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NM_000314.6(PTEN):c.-943C>T AND not specified

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Apr 17, 2020
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:
RCV001175018.10

Allele description [Variation Report for NM_000314.6(PTEN):c.-943C>T]

NM_000314.6(PTEN):c.-943C>T

Genes:
PTEN:phosphatase and tensin homolog [Gene - OMIM - HGNC]
LOC130004273:ATAC-STARR-seq lymphoblastoid silent region 2585 [Gene]
KLLN:killin, p53 regulated DNA replication inhibitor [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
10q23.31
Genomic location:
Preferred name:
NM_000314.6(PTEN):c.-943C>T
Other names:
NM_000314.4(PTEN):c.-943C>T
HGVS:
  • NC_000010.11:g.87863526C>T
  • NG_007466.2:g.5089C>T
  • NG_033079.1:g.4912G>A
  • NG_183718.1:g.247C>T
  • NM_000314.6:c.-943C>T
  • NM_001126049.2:c.-1039G>AMANE SELECT
  • NM_001304717.4:c.-424C>T
  • NM_001304718.1:c.-1648C>T
  • LRG_1087t1:c.-1039G>A
  • LRG_311t1:c.-943C>T
  • LRG_1087:g.4912G>A
  • LRG_311:g.5089C>T
  • NC_000010.10:g.89623283C>T
  • NM_000314.4:c.-943C>T
  • c.-944C>T[hg19]
Links:
dbSNP: rs587779999
NCBI 1000 Genomes Browser:
rs587779999
Molecular consequence:
  • NM_001126049.2:c.-1039G>A - 5 prime UTR variant - [Sequence Ontology: SO:0001623]

Condition(s)

Synonyms:
AllHighlyPenetrant
Identifiers:
MedGen: CN169374

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Assertion and evidence details

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Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV001338534Women's Health and Genetics/Laboratory Corporation of America, LabCorp
criteria provided, single submitter

(LabCorp Variant Classification Summary - May 2015)		Uncertain significance
(Apr 17, 2020) 		germlineclinical testing

Citation Link

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Summary from all submissions

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

Details of each submission

From Women's Health and Genetics/Laboratory Corporation of America, LabCorp, SCV001338534.1

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

Description

Variant summary: PTEN c.-944C>T (alternatively name c.-943C>T) is located in the untranslated mRNA region upstream of the initiation codon. The variant allele was found at a frequency of 3.2e-05 in 31296 control chromosomes. The available data on variant occurrences in the general population are insufficient to allow any conclusion about variant significance. To our knowledge, no occurrence of c.-944C>T in individuals affected with Cowden Syndrome and no experimental evidence demonstrating its impact on protein function have been reported. Two clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar after 2014 without evidence for independent evaluation. All laboratories classified the variant as uncertain significance. Based on the evidence outlined above, the variant was classified as uncertain significance.

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

Last Updated: Oct 26, 2024