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NM_001048174.2(MUTYH):c.1192C>T (p.Arg398Cys) AND not provided

Germline classification:
Conflicting interpretations of pathogenicity (5 submissions)
Last evaluated:
Sep 9, 2022
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:
RCV000034670.29

Allele description [Variation Report for NM_001048174.2(MUTYH):c.1192C>T (p.Arg398Cys)]

NM_001048174.2(MUTYH):c.1192C>T (p.Arg398Cys)

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.1192C>T (p.Arg398Cys)
Other names:
p.R426C:CGT>TGT
HGVS:
  • NC_000001.11:g.45331467G>A
  • NG_008189.1:g.14004C>T
  • NM_001048171.2:c.1192C>T
  • NM_001048172.2:c.1195C>T
  • NM_001048173.2:c.1192C>T
  • NM_001048174.2:c.1192C>TMANE SELECT
  • NM_001128425.2:c.1276C>T
  • NM_001293190.2:c.1237C>T
  • NM_001293191.2:c.1225C>T
  • NM_001293192.2:c.916C>T
  • NM_001293195.2:c.1192C>T
  • NM_001293196.2:c.916C>T
  • NM_001350650.2:c.847C>T
  • NM_001350651.2:c.847C>T
  • NM_012222.3:c.1267C>T
  • NP_001041636.1:p.Arg412Cys
  • NP_001041636.2:p.Arg398Cys
  • NP_001041637.1:p.Arg399Cys
  • NP_001041638.1:p.Arg398Cys
  • NP_001041639.1:p.Arg398Cys
  • NP_001121897.1:p.Arg426Cys
  • NP_001121897.1:p.Arg426Cys
  • NP_001280119.1:p.Arg413Cys
  • NP_001280120.1:p.Arg409Cys
  • NP_001280121.1:p.Arg306Cys
  • NP_001280124.1:p.Arg398Cys
  • NP_001280125.1:p.Arg306Cys
  • NP_001337579.1:p.Arg283Cys
  • NP_001337580.1:p.Arg283Cys
  • NP_036354.1:p.Arg423Cys
  • NP_036354.1:p.Arg423Cys
  • LRG_220t1:c.1276C>T
  • LRG_220:g.14004C>T
  • LRG_220p1:p.Arg426Cys
  • NC_000001.10:g.45797139G>A
  • NM_001048171.1:c.1234C>T
  • NM_001048174.1:c.1192C>T
  • NM_001048174.2:c.1192C>T
  • NM_001128425.1:c.1276C>T
  • NM_012222.2:c.1267C>T
  • NR_146882.2:n.1420C>T
  • NR_146883.2:n.1269C>T
  • p.R426C
Protein change:
R283C
Links:
dbSNP: rs150792276
NCBI 1000 Genomes Browser:
rs150792276
Molecular consequence:
  • NM_001048171.2:c.1192C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001048172.2:c.1195C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001048173.2:c.1192C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001048174.2:c.1192C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001128425.2:c.1276C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293190.2:c.1237C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293191.2:c.1225C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293192.2:c.916C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293195.2:c.1192C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293196.2:c.916C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001350650.2:c.847C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001350651.2:c.847C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_012222.3:c.1267C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NR_146882.2:n.1420C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
  • NR_146883.2:n.1269C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]

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
SCV000043368Biesecker Lab/Clinical Genomics Section, National Institutes of Health - ClinSeq
no assertion criteria provided
variant of unknown significance
(Jul 13, 2012)
germlineresearch

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

SCV000149665GeneDx
criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)
Likely benign
(Jun 10, 2021)
germlineclinical testing

Citation Link,

SCV000601632Quest Diagnostics Nichols Institute San Juan Capistrano
criteria provided, single submitter

(Quest Diagnostics criteria)
Uncertain significance
(Sep 9, 2022)
unknownclinical testing

PubMed (31)
[See all records that cite these PMIDs]

SCV002011069Institute for Clinical Genetics, University Hospital TU Dresden, University Hospital TU Dresden
criteria provided, single submitter

(ACMG Guidelines, 2015)
Uncertain significance
(Nov 3, 2021)
germlineclinical testing

