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NM_003560.4(PLA2G6):c.1556G>C (p.Ser519Thr) AND not provided

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
May 22, 2024
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:
RCV003319509.2

Allele description [Variation Report for NM_003560.4(PLA2G6):c.1556G>C (p.Ser519Thr)]

NM_003560.4(PLA2G6):c.1556G>C (p.Ser519Thr)

Gene:
PLA2G6:phospholipase A2 group VI [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
22q13.1
Genomic location:
Preferred name:
NM_003560.4(PLA2G6):c.1556G>C (p.Ser519Thr)
HGVS:
  • NC_000022.11:g.38123130C>G
  • NG_007094.3:g.96649G>C
  • NM_001004426.3:c.1394G>C
  • NM_001199562.3:c.1394G>C
  • NM_001349864.2:c.1556G>C
  • NM_001349865.2:c.1394G>C
  • NM_001349866.2:c.1394G>C
  • NM_001349867.2:c.1022G>C
  • NM_001349868.2:c.878G>C
  • NM_001349869.2:c.860G>C
  • NM_003560.4:c.1556G>CMANE SELECT
  • NP_001004426.1:p.Ser465Thr
  • NP_001186491.1:p.Ser465Thr
  • NP_001336793.1:p.Ser519Thr
  • NP_001336794.1:p.Ser465Thr
  • NP_001336795.1:p.Ser465Thr
  • NP_001336796.1:p.Ser341Thr
  • NP_001336797.1:p.Ser293Thr
  • NP_001336798.1:p.Ser287Thr
  • NP_003551.2:p.Ser519Thr
  • LRG_1015t1:c.1556G>C
  • LRG_1015:g.96649G>C
  • LRG_1015p1:p.Ser519Thr
  • NC_000022.10:g.38519137C>G
  • NM_003560.2:c.1556G>C
Protein change:
S287T
Links:
dbSNP: rs2145721790
NCBI 1000 Genomes Browser:
rs2145721790
Molecular consequence:
  • NM_001004426.3:c.1394G>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001199562.3:c.1394G>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001349864.2:c.1556G>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001349865.2:c.1394G>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001349866.2:c.1394G>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001349867.2:c.1022G>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001349868.2:c.878G>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001349869.2:c.860G>C - missense variant - [Sequence Ontology: SO:0001583]
  • NM_003560.4:c.1556G>C - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV004023835GeneDx
criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)		Uncertain significance
(May 22, 2024) 		germlineclinical testing

Citation Link

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Summary from all submissions

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

Details of each submission

From GeneDx, SCV004023835.2

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

Description

Not observed at significant frequency in large population cohorts (gnomAD); In silico analysis supports that this missense variant has a deleterious effect on protein structure/function; Has not been previously published as pathogenic or benign to our knowledge

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

Last Updated: Oct 8, 2024