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NM_003002.4(SDHD):c.13T>A (p.Trp5Arg) AND Hereditary cancer-predisposing syndrome

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Sep 18, 2020
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:
RCV002389250.2

Allele description [Variation Report for NM_003002.4(SDHD):c.13T>A (p.Trp5Arg)]

NM_003002.4(SDHD):c.13T>A (p.Trp5Arg)

Genes:
LOC126861339:BRD4-independent group 4 enhancer GRCh37_chr11:111957035-111958234 [Gene]
SDHD:succinate dehydrogenase complex subunit D [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
11q23.1
Genomic location:
Preferred name:
NM_003002.4(SDHD):c.13T>A (p.Trp5Arg)
HGVS:
  • NC_000011.10:g.112086920T>A
  • NG_012337.3:g.5074T>A
  • NG_033145.1:g.4879A>T
  • NG_085838.1:g.710T>A
  • NM_001276503.2:c.13T>A
  • NM_001276504.2:c.13T>A
  • NM_001276506.2:c.13T>A
  • NM_003002.4:c.13T>AMANE SELECT
  • NP_001263432.1:p.Trp5Arg
  • NP_001263433.1:p.Trp5Arg
  • NP_001263435.1:p.Trp5Arg
  • NP_002993.1:p.Trp5Arg
  • LRG_9t1:c.13T>A
  • LRG_9:g.5074T>A
  • LRG_9p1:p.Trp5Arg
  • NC_000011.9:g.111957644T>A
  • NM_003002.2:c.13T>A
  • NR_077060.2:n.48T>A
Protein change:
W5R
Molecular consequence:
  • NM_001276503.2:c.13T>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001276504.2:c.13T>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001276506.2:c.13T>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_003002.4:c.13T>A - missense variant - [Sequence Ontology: SO:0001583]
  • NR_077060.2:n.48T>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]

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

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV002700765Ambry Genetics
criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)		Uncertain significance
(Sep 18, 2020) 		germlineclinical testing

Citation Link

Help

Summary from all submissions

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

Details of each submission

From Ambry Genetics, SCV002700765.2

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

Description

The p.W5R variant (also known as c.13T>A), located in coding exon 1 of the SDHD gene, results from a T to A substitution at nucleotide position 13. The tryptophan at codon 5 is replaced by arginine, an amino acid with dissimilar properties. This amino acid position is not well conserved in available vertebrate species. 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