NM_000152.5(GAA):c.2040+18G>A AND Glycogen storage disease, type II

Germline classification:: Likely benign (1 submission)
Last evaluated:: May 19, 2023
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:: RCV003836683.2

Allele description [Variation Report for NM_000152.5(GAA):c.2040+18G>A]

NM_000152.5(GAA):c.2040+18G>A

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.2040+18G>A

HGVS:

NC_000017.11:g.80113045G>A
NG_009822.1:g.16490G>A
NG_137936.1:g.330G>A
NM_000152.5:c.2040+18G>AMANE SELECT
NM_001079803.3:c.2040+18G>A
NM_001079804.3:c.2040+18G>A
NM_001406741.1:c.2040+18G>A
NM_001406742.1:c.2040+18G>A
LRG_673:g.16490G>A
NC_000017.10:g.78086844G>A

Molecular consequence:

NM_000152.5:c.2040+18G>A - intron variant - [Sequence Ontology: SO:0001627]
NM_001079803.3:c.2040+18G>A - intron variant - [Sequence Ontology: SO:0001627]
NM_001079804.3:c.2040+18G>A - intron variant - [Sequence Ontology: SO:0001627]
NM_001406741.1:c.2040+18G>A - intron variant - [Sequence Ontology: SO:0001627]
NM_001406742.1:c.2040+18G>A - intron variant - [Sequence Ontology: SO:0001627]

Condition(s)

Name:: Glycogen storage disease, type II (GSD2)
Synonyms:: ACID ALPHA-GLUCOSIDASE DEFICIENCY; GLYCOGENOSIS, GENERALIZED, CARDIAC FORM; GSD II; See all synonyms [MedGen]
Identifiers:: MONDO: MONDO:0009290; MedGen: C0017921; Orphanet: 365; OMIM: 232300

Recent activity

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MULTISPECIES: esterase/lipase family protein [unclassified Acinetobacter]
MULTISPECIES: esterase/lipase family protein [unclassified Acinetobacter]
gi|2800150995|ref|WP_373683922.1|

Protein
MULTISPECIES: SPOR domain-containing protein [unclassified Acinetobacter]
MULTISPECIES: SPOR domain-containing protein [unclassified Acinetobacter]
gi|2800151011|ref|WP_373683938.1|

Protein
Context and introduction - Thinking ahead about medical treatments in advanced i...
Context and introduction - Thinking ahead about medical treatments in advanced illness: a qualitative study of barriers and enablers in end-of-life care planning with patients and families from ethnically diverse backgrounds
T-cell surface glycoprotein CD4, partial [Cercopithecus nictitans]
T-cell surface glycoprotein CD4, partial [Cercopithecus nictitans]
gi|2008240310|gb|QTD30349.1|

Protein
Arrhenechthites novoguineensis voucher Hoogland & Schodde 7654 18S ribosomal RNA...
Arrhenechthites novoguineensis voucher Hoogland & Schodde 7654 18S ribosomal RNA gene, partial sequence; internal transcribed spacer 1, 5.8S ribosomal RNA gene, and internal transcribed spacer 2, complete sequence; and 25S ribosomal RNA gene, partial sequence
gi|21425802|gb|AF459972.1|

Nucleotide

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV004637387	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Likely benign (May 19, 2023)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV004637387

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Likely benign
(May 19, 2023)

germline

clinical testing

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

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing

Citations

PubMed

Sherloc: a comprehensive refinement of the ACMG-AMP variant classification criteria.

Nykamp K, Anderson M, Powers M, Garcia J, Herrera B, Ho YY, Kobayashi Y, Patil N, Thusberg J, Westbrook M; Invitae Clinical Genomics Group., Topper S.

Genet Med. 2017 Oct;19(10):1105-1117. doi: 10.1038/gim.2017.37. Epub 2017 May 11. Erratum in: Genet Med. 2020 Jan;22(1):240. doi: 10.1038/s41436-019-0624-9.

PubMed [citation]

PMID:: 28492532
PMCID:: PMC5632818

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV004637387.1

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	PubMed (1)

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Sep 29, 2024

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