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NM_000051.4(ATM):c.7690G>A (p.Ala2564Thr) AND Hereditary cancer-predisposing syndrome

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Mar 16, 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:
RCV000570379.13

Allele description [Variation Report for NM_000051.4(ATM):c.7690G>A (p.Ala2564Thr)]

NM_000051.4(ATM):c.7690G>A (p.Ala2564Thr)

Genes:
ATM:ATM serine/threonine kinase [Gene - OMIM - HGNC]
C11orf65:chromosome 11 open reading frame 65 [Gene - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
11q22.3
Genomic location:
Preferred name:
NM_000051.4(ATM):c.7690G>A (p.Ala2564Thr)
HGVS:
  • NC_000011.10:g.108331939G>A
  • NG_009830.1:g.114108G>A
  • NG_054724.1:g.142894C>T
  • NM_000051.4:c.7690G>AMANE SELECT
  • NM_001330368.2:c.641-22868C>T
  • NM_001351110.2:c.*38+3281C>T
  • NM_001351834.2:c.7690G>A
  • NP_000042.3:p.Ala2564Thr
  • NP_000042.3:p.Ala2564Thr
  • NP_001338763.1:p.Ala2564Thr
  • LRG_135t1:c.7690G>A
  • LRG_135:g.114108G>A
  • LRG_135p1:p.Ala2564Thr
  • NC_000011.9:g.108202666G>A
  • NM_000051.3:c.7690G>A
Protein change:
A2564T
Links:
dbSNP: rs940285361
NCBI 1000 Genomes Browser:
rs940285361
Molecular consequence:
  • NM_001330368.2:c.641-22868C>T - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001351110.2:c.*38+3281C>T - intron variant - [Sequence Ontology: SO:0001627]
  • NM_000051.4:c.7690G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001351834.2:c.7690G>A - missense variant - [Sequence Ontology: SO:0001583]

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
SCV000660722Ambry Genetics
criteria provided, single submitter

(Ambry General Variant Classification Scheme_2022)		Uncertain significance
(Mar 16, 2023) 		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, SCV000660722.5

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

Description

The p.A2564T variant (also known as c.7690G>A), located in coding exon 51 of the ATM gene, results from a G to A substitution at nucleotide position 7690. The alanine at codon 2564 is replaced by threonine, an amino acid with similar properties. This amino acid position is well conserved in available vertebrate species. In addition, the in silico prediction for this alteration is inconclusive. Since supporting evidence is limited at this time, the clinical significance of this alteration remains unclear.

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

Last Updated: Apr 20, 2024