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NM_001001344.3(ATP2B3):c.3594G>T (p.Lys1198Asn) AND X-linked progressive cerebellar ataxia

Germline classification:
Likely pathogenic (1 submission)
Last evaluated:
Nov 25, 2019
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:
RCV001329442.3

Allele description [Variation Report for NM_001001344.3(ATP2B3):c.3594G>T (p.Lys1198Asn)]

NM_001001344.3(ATP2B3):c.3594G>T (p.Lys1198Asn)

Gene:
ATP2B3:ATPase plasma membrane Ca2+ transporting 3 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
Xq28
Genomic location:
Preferred name:
NM_001001344.3(ATP2B3):c.3594G>T (p.Lys1198Asn)
HGVS:
  • NC_000023.11:g.153580229G>T
  • NG_015896.1:g.49108G>T
  • NM_001001344.3:c.3594G>TMANE SELECT
  • NM_001388360.1:c.*226G>T
  • NM_001388361.1:c.3594G>T
  • NM_021949.4:c.*226G>T
  • NP_001001344.1:p.Lys1198Asn
  • NP_001001344.1:p.Lys1198Asn
  • NP_001375290.1:p.Lys1198Asn
  • NC_000023.10:g.152845687G>T
  • NM_001001344.2:c.3594G>T
Protein change:
K1198N
Links:
dbSNP: rs782596945
NCBI 1000 Genomes Browser:
rs782596945
Molecular consequence:
  • NM_001388360.1:c.*226G>T - 3 prime UTR variant - [Sequence Ontology: SO:0001624]
  • NM_021949.4:c.*226G>T - 3 prime UTR variant - [Sequence Ontology: SO:0001624]
  • NM_001001344.3:c.3594G>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001388361.1:c.3594G>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
X-linked progressive cerebellar ataxia
Synonyms:
OLIVOPONTOCEREBELLAR ATROPHY, X-LINKED; OPCA, X-LINKED; Spinocerebellar ataxia, X-linked 1
Identifiers:
MONDO: MONDO:0010547; MedGen: C0796205; Orphanet: 1175; OMIM: 302500

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV001520885Baylor Genetics
criteria provided, single submitter

(ACMG Guidelines, 2015)		Likely pathogenic
(Nov 25, 2019) 		unknownclinical testing

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

Help

Summary from all submissions

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

Citations

PubMed

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee.

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]
PMID:
25741868
PMCID:
PMC4544753

Details of each submission

From Baylor Genetics, SCV001520885.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)

Description

This variant was determined to be likely pathogenic according to ACMG Guidelines, 2015 [PMID:25741868].

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

Last Updated: Oct 8, 2024