U.S. flag

An official website of the United States government

NM_000548.5(TSC2):c.1340C>T (p.Ala447Val) AND not provided

Germline classification:
Conflicting interpretations of pathogenicity (3 submissions)
Last evaluated:
Dec 15, 2020
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:
RCV000034644.30

Allele description [Variation Report for NM_000548.5(TSC2):c.1340C>T (p.Ala447Val)]

NM_000548.5(TSC2):c.1340C>T (p.Ala447Val)

Gene:
TSC2:TSC complex subunit 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
16p13.3
Genomic location:
Preferred name:
NM_000548.5(TSC2):c.1340C>T (p.Ala447Val)
HGVS:
  • NC_000016.10:g.2062579C>T
  • NG_005895.1:g.18274C>T
  • NM_000548.5:c.1340C>TMANE SELECT
  • NM_001077183.3:c.1340C>T
  • NM_001114382.3:c.1340C>T
  • NM_001318827.2:c.1229C>T
  • NM_001318829.2:c.1193C>T
  • NM_001318831.2:c.740C>T
  • NM_001318832.2:c.1373C>T
  • NM_001363528.2:c.1340C>T
  • NM_001370404.1:c.1340C>T
  • NM_001370405.1:c.1340C>T
  • NM_021055.3:c.1340C>T
  • NP_000539.2:p.Ala447Val
  • NP_001070651.1:p.Ala447Val
  • NP_001107854.1:p.Ala447Val
  • NP_001305756.1:p.Ala410Val
  • NP_001305758.1:p.Ala398Val
  • NP_001305760.1:p.Ala247Val
  • NP_001305761.1:p.Ala458Val
  • NP_001350457.1:p.Ala447Val
  • NP_001357333.1:p.Ala447Val
  • NP_001357334.1:p.Ala447Val
  • NP_066399.2:p.Ala447Val
  • LRG_487t1:c.1340C>T
  • LRG_487:g.18274C>T
  • NC_000016.9:g.2112580C>T
  • NM_000548.3:c.1340C>T
  • p.(Ala447Val)
Protein change:
A247V
Links:
Tuberous sclerosis database (TSC2): TSC2_00394; dbSNP: rs45486591
NCBI 1000 Genomes Browser:
rs45486591
Molecular consequence:
  • NM_000548.5:c.1340C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001077183.3:c.1340C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001114382.3:c.1340C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001318827.2:c.1229C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001318829.2:c.1193C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001318831.2:c.740C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001318832.2:c.1373C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001363528.2:c.1340C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001370404.1:c.1340C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001370405.1:c.1340C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_021055.3:c.1340C>T - missense variant - [Sequence Ontology: SO:0001583]
Observations:
1

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

Recent activity

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...

Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000043527Biesecker Lab/Clinical Genomics Section, National Institutes of Health - ClinSeq
no assertion criteria provided
variant of unknown significance
(Jul 13, 2012)
germlineresearch

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

SCV000225803Eurofins Ntd Llc (ga)
criteria provided, single submitter

(EGL Classification Definitions 2015)
Uncertain significance
(Apr 13, 2015)
germlineclinical testing

Citation Link,

SCV000518054GeneDx
criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)
Likely benign
(Dec 15, 2020)
germlineclinical testing

Citation Link

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineno1not providednot provided529not providedresearch
not providedgermlineyesnot providednot providednot providednot providednot providedclinical testing
not providedgermlineunknown1not providednot providednot providednot providedclinical testing

Citations

PubMed

Secondary variants in individuals undergoing exome sequencing: screening of 572 individuals identifies high-penetrance mutations in cancer-susceptibility genes.

Johnston JJ, Rubinstein WS, Facio FM, Ng D, Singh LN, Teer JK, Mullikin JC, Biesecker LG.

Am J Hum Genet. 2012 Jul 13;91(1):97-108. doi: 10.1016/j.ajhg.2012.05.021. Epub 2012 Jun 14.

PubMed [citation]
PMID:
22703879
PMCID:
PMC3397257

Details of each submission

From Biesecker Lab/Clinical Genomics Section, National Institutes of Health - ClinSeq, SCV000043527.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedresearch PubMed (1)

Description

The study set was not selected for affection status in relation to any cancer. Pathogenicity categories were based on literature curation. See PubMed ID:22703879 for details.

Description

Converted during submission to Uncertain significance.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineno529not provideddiscovery1not providednot providednot provided

From Eurofins Ntd Llc (ga), SCV000225803.5

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

From GeneDx, SCV000518054.6

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

Description

This variant is associated with the following publications: (PMID: 22703879, 22903760)

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

Last Updated: May 1, 2024