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NM_001244926.2(PRPF4):c.343G>T (p.Gly115Trp) AND not provided

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Oct 11, 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:
RCV002050876.4

Allele description [Variation Report for NM_001244926.2(PRPF4):c.343G>T (p.Gly115Trp)]

NM_001244926.2(PRPF4):c.343G>T (p.Gly115Trp)

Gene:
PRPF4:pre-mRNA splicing tri-snRNP complex factor PRPF4 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
9q32
Genomic location:
Preferred name:
NM_001244926.2(PRPF4):c.343G>T (p.Gly115Trp)
HGVS:
  • NC_000009.12:g.113279082G>T
  • NG_034225.1:g.8449G>T
  • NM_001244926.2:c.343G>TMANE SELECT
  • NM_001322266.2:c.-423G>T
  • NM_001322267.2:c.-423G>T
  • NM_004697.5:c.346G>T
  • NP_001231855.1:p.Gly115Trp
  • NP_004688.2:p.Gly116Trp
  • NC_000009.11:g.116041362G>T
  • NR_136265.2:n.432G>T
  • NR_136266.2:n.429G>T
Protein change:
G115W
Links:
dbSNP: rs369899984
NCBI 1000 Genomes Browser:
rs369899984
Molecular consequence:
  • NM_001322266.2:c.-423G>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001322267.2:c.-423G>T - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001244926.2:c.343G>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_004697.5:c.346G>T - missense variant - [Sequence Ontology: SO:0001583]
  • NR_136265.2:n.432G>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
  • NR_136266.2:n.429G>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
SCV002112524Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))
Uncertain significance
(Oct 11, 2021)
germlineclinical testing

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

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, SCV002112524.3

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

Description

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. 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 C0"). This variant has not been reported in the literature in individuals affected with PRPF4-related conditions. This variant is present in population databases (rs369899984, ExAC 0.001%). This sequence change replaces glycine with tryptophan at codon 116 of the PRPF4 protein (p.Gly116Trp). The glycine residue is moderately conserved and there is a large physicochemical difference between glycine and tryptophan.

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

Last Updated: Sep 29, 2024