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NM_000152.5(GAA):c.-2C>T AND Cardiovascular phenotype

Germline classification:
Benign (1 submission)
Last evaluated:
Apr 25, 2024
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:
RCV004619240.1

Allele description [Variation Report for NM_000152.5(GAA):c.-2C>T]

NM_000152.5(GAA):c.-2C>T

Gene:
GAA:alpha glucosidase [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
17q25.3
Genomic location:
Preferred name:
NM_000152.5(GAA):c.-2C>T
HGVS:
  • NC_000017.11:g.80104585C>T
  • NG_009822.1:g.8030C>T
  • NM_000152.5:c.-2C>TMANE SELECT
  • NM_001079803.3:c.-2C>T
  • NM_001079804.3:c.-2C>T
  • NM_001406741.1:c.-2C>T
  • NM_001406742.1:c.-2C>T
  • LRG_673t1:c.-2C>T
  • LRG_673:g.8030C>T
  • NC_000017.10:g.78078384C>T
  • NM_000152.3:c.-2C>T
  • NM_000152.4:c.-2C>T
Links:
dbSNP: rs560511228
NCBI 1000 Genomes Browser:
rs560511228
Molecular consequence:
  • NM_000152.5:c.-2C>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001079803.3:c.-2C>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001079804.3:c.-2C>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001406741.1:c.-2C>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001406742.1:c.-2C>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]

Condition(s)

Name:
Cardiovascular phenotype
Identifiers:
MedGen: CN230736

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Assertion and evidence details

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Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV005118091Ambry Genetics
criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)		Benign
(Apr 25, 2024) 		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 Ambry Genetics, SCV005118091.1

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

Description

This alteration is classified as benign based on a combination of the following: seen in unaffected individuals, population frequency, intact protein function, lack of segregation with disease, co-occurrence, RNA analysis, in silico models, amino acid conservation, lack of disease association in case-control studies, and/or the mechanism of disease or impacted region is inconsistent with a known cause of pathogenicity.

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

Last Updated: Oct 13, 2024