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

SCV002542097Mayo Clinic Laboratories, Mayo Clinic
criteria provided, single submitter

(ACMG Guidelines, 2015)
Uncertain significance
(Jun 7, 2021)
germlineclinical testing

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

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlinenot providednot providednot providednot providednot providednot providedclinical testing
not providedunknownunknownnot providednot providednot providednot providednot providedclinical testing
not providedgermlineno1not providednot provided545not providedresearch
not providedgermlineyesnot providednot providednot providednot providednot providedclinical testing
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Molecular analysis of the APC and MUTYH genes in Galician and Catalonian FAP families: a different spectrum of mutations?

Gómez-Fernández N, Castellví-Bel S, Fernández-Rozadilla C, Balaguer F, Muñoz J, Madrigal I, Milà M, Graña B, Vega A, Castells A, Carracedo A, Ruiz-Ponte C.

BMC Med Genet. 2009 Jun 16;10:57. doi: 10.1186/1471-2350-10-57.

PubMed [citation]
PMID:
19531215
PMCID:
PMC2702373

Prevalence and characteristics of MUTYH-associated polyposis in patients with multiple adenomatous and serrated polyps.

Guarinos C, Juárez M, Egoavil C, Rodríguez-Soler M, Pérez-Carbonell L, Salas R, Cubiella J, Rodríguez-Moranta F, de-Castro L, Bujanda L, Serradesanferm A, Nicolás-Pérez D, Herráiz M, Fernández-Bañares F, Herreros-de-Tejada A, Aguirre E, Balmaña J, Rincón ML, Pizarro A, Polo-Ortiz F, Castillejo A, Alenda C, et al.

Clin Cancer Res. 2014 Mar 1;20(5):1158-68. doi: 10.1158/1078-0432.CCR-13-1490. Epub 2014 Jan 27.

PubMed [citation]
PMID:
24470512
See all PubMed Citations (32)

Details of each submission

From Biesecker Lab/Clinical Genomics Section, National Institutes of Health - ClinSeq, SCV000043368.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedresearch PubMed (1)

Description

The study set was not selected for affection status in relation to any cancer. Pathogenicity categories were based on literature curation. See PubMed ID:22703879 for details.

Description

Converted during submission to Uncertain significance.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineno545not provideddiscovery1not providednot providednot provided

From GeneDx, SCV000149665.15

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

Description

This variant is associated with the following publications: (PMID: 16134147, 25980754, 30564557, 22703879, 24470512, 16557584, 19531215, 14991577, 22976915, 25820570, 20687945, 21777424, 17524638, 25569433, 27829682, 26976419, 25862857, 27621404, 27498913, 26898890, 16616356, 28944238, 31159747, 33383211, 23108399)

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

From Quest Diagnostics Nichols Institute San Juan Capistrano, SCV000601632.5

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (31)

Description

The frequency of this variant in the general population, 0.0022 (26/11602 chromosomes, http://gnomad.broadinstitute.org), is uninformative in assessment of its pathogenicity. In the published literature, this variant has been identified in multiple individuals and families affected with various cancers including colorectal cancer (PMID: 28944238 (2017), 30256826 (2018), 30850667 (2019)), colorectal polyposis (PMID: 24470512 (2014), 25980754 (2015), 27829682 (2016)), breast and/or ovarian cancer (PMID: 30564557 (2018), 31159747 (2019), 31921681 (2019)), endometrial cancer (PMID: 27443514 (2016)), pancreatic cancer (PMID: 30151275 (2018)), and lung cancer (PMID: 14991577 (2004)). It has also been found in unaffected individuals (PMID: 16616356 (2006)). An in vitro functional study reports this variant does not have a significant effect MUTYH protein activity, however, this variant’s effect on MUTYH glycosylase activity was not assessed (PMID: 25820570 (2015)). 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 Institute for Clinical Genetics, University Hospital TU Dresden, University Hospital TU Dresden, SCV002011069.3

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlinenot providednot providednot providednot providednot providednot providednot providednot provided

From Mayo Clinic Laboratories, Mayo Clinic, SCV002542097.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Nov 3, 2024