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NM_000222.3(KIT):c.1373A>T (p.Asp458Val) AND Hereditary cancer-predisposing syndrome

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Oct 22, 2022
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:
RCV002385998.3

Allele description [Variation Report for NM_000222.3(KIT):c.1373A>T (p.Asp458Val)]

NM_000222.3(KIT):c.1373A>T (p.Asp458Val)

Gene:
KIT:KIT proto-oncogene, receptor tyrosine kinase [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
4q12
Genomic location:
Preferred name:
NM_000222.3(KIT):c.1373A>T (p.Asp458Val)
HGVS:
  • NC_000004.12:g.54725883A>T
  • NG_007456.1:g.72889A>T
  • NM_000222.3:c.1373A>TMANE SELECT
  • NM_001093772.2:c.1373A>T
  • NM_001385284.1:c.1376A>T
  • NM_001385285.1:c.1373A>T
  • NM_001385286.1:c.1373A>T
  • NM_001385288.1:c.1376A>T
  • NM_001385290.1:c.1376A>T
  • NM_001385292.1:c.1376A>T
  • NP_000213.1:p.Asp458Val
  • NP_000213.1:p.Asp458Val
  • NP_001087241.1:p.Asp458Val
  • NP_001372213.1:p.Asp459Val
  • NP_001372214.1:p.Asp458Val
  • NP_001372215.1:p.Asp458Val
  • NP_001372217.1:p.Asp459Val
  • NP_001372219.1:p.Asp459Val
  • NP_001372221.1:p.Asp459Val
  • LRG_307t1:c.1373A>T
  • LRG_307:g.72889A>T
  • LRG_307p1:p.Asp458Val
  • NC_000004.11:g.55592049A>T
  • NM_000222.2:c.1373A>T
Protein change:
D458V
Links:
dbSNP: rs1553891403
NCBI 1000 Genomes Browser:
rs1553891403
Molecular consequence:
  • NM_000222.3:c.1373A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001093772.2:c.1373A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001385284.1:c.1376A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001385285.1:c.1373A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001385286.1:c.1373A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001385288.1:c.1376A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001385290.1:c.1376A>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001385292.1:c.1376A>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Hereditary cancer-predisposing syndrome
Synonyms:
Neoplastic Syndromes, Hereditary; Tumor predisposition; Cancer predisposition; See all synonyms [MedGen]
Identifiers:
MONDO: MONDO:0015356; MeSH: D009386; MedGen: C0027672

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Assertion and evidence details

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Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV002696376Ambry Genetics
criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)		Uncertain significance
(Oct 22, 2022) 		germlineclinical testing

Citation Link

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Summary from all submissions

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

Details of each submission

From Ambry Genetics, SCV002696376.2

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

Description

The p.D458V variant (also known as c.1373A>T), located in coding exon 9 of the KIT gene, results from an A to T substitution at nucleotide position 1373. The aspartic acid at codon 458 is replaced by valine, an amino acid with highly dissimilar properties. This amino acid position is conserved. In addition, the in silico prediction for this alteration is inconclusive. Since supporting evidence is limited at this time, the clinical significance of this alteration remains unclear.

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

Last Updated: Sep 29, 2024