NM_020822.3(KCNT1):c.299G>A (p.Arg100Gln) AND not provided

Clinical significance:Conflicting interpretations of pathogenicity, Likely benign(1);Uncertain significance(1) (Last evaluated: Mar 14, 2017)

Review status:1 star out of maximum of 4 stars

criteria provided, conflicting interpretations

Based on:
2 submissions [Details]
Record status:
current
Accession:
RCV000177321.2

Allele description [Variation Report for NM_020822.3(KCNT1):c.299G>A (p.Arg100Gln)]

NM_020822.3(KCNT1):c.299G>A (p.Arg100Gln)

Gene:
KCNT1:potassium sodium-activated channel subfamily T member 1 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
9q34.3
Genomic location:
Preferred name:
NM_020822.3(KCNT1):c.299G>A (p.Arg100Gln)
HGVS:
  • NC_000009.12:g.135750142G>A
  • NG_033070.1:g.52958G>A
  • NM_001272003.2:c.155G>A
  • NM_020822.3:c.299G>AMANE SELECT
  • NP_001258932.1:p.Arg52Gln
  • NP_065873.2:p.Arg100Gln
  • NC_000009.11:g.138641988G>A
  • NM_020822.2:c.299G>A
Protein change:
R100Q
Links:
dbSNP: rs752032951
NCBI 1000 Genomes Browser:
rs752032951
Molecular consequence:
  • NM_001272003.2:c.155G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_020822.3:c.299G>A - missense variant - [Sequence Ontology: SO:0001583]
Observations:
1

Condition(s)

Identifiers:
MedGen: CN517202

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000229168EGL Genetic Diagnostics, Eurofins Clinical Diagnosticscriteria provided, single submitter
Uncertain significance
(Apr 23, 2015)
germlineclinical testing

Citation Link,

SCV000983824GeneDxcriteria provided, single submitter
Likely benign
(Mar 14, 2017)
germlineclinical testing

Citation Link

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineunknown1not providednot providednot providednot providedclinical testing
not providedgermlineyesnot providednot providednot providednot providednot providedclinical testing

Details of each submission

From EGL Genetic Diagnostics, Eurofins Clinical Diagnostics, SCV000229168.5

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedclinical testingnot provided
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot provided1not providednot providednot provided

From GeneDx, SCV000983824.1

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

Description

This variant is considered likely benign or benign based on one or more of the following criteria: it is a conservative change, it occurs at a poorly conserved position in the protein, it is predicted to be benign by multiple in silico algorithms, and/or has population frequency not consistent with disease.

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

Last Updated: Feb 27, 2021

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