853G>A), located in coding exon 31 of the ATM gene, results from a G to A substitution at nucleotide position 4853. The arginine at codon 1618 is replaced by glutamine, an amino acid with highly similar properties. This amino acid position is well conserved in available vertebrate species. In addition, this alteration is predicted to be tolerated by in silico analysis. Since supporting evidence is limited at this time, the clinical significance of this alteration remains unclear.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknown1not providednot provided1not providednot providednot provided

From Color Health, Inc, SCV000903054.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Dec 4, 2021

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