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NM_005670.4(EPM2A):c.644A>T (p.Asp215Val) AND not provided

Germline classification:
Uncertain significance (4 submissions)
Last evaluated:
Nov 1, 2022
Review status:
2 stars out of maximum of 4 stars
criteria provided, multiple submitters, no conflicts
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:
RCV000726261.24

Allele description [Variation Report for NM_005670.4(EPM2A):c.644A>T (p.Asp215Val)]

NM_005670.4(EPM2A):c.644A>T (p.Asp215Val)

Gene:
EPM2A:EPM2A glucan phosphatase, laforin [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
6q24.3
Genomic location:
Preferred name:
NM_005670.4(EPM2A):c.644A>T (p.Asp215Val)
Other names:
p.D215V:GAC>GTC
HGVS:
  • NC_000006.12:g.145635319T>A
  • NG_012832.2:g.105537A>T
  • NM_001018041.2:c.644A>T
  • NM_001360057.2:c.477-7626A>T
  • NM_001360064.2:c.230A>T
  • NM_001360071.2:c.230A>T
  • NM_001368129.2:c.182A>T
  • NM_001368130.1:c.644A>T
  • NM_001368131.1:c.230A>T
  • NM_001368132.1:c.182A>T
  • NM_005670.4:c.644A>TMANE SELECT
  • NP_001018051.1:p.Asp215Val
  • NP_001346993.1:p.Asp77Val
  • NP_001347000.1:p.Asp77Val
  • NP_001355058.1:p.Asp61Val
  • NP_001355059.1:p.Asp215Val
  • NP_001355060.1:p.Asp77Val
  • NP_001355061.1:p.Asp61Val
  • NP_005661.1:p.Asp215Val
  • NC_000006.11:g.145956455T>A
  • NG_012832.1:g.105537A>T
  • NM_005670.3:c.644A>T
Protein change:
D215V
Links:
dbSNP: rs144565191
NCBI 1000 Genomes Browser:
rs144565191
Molecular consequence:
  • NM_001360057.2:c.477-7626A>T - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001018041.2:c.644A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001360064.2:c.230A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001360071.2:c.230A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001368129.2:c.182A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001368130.1:c.644A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001368131.1:c.230A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001368132.1:c.182A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_005670.4:c.644A>T - missense variant - [Sequence Ontology: SO:0001583]
Observations:
2

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
SCV000240976GeneDx
criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)
Uncertain significance
(Jun 23, 2022)
germlineclinical testing

Citation Link,

SCV000343249Eurofins Ntd Llc (ga)
criteria provided, single submitter

(EGL Classification Definitions 2015)
Uncertain significance
(Jul 19, 2016)
germlineclinical testing

Citation Link,

SCV001143866Athena Diagnostics
criteria provided, single submitter

(Athena Diagnostics Criteria)
Uncertain significance
(Sep 30, 2018)
germlineclinical testing

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

SCV002821772CeGaT Center for Human Genetics Tuebingen
criteria provided, single submitter

(CeGaT Center For Human Genetics Tuebingen Variant Classification Criteria Version 2)
Uncertain significance
(Nov 1, 2022)
germlineclinical testing

Citation Link

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyes1not providednot providednot providednot providedclinical testing
not providedgermlineunknown1not providednot providednot providednot providedclinical testing

Citations

PubMed

A Standardized DNA Variant Scoring System for Pathogenicity Assessments in Mendelian Disorders.

Karbassi I, Maston GA, Love A, DiVincenzo C, Braastad CD, Elzinga CD, Bright AR, Previte D, Zhang K, Rowland CM, McCarthy M, Lapierre JL, Dubois F, Medeiros KA, Batish SD, Jones J, Liaquat K, Hoffman CA, Jaremko M, Wang Z, Sun W, Buller-Burckle A, et al.

Hum Mutat. 2016 Jan;37(1):127-34. doi: 10.1002/humu.22918. Epub 2015 Oct 29.

PubMed [citation]
PMID:
26467025
PMCID:
PMC4737317

Details of each submission

From GeneDx, SCV000240976.15

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

Description

In silico analysis supports that this missense variant does not alter 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

From Eurofins Ntd Llc (ga), SCV000343249.4

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

From Athena Diagnostics, SCV001143866.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

From CeGaT Center for Human Genetics Tuebingen, SCV002821772.14

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedclinical testingnot provided

Description

EPM2A: PM2, BP4

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

Last Updated: Oct 20, 2024