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NM_000051.4(ATM):c.186-1del AND Hereditary cancer-predisposing syndrome

Germline classification:
Likely pathogenic (1 submission)
Last evaluated:
Jan 15, 2021
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:
RCV002414929.2

Allele description [Variation Report for NM_000051.4(ATM):c.186-1del]

NM_000051.4(ATM):c.186-1del

Gene:
ATM:ATM serine/threonine kinase [Gene - OMIM - HGNC]
Variant type:
Deletion
Cytogenetic location:
11q22.3
Genomic location:
Preferred name:
NM_000051.4(ATM):c.186-1del
HGVS:
  • NC_000011.10:g.108229177del
  • NG_009830.1:g.11346del
  • NM_000051.4:c.186-1delMANE SELECT
  • NM_001351834.2:c.186-1del
  • NM_001351835.2:c.186-1del
  • NM_001351836.2:c.186-1del
  • LRG_135t1:c.186-1del
  • LRG_135:g.11346del
  • NC_000011.9:g.108099904del
  • NM_000051.3:c.186-1delG
Molecular consequence:
  • NM_000051.4:c.186-1del - splice acceptor variant - [Sequence Ontology: SO:0001574]
  • NM_001351834.2:c.186-1del - splice acceptor variant - [Sequence Ontology: SO:0001574]
  • NM_001351835.2:c.186-1del - splice acceptor variant - [Sequence Ontology: SO:0001574]
  • NM_001351836.2:c.186-1del - splice acceptor variant - [Sequence Ontology: SO:0001574]

Condition(s)

Name:
Hereditary cancer-predisposing syndrome
Synonyms:
Neoplastic Syndromes, Hereditary; Tumor predisposition; Cancer predisposition; See all synonyms [MedGen]
Identifiers:
MONDO: MONDO:0015356; MeSH: D009386; MedGen: C0027672

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Assertion and evidence details

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Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV002719885Ambry Genetics
criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)		Likely pathogenic
(Jan 15, 2021) 		germlineclinical testing

Citation Link

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Summary from all submissions

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

Details of each submission

From Ambry Genetics, SCV002719885.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testingnot provided

Description

The c.186-1delG intronic variant, located in intron 2 of the ATM gene, results from a deletion of one nucleotide within intron 2 of the ATM gene. This variant was not reported in population-based cohorts in the Genome Aggregation Database (gnomAD). This nucleotide position is highly conserved in available vertebrate species. In silico splice site analysis predicts that this alteration will weaken the native splice acceptor site and will result in the creation or strengthening of a novel splice acceptor site. Based on the majority of available evidence to date, this variant is likely to be pathogenic.

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

Last Updated: May 1, 2024