NM_024582.4(FAT4):c.13174C>T (p.Pro4392Ser) AND not provided

Clinical significance:Uncertain significance (Last evaluated: Mar 23, 2018)

Review status:1 star out of maximum of 4 stars

criteria provided, single submitter

Based on:
1 submission [Details]
Record status:
current
Accession:
RCV000657980.1

Allele description [Variation Report for NM_024582.4(FAT4):c.13174C>T (p.Pro4392Ser)]

NM_024582.4(FAT4):c.13174C>T (p.Pro4392Ser)

Gene:
FAT4:FAT atypical cadherin 4 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
4q28.1
Genomic location:
Preferred name:
NM_024582.4(FAT4):c.13174C>T (p.Pro4392Ser)
HGVS:
  • NC_000004.12:g.125489996C>T
  • NG_033865.1:g.178585C>T
  • NM_001291285.1:c.13177C>T
  • NM_001291303.1:c.13180C>T
  • NM_024582.4:c.13174C>T
  • NP_001278214.1:p.Pro4393Ser
  • NP_001278232.1:p.Pro4394Ser
  • NP_078858.4:p.Pro4392Ser
  • NC_000004.11:g.126411151C>T
Protein change:
P4392S
Links:
dbSNP: rs772779154
NCBI 1000 Genomes Browser:
rs772779154
Molecular consequence:
  • NM_001291285.1:c.13177C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001291303.1:c.13180C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_024582.4:c.13174C>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Identifiers:
MedGen: CN517202

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000779751GeneDxcriteria provided, single submitter
Uncertain significance
(Mar 23, 2018)
germlineclinical testing

Citation Link

Summary from all submissions

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

Details of each submission

From GeneDx, SCV000779751.2

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

Description

A variant of uncertain significance has been identified in the FAT4 gene. The P4392S variant has not been published as a pathogenic variant, nor has it been reported as a benign variant to our knowledge. The P4392S variant is observed in 2/17248 (0.01%) alleles from individuals of East Asian background in large population cohorts (Lek et al., 2016). The P4392S variant is a non-conservative amino acid substitution, which is likely to impact secondary protein structure as these residues differ in polarity, charge, size and/or other properties. However, in-silico analyses, including protein predictors and evolutionary conservation, support that this variant does not alter protein structure/function. Therefore, based on the currently available information, it is unclear whether this variant is a pathogenic variant or a rare benign variant.

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

Last Updated: Feb 27, 2021

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