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NM_003560.4(PLA2G6):c.898G>A (p.Ala300Thr) AND not provided

Germline classification:
Conflicting interpretations of pathogenicity (3 submissions)
Last evaluated:
Dec 1, 2022
Review status:
criteria provided, conflicting classifications
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:
RCV000224530.18

Allele description [Variation Report for NM_003560.4(PLA2G6):c.898G>A (p.Ala300Thr)]

NM_003560.4(PLA2G6):c.898G>A (p.Ala300Thr)

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.898G>A (p.Ala300Thr)
HGVS:
  • NC_000022.11:g.38133010C>T
  • NG_007094.3:g.86769G>A
  • NM_001004426.3:c.898G>A
  • NM_001199562.3:c.898G>A
  • NM_001349864.2:c.898G>A
  • NM_001349865.2:c.898G>A
  • NM_001349866.2:c.898G>A
  • NM_001349867.2:c.364G>A
  • NM_001349868.2:c.220G>A
  • NM_001349869.2:c.364G>A
  • NM_003560.4:c.898G>AMANE SELECT
  • NP_001004426.1:p.Ala300Thr
  • NP_001186491.1:p.Ala300Thr
  • NP_001336793.1:p.Ala300Thr
  • NP_001336794.1:p.Ala300Thr
  • NP_001336795.1:p.Ala300Thr
  • NP_001336796.1:p.Ala122Thr
  • NP_001336797.1:p.Ala74Thr
  • NP_001336798.1:p.Ala122Thr
  • NP_003551.2:p.Ala300Thr
  • LRG_1015t1:c.898G>A
  • LRG_1015:g.86769G>A
  • LRG_1015p1:p.Ala300Thr
  • NC_000022.10:g.38529017C>T
  • NG_007094.2:g.77681G>A
  • NM_003560.2:c.898G>A
Protein change:
A122T
Links:
dbSNP: rs528966598
NCBI 1000 Genomes Browser:
rs528966598
Molecular consequence:
  • NM_001004426.3:c.898G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001199562.3:c.898G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001349864.2:c.898G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001349865.2:c.898G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001349866.2:c.898G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001349867.2:c.364G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001349868.2:c.220G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001349869.2:c.364G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_003560.4:c.898G>A - missense variant - [Sequence Ontology: SO:0001583]
Observations:
1

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000280701Center for Pediatric Genomic Medicine, Children's Mercy Hospital and Clinics
criteria provided, single submitter

(ACMG Guidelines, 2015)
Uncertain Significance
(Aug 19, 2015)
germlineclinical testing

PubMed (1)
[See all records that cite this PMID]

SCV001788441GeneDx
criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)
Likely benign
(Jan 30, 2021)
germlineclinical testing

Citation Link,

SCV004147891CeGaT Center for Human Genetics Tuebingen
criteria provided, single submitter

(CeGaT Center For Human Genetics Tuebingen Variant Classification Criteria Version 2)
Likely benign
(Dec 1, 2022)
germlineclinical testing

Citation Link

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyes1not providednot providednot providednot providedclinical testing
not providedgermlinenot providednot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]
PMID:
25741868
PMCID:
PMC4544753

Details of each submission

From Center for Pediatric Genomic Medicine, Children's Mercy Hospital and Clinics, SCV000280701.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)

Description

Converted during submission to Uncertain significance.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlinenot providednot providednot providednot providednot provided0.000561not providednot provided

From GeneDx, SCV001788441.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testingnot provided
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyesnot providednot providednot providednot providednot providednot providednot provided

From CeGaT Center for Human Genetics Tuebingen, SCV004147891.9

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedclinical testingnot provided

Description

ENSG00000279080: BS2; PLA2G6: BS2

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyesnot providednot providednot provided1not providednot providednot provided

Last Updated: Oct 20, 2024