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NM_002691.4(POLD1):c.1729G>T (p.Gly577Cys) AND Colorectal cancer, susceptibility to, 10

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Jun 25, 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:
RCV002003838.6

Allele description [Variation Report for NM_002691.4(POLD1):c.1729G>T (p.Gly577Cys)]

NM_002691.4(POLD1):c.1729G>T (p.Gly577Cys)

Gene:
POLD1:DNA polymerase delta 1, catalytic subunit [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
19q13.33
Genomic location:
Preferred name:
NM_002691.4(POLD1):c.1729G>T (p.Gly577Cys)
HGVS:
  • NC_000019.10:g.50407369G>T
  • NG_033800.1:g.28047G>T
  • NM_001256849.1:c.1729G>T
  • NM_001308632.1:c.1729G>T
  • NM_002691.4:c.1729G>TMANE SELECT
  • NP_001243778.1:p.Gly577Cys
  • NP_001295561.1:p.Gly577Cys
  • NP_002682.2:p.Gly577Cys
  • LRG_785t1:c.1729G>T
  • LRG_785t2:c.1729G>T
  • LRG_785:g.28047G>T
  • LRG_785p1:p.Gly577Cys
  • LRG_785p2:p.Gly577Cys
  • NC_000019.9:g.50910626G>T
  • NR_046402.2:n.1774G>T
Protein change:
G577C
Links:
dbSNP: rs2038934806
NCBI 1000 Genomes Browser:
rs2038934806
Molecular consequence:
  • NM_001256849.1:c.1729G>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001308632.1:c.1729G>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_002691.4:c.1729G>T - missense variant - [Sequence Ontology: SO:0001583]
  • NR_046402.2:n.1774G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Name:
Colorectal cancer, susceptibility to, 10
Synonyms:
COLORECTAL CANCER, SUSCEPTIBILITY TO, ON CHROMOSOME 19q; Colorectal cancer 10
Identifiers:
MONDO: MONDO:0012953; MedGen: C2675481; Orphanet: 220460; OMIM: 612591

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV002275714Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))		Uncertain significance
(Jun 25, 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, SCV002275714.3

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

Description

This sequence change replaces glycine with cysteine at codon 577 of the POLD1 protein (p.Gly577Cys). The glycine residue is moderately conserved and there is a large physicochemical difference between glycine and cysteine. This variant is not present in population databases (ExAC no frequency). This variant has not been reported in the literature in individuals with POLD1-related conditions. Algorithms developed to predict the effect of missense changes on protein structure and function are either unavailable or do not agree on the potential impact of this missense change (SIFT: "Deleterious"; PolyPhen-2: "Probably Damaging"; Align-GVGD: "Class C15"). In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance.

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

Last Updated: Sep 29, 2024