NM_000169.3(GLA):c.604T>C (p.Cys202Arg) AND not specified

delete

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Feb 21, 2018
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:: RCV000781419.2

Allele description

NM_000169.3(GLA):c.604T>C (p.Cys202Arg)

Genes:

RPL36A-HNRNPH2:RPL36A-HNRNPH2 readthrough [Gene - HGNC]
GLA:galactosidase alpha [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

Xq22.1

Genomic location:

Preferred name:

NM_000169.3(GLA):c.604T>C (p.Cys202Arg)

HGVS:

NC_000023.11:g.101400701A>G
NG_007119.1:g.12263T>C
NM_000169.3:c.604T>CMANE SELECT
NM_001199973.2:c.300+5244A>G
NM_001199974.2:c.177+8879A>G
NM_001406747.1:c.727T>C
NM_001406748.1:c.604T>C
NP_000160.1:p.Cys202Arg
NP_000160.1:p.Cys202Arg
NP_001393676.1:p.Cys243Arg
NP_001393677.1:p.Cys202Arg
LRG_672t1:c.604T>C
LRG_672:g.12263T>C
LRG_672p1:p.Cys202Arg
NC_000023.10:g.100655689A>G
NM_000169.2:c.604T>C
NR_164783.1:n.626T>C
NR_176253.1:n.741T>C

Protein change:

C202R

Links:

dbSNP: rs1569303843

NCBI 1000 Genomes Browser:

rs1569303843

Molecular consequence:

NM_001199973.2:c.300+5244A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_001199974.2:c.177+8879A>G - intron variant - [Sequence Ontology: SO:0001627]
NM_000169.3:c.604T>C - missense variant - [Sequence Ontology: SO:0001583]
NM_001406747.1:c.727T>C - missense variant - [Sequence Ontology: SO:0001583]
NM_001406748.1:c.604T>C - missense variant - [Sequence Ontology: SO:0001583]
NR_164783.1:n.626T>C - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NR_176253.1:n.741T>C - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Synonyms:: AllHighlyPenetrant
Identifiers:: MedGen: CN169374

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000919437	Women's Health and Genetics/Laboratory Corporation of America, LabCorp	criteria provided, single submitter (LabCorp Variant Classification Summary - May 2015)	Uncertain significance (Feb 21, 2018)	germline	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV000919437

Women's Health and Genetics/Laboratory Corporation of America, LabCorp

criteria provided, single submitter

(LabCorp Variant Classification Summary - May 2015)

Uncertain significance
(Feb 21, 2018)

germline

clinical testing

Citation Link

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

Details of each submission

From Women's Health and Genetics/Laboratory Corporation of America, LabCorp, SCV000919437.1

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

Description

Variant summary: GLA c.604T>C (p.Cys202Arg) results in a non-conservative amino acid change in the encoded protein sequence. Five of five in-silico tools predict a damaging effect of the variant on protein function. The variant was absent in 177108 control chromosomes (gnomAD). 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.604T>C in individuals affected with Fabry Disease and no experimental evidence demonstrating its impact on protein function have been reported. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar after 2014. Based on the evidence outlined above, the variant was classified as uncertain significance.

#	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 1, 2024

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