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NM_001048174.2(MUTYH):c.1400G>A (p.Arg467His) AND not provided

Germline classification:
Conflicting interpretations of pathogenicity (3 submissions)
Last evaluated:
Oct 1, 2023
Review status:
criteria provided, conflicting classifications
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:
RCV000656913.16

Allele description [Variation Report for NM_001048174.2(MUTYH):c.1400G>A (p.Arg467His)]

NM_001048174.2(MUTYH):c.1400G>A (p.Arg467His)

Gene:
MUTYH:mutY DNA glycosylase [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
1p34.1
Genomic location:
Preferred name:
NM_001048174.2(MUTYH):c.1400G>A (p.Arg467His)
HGVS:
  • NC_000001.11:g.45330550C>T
  • NG_008189.1:g.14921G>A
  • NM_001048171.2:c.1400G>A
  • NM_001048172.2:c.1403G>A
  • NM_001048173.2:c.1400G>A
  • NM_001048174.2:c.1400G>AMANE SELECT
  • NM_001128425.2:c.1484G>A
  • NM_001293190.2:c.1445G>A
  • NM_001293191.2:c.1433G>A
  • NM_001293192.2:c.1124G>A
  • NM_001293195.2:c.1400G>A
  • NM_001293196.2:c.1124G>A
  • NM_001350650.2:c.1055G>A
  • NM_001350651.2:c.1055G>A
  • NM_012222.3:c.1475G>A
  • NP_001041636.1:p.Arg481His
  • NP_001041636.2:p.Arg467His
  • NP_001041637.1:p.Arg468His
  • NP_001041638.1:p.Arg467His
  • NP_001041639.1:p.Arg467His
  • NP_001121897.1:p.Arg495His
  • NP_001121897.1:p.Arg495His
  • NP_001280119.1:p.Arg482His
  • NP_001280120.1:p.Arg478His
  • NP_001280121.1:p.Arg375His
  • NP_001280124.1:p.Arg467His
  • NP_001280125.1:p.Arg375His
  • NP_001337579.1:p.Arg352His
  • NP_001337580.1:p.Arg352His
  • NP_036354.1:p.Arg492His
  • LRG_220t1:c.1484G>A
  • LRG_220:g.14921G>A
  • LRG_220p1:p.Arg495His
  • NC_000001.10:g.45796222C>T
  • NM_001048171.1:c.1442G>A
  • NM_001128425.1:c.1484G>A
  • NR_146882.2:n.1628G>A
  • NR_146883.2:n.1477G>A
  • p.R495H
Protein change:
R352H
Links:
dbSNP: rs144111588
NCBI 1000 Genomes Browser:
rs144111588
Molecular consequence:
  • NM_001048171.2:c.1400G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001048172.2:c.1403G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001048173.2:c.1400G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001048174.2:c.1400G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001128425.2:c.1484G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293190.2:c.1445G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293191.2:c.1433G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293192.2:c.1124G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293195.2:c.1400G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293196.2:c.1124G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001350650.2:c.1055G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001350651.2:c.1055G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_012222.3:c.1475G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NR_146882.2:n.1628G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]
  • NR_146883.2:n.1477G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]
Observations:
1

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000292631GeneDx
criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)
Uncertain significance
(Nov 17, 2022)
germlineclinical testing

Citation Link,

SCV000889523Quest Diagnostics Nichols Institute San Juan Capistrano
criteria provided, single submitter

(Quest Diagnostics criteria)
Uncertain significance
(Aug 21, 2023)
unknownclinical testing

PubMed (6)
[See all records that cite these PMIDs]

SCV004123768CeGaT Center for Human Genetics Tuebingen
criteria provided, single submitter

(CeGaT Center For Human Genetics Tuebingen Variant Classification Criteria Version 2)
Likely benign
(Oct 1, 2023)
germlineclinical testing

Citation Link

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyes1not providednot providednot providednot providedclinical testing
not providedunknownunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Unexpected cancer-predisposition gene variants in Cowden syndrome and Bannayan-Riley-Ruvalcaba syndrome patients without underlying germline PTEN mutations.

Yehia L, Ni Y, Sesock K, Niazi F, Fletcher B, Chen HJL, LaFramboise T, Eng C.

PLoS Genet. 2018 Apr;14(4):e1007352. doi: 10.1371/journal.pgen.1007352.

PubMed [citation]
PMID:
29684080
PMCID:
PMC5933810

Germline multi-gene hereditary cancer panel testing in an unselected endometrial cancer cohort.

Ring KL, Bruegl AS, Allen BA, Elkin EP, Singh N, Hartman AR, Daniels MS, Broaddus RR.

Mod Pathol. 2016 Nov;29(11):1381-1389. doi: 10.1038/modpathol.2016.135. Epub 2016 Jul 22.

PubMed [citation]
PMID:
27443514
PMCID:
PMC5541389
See all PubMed Citations (6)

Details of each submission

From GeneDx, SCV000292631.12

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

Description

Not observed at significant frequency in large population cohorts (gnomAD); In silico analysis supports that this missense variant does not alter protein structure/function; Observed in individuals with endometrial cancer (Ring et al., 2016); This variant is associated with the following publications: (PMID: 25188385, 26694661, 28577310, 27443514, 23108399)

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

From Quest Diagnostics Nichols Institute San Juan Capistrano, SCV000889523.3

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (6)

Description

In the published literature, this variant has been reported in individuals with endometrial cancer (PMID: 27443514 (2016)), melanoma (PMID: 29684080 (2018)), and breast cancer (PMID: 33471991 (2021), see also LOVD (https://databases.lovd.nl/shared/variants/MUTYH)). This variant was also reported in unaffected individuals (PMID: 33471991 (2021), see also LOVD (https://databases.lovd.nl/shared/variants/MUTYH)). The frequency of this variant in the general population, 0.000032 (4/123842 chromosomes (Genome Aggregation Database, http://gnomad.broadinstitute.org)), is uninformative in the assessment of its pathogenicity. Analysis of this variant using bioinformatics tools for the prediction of the effect of amino acid changes on protein structure and function yielded predictions that this variant is benign. Based on the available information, we are unable to determine the clinical significance of this variant.

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

From CeGaT Center for Human Genetics Tuebingen, SCV004123768.7

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedclinical testingnot provided

Description

MUTYH: BP4, BS3:Supporting

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyesnot providednot providednot provided1not providednot providednot provided

Last Updated: Jul 15, 2024