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NM_001048174.2(MUTYH):c.917C>T (p.Pro306Leu) AND Familial adenomatous polyposis 2

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Feb 26, 2021
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:
RCV000532191.7

Allele description [Variation Report for NM_001048174.2(MUTYH):c.917C>T (p.Pro306Leu)]

NM_001048174.2(MUTYH):c.917C>T (p.Pro306Leu)

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.917C>T (p.Pro306Leu)
HGVS:
  • NC_000001.11:g.45331846G>A
  • NG_008189.1:g.13625C>T
  • NM_001048171.2:c.917C>T
  • NM_001048172.2:c.920C>T
  • NM_001048173.2:c.917C>T
  • NM_001048174.2:c.917C>TMANE SELECT
  • NM_001128425.2:c.1001C>T
  • NM_001293190.2:c.962C>T
  • NM_001293191.2:c.950C>T
  • NM_001293192.2:c.641C>T
  • NM_001293195.2:c.917C>T
  • NM_001293196.2:c.641C>T
  • NM_001350650.2:c.572C>T
  • NM_001350651.2:c.572C>T
  • NM_012222.3:c.992C>T
  • NP_001041636.2:p.Pro306Leu
  • NP_001041637.1:p.Pro307Leu
  • NP_001041638.1:p.Pro306Leu
  • NP_001041639.1:p.Pro306Leu
  • NP_001121897.1:p.Pro334Leu
  • NP_001121897.1:p.Pro334Leu
  • NP_001280119.1:p.Pro321Leu
  • NP_001280120.1:p.Pro317Leu
  • NP_001280121.1:p.Pro214Leu
  • NP_001280124.1:p.Pro306Leu
  • NP_001280125.1:p.Pro214Leu
  • NP_001337579.1:p.Pro191Leu
  • NP_001337580.1:p.Pro191Leu
  • NP_036354.1:p.Pro331Leu
  • LRG_220t1:c.1001C>T
  • LRG_220:g.13625C>T
  • LRG_220p1:p.Pro334Leu
  • NC_000001.10:g.45797518G>A
  • NM_001128425.1:c.1001C>T
  • NR_146882.2:n.1145C>T
  • NR_146883.2:n.994C>T
Protein change:
P191L
Links:
dbSNP: rs1553127049
NCBI 1000 Genomes Browser:
rs1553127049
Molecular consequence:
  • NM_001048171.2:c.917C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001048172.2:c.920C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001048173.2:c.917C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001048174.2:c.917C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001128425.2:c.1001C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293190.2:c.962C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293191.2:c.950C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293192.2:c.641C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293195.2:c.917C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001293196.2:c.641C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001350650.2:c.572C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001350651.2:c.572C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_012222.3:c.992C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NR_146882.2:n.1145C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
  • NR_146883.2:n.994C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Name:
Familial adenomatous polyposis 2
Synonyms:
COLORECTAL ADENOMATOUS POLYPOSIS, AUTOSOMAL RECESSIVE; ADENOMAS, MULTIPLE COLORECTAL, AUTOSOMAL RECESSIVE; MYH-associated polyposis; See all synonyms [MedGen]
Identifiers:
MONDO: MONDO:0012041; MedGen: C3272841; Orphanet: 220460; OMIM: 608456

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV000639249Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))		Uncertain significance
(Feb 26, 2021) 		germlineclinical testing

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

Help

Summary from all submissions

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

Citations

PubMed

Sherloc: a comprehensive refinement of the ACMG-AMP variant classification criteria.

Nykamp K, Anderson M, Powers M, Garcia J, Herrera B, Ho YY, Kobayashi Y, Patil N, Thusberg J, Westbrook M; Invitae Clinical Genomics Group., Topper S.

Genet Med. 2017 Oct;19(10):1105-1117. doi: 10.1038/gim.2017.37. Epub 2017 May 11. Erratum in: Genet Med. 2020 Jan;22(1):240. doi: 10.1038/s41436-019-0624-9.

PubMed [citation]
PMID:
28492532
PMCID:
PMC5632818

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV000639249.4

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

Description

In summary, this variant is a novel missense change that is not predicted to affect protein function. There is no indication that it causes disease, but the available evidence is currently insufficient to prove that conclusively. Therefore, it has been classified as a Variant of Uncertain Significance. Algorithms developed to predict the effect of missense changes on protein structure and function output the following: SIFT: "Tolerated"; PolyPhen-2: "Benign"; Align-GVGD: "Class C0". The leucine amino acid residue is found in multiple mammalian species, suggesting that this missense change does not adversely affect protein function. These predictions have not been confirmed by published functional studies. This variant is not present in population databases (ExAC no frequency) and has not been reported in the literature in individuals with a MUTYH-related disease. This sequence change replaces proline with leucine at codon 334 of the MUTYH protein (p.Pro334Leu). The proline residue is weakly conserved and there is a moderate physicochemical difference between proline and leucine.

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

Last Updated: Sep 29, 2024