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NM_000059.4(BRCA2):c.639T>A (p.Asn213Lys) AND Hereditary cancer-predisposing syndrome

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Jan 5, 2015
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:
RCV000167494.3

Allele description [Variation Report for NM_000059.4(BRCA2):c.639T>A (p.Asn213Lys)]

NM_000059.4(BRCA2):c.639T>A (p.Asn213Lys)

Gene:
BRCA2:BRCA2 DNA repair associated [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
13q13.1
Genomic location:
Preferred name:
NM_000059.4(BRCA2):c.639T>A (p.Asn213Lys)
HGVS:
  • NC_000013.11:g.32329450T>A
  • NG_012772.3:g.18971T>A
  • NM_000059.4:c.639T>AMANE SELECT
  • NP_000050.2:p.Asn213Lys
  • NP_000050.3:p.Asn213Lys
  • LRG_293t1:c.639T>A
  • LRG_293:g.18971T>A
  • LRG_293p1:p.Asn213Lys
  • NC_000013.10:g.32903587T>A
  • NM_000059.3:c.639T>A
  • p.N213K
Protein change:
N213K
Links:
dbSNP: rs786203964
NCBI 1000 Genomes Browser:
rs786203964
Molecular consequence:
  • NM_000059.4:c.639T>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
SCV000218352Ambry Genetics
criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)		Uncertain significance
(Jan 5, 2015) 		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, SCV000218352.7

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

Description

The p.N213K variant (also known as c.639T>A and 867T>A), located in coding exon 7 of the BRCA2 gene, results from a T to A substitution at nucleotide position 639. The asparagine at codon 213 is replaced by lysine, an amino acid with similar properties. This variant was not reported in population based cohorts in the following databases: Database of Single Nucleotide Polymorphisms (dbSNP), NHLBI Exome Sequencing Project (ESP), and 1000 Genomes Project. In the ESP, this variant was not observed in 6479 samples (12958 alleles) with coverage at this position. To date, this alteration has been detected with an allele frequency of approximately 0.001% (greater than 105,000 alleles tested) in our clinical cohort. This amino acid position is poorly conserved in available vertebrate species. In addition, this alteration is predicted to be benign by PolyPhen but deleterious by SIFT in silico analyses, respectively. Since supporting evidence is limited at this time, the clinical significance of p.N213K remains unclear.

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

Last Updated: Sep 1, 2024