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NM_004360.5(CDH1):c.2635G>A (p.Gly879Ser) AND CDH1-related diffuse gastric and lobular breast cancer syndrome

Germline classification:
Likely benign (1 submission)
Last evaluated:
Aug 17, 2023
Review status:
3 stars out of maximum of 4 stars
reviewed by expert panel
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:
RCV003328178.2

Allele description [Variation Report for NM_004360.5(CDH1):c.2635G>A (p.Gly879Ser)]

NM_004360.5(CDH1):c.2635G>A (p.Gly879Ser)

Gene:
CDH1:cadherin 1 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
16q22.1
Genomic location:
Preferred name:
NM_004360.5(CDH1):c.2635G>A (p.Gly879Ser)
Other names:
p.G879S:GGC>AGC
HGVS:
  • NC_000016.10:g.68833485G>A
  • NG_008021.1:g.101194G>A
  • NM_001317184.2:c.2452G>A
  • NM_001317185.2:c.1087G>A
  • NM_001317186.2:c.670G>A
  • NM_004360.5:c.2635G>AMANE SELECT
  • NP_001304113.1:p.Gly818Ser
  • NP_001304114.1:p.Gly363Ser
  • NP_001304115.1:p.Gly224Ser
  • NP_004351.1:p.Gly879Ser
  • LRG_301t1:c.2635G>A
  • LRG_301:g.101194G>A
  • NC_000016.9:g.68867388G>A
  • NM_004360.3:c.2635G>A
  • NM_004360.4:c.2635G>A
  • p.G879S
  • NM_004360.4(CDH1):c.2635G>A
Protein change:
G224S
Links:
dbSNP: rs200911775
NCBI 1000 Genomes Browser:
rs200911775
Molecular consequence:
  • NM_001317184.2:c.2452G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001317185.2:c.1087G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001317186.2:c.670G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_004360.5:c.2635G>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
CDH1-related diffuse gastric and lobular breast cancer syndrome
Synonyms:
CDH1-related diffuse gastric and lobular breast cancer
Identifiers:
MONDO: MONDO:0100488; MedGen: CN311521

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Assertion and evidence details

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Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV000864613ClinGen CDH1 Variant Curation Expert Panel
reviewed by expert panel

(ClinGen CDH1 ACMG Specifications V3.1)		Likely benign
(Aug 17, 2023) 		germlinecuration

Citation Link

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Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknownnot providednot providednot providednot providednot providedcuration

Details of each submission

From ClinGen CDH1 Variant Curation Expert Panel, SCV000864613.4

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedcurationnot provided

Description

The c.2635G>A (p.Gly879Ser) variant has been observed in >10 individuals without a diagnosis of diffuse gastric cancer, signet ring tumor or lobular breast cancer and whose family histories do not suggest HDGC (BS2; internal laboratory contributors). In summary, the clinical significance of this variant is classified as likely benign based on BS2 alone. ACMG/AMP criteria applied, as specified by the CDH1 Variant Curation Expert Panel (Variant Interpretation Guidelines Version 3.1): BS2.

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

Last Updated: Oct 20, 2024