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NM_000534.5(PMS1):c.175G>A (p.Glu59Lys) AND PMS1-related disorder

Germline classification:
Benign (1 submission)
Last evaluated:
Sep 29, 2020
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
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:
RCV003955790.2

Allele description [Variation Report for NM_000534.5(PMS1):c.175G>A (p.Glu59Lys)]

NM_000534.5(PMS1):c.175G>A (p.Glu59Lys)

Gene:
PMS1:PMS1 homolog 1, mismatch repair system component [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
2q32.2
Genomic location:
Preferred name:
NM_000534.5(PMS1):c.175G>A (p.Glu59Lys)
HGVS:
  • NC_000002.12:g.189795811G>A
  • NG_008648.1:g.16727G>A
  • NM_000534.5:c.175G>AMANE SELECT
  • NM_001128143.2:c.175G>A
  • NM_001128144.2:c.175G>A
  • NM_001289408.2:c.-251G>A
  • NM_001289409.2:c.-111+3870G>A
  • NM_001321044.2:c.175G>A
  • NM_001321045.2:c.175G>A
  • NM_001321046.2:c.132+3870G>A
  • NM_001321047.2:c.175G>A
  • NM_001321048.1:c.175G>A
  • NM_001321048.2:c.175G>A
  • NM_001321049.2:c.175G>A
  • NM_001321051.2:c.175G>A
  • NP_000525.1:p.Glu59Lys
  • NP_001121615.1:p.Glu59Lys
  • NP_001121616.1:p.Glu59Lys
  • NP_001307973.1:p.Glu59Lys
  • NP_001307974.1:p.Glu59Lys
  • NP_001307976.1:p.Glu59Lys
  • NP_001307977.1:p.Glu59Lys
  • NP_001307978.1:p.Glu59Lys
  • NP_001307980.1:p.Glu59Lys
  • LRG_221t1:c.175G>A
  • LRG_221:g.16727G>A
  • NC_000002.11:g.190660537G>A
  • NM_000534.4:c.175G>A
  • NR_110332.2:n.436G>A
Protein change:
E59K
Links:
dbSNP: rs143265397
NCBI 1000 Genomes Browser:
rs143265397
Molecular consequence:
  • NM_001289408.2:c.-251G>A - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001289409.2:c.-111+3870G>A - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001321046.2:c.132+3870G>A - intron variant - [Sequence Ontology: SO:0001627]
  • NM_000534.5:c.175G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001128143.2:c.175G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001128144.2:c.175G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001321044.2:c.175G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001321045.2:c.175G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001321047.2:c.175G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001321048.2:c.175G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001321049.2:c.175G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001321051.2:c.175G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NR_110332.2:n.436G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Name:
PMS1-related disorder
Synonyms:
PMS1-related condition
Identifiers:

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV004774397PreventionGenetics, part of Exact Sciences
no assertion criteria provided
Benign
(Sep 29, 2020) 		germlineclinical testing

Help

Summary from all submissions

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

Details of each submission

From PreventionGenetics, part of Exact Sciences, SCV004774397.2

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

Description

This variant is classified as benign based on ACMG/AMP sequence variant interpretation guidelines (Richards et al. 2015 PMID: 25741868, with internal and published modifications).

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

Last Updated: Oct 13, 2024