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NM_020975.6(RET):c.14C>T (p.Thr5Met) AND Hereditary cancer-predisposing syndrome

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Sep 19, 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:
RCV002388990.2

Allele description [Variation Report for NM_020975.6(RET):c.14C>T (p.Thr5Met)]

NM_020975.6(RET):c.14C>T (p.Thr5Met)

Genes:
LOC106736614:RET 5' regulatory region [Gene]
RET:ret proto-oncogene [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
10q11.21
Genomic location:
Preferred name:
NM_020975.6(RET):c.14C>T (p.Thr5Met)
HGVS:
  • NC_000010.11:g.43077272C>T
  • NG_007489.1:g.5204C>T
  • NG_045003.1:g.4459C>T
  • NM_000323.2:c.14C>T
  • NM_001406743.1:c.14C>T
  • NM_001406744.1:c.14C>T
  • NM_001406759.1:c.14C>T
  • NM_001406760.1:c.14C>T
  • NM_001406761.1:c.14C>T
  • NM_001406762.1:c.14C>T
  • NM_001406763.1:c.14C>T
  • NM_001406764.1:c.14C>T
  • NM_001406765.1:c.14C>T
  • NM_001406766.1:c.14C>T
  • NM_001406767.1:c.14C>T
  • NM_001406768.1:c.14C>T
  • NM_001406769.1:c.14C>T
  • NM_001406770.1:c.14C>T
  • NM_001406771.1:c.14C>T
  • NM_001406772.1:c.14C>T
  • NM_001406773.1:c.14C>T
  • NM_001406774.1:c.14C>T
  • NM_001406775.1:c.14C>T
  • NM_001406776.1:c.14C>T
  • NM_001406777.1:c.14C>T
  • NM_001406778.1:c.14C>T
  • NM_001406779.1:c.14C>T
  • NM_001406780.1:c.14C>T
  • NM_001406781.1:c.14C>T
  • NM_001406782.1:c.14C>T
  • NM_001406783.1:c.14C>T
  • NM_001406784.1:c.14C>T
  • NM_001406785.1:c.14C>T
  • NM_001406786.1:c.14C>T
  • NM_001406787.1:c.14C>T
  • NM_001406788.1:c.14C>T
  • NM_001406789.1:c.14C>T
  • NM_001406790.1:c.14C>T
  • NM_001406791.1:c.14C>T
  • NM_001406792.1:c.14C>T
  • NM_001406793.1:c.14C>T
  • NM_001406794.1:c.14C>T
  • NM_020629.2:c.14C>T
  • NM_020630.7:c.14C>T
  • NM_020975.6:c.14C>TMANE SELECT
  • NP_000314.1:p.Thr5Met
  • NP_001393672.1:p.Thr5Met
  • NP_001393673.1:p.Thr5Met
  • NP_001393688.1:p.Thr5Met
  • NP_001393689.1:p.Thr5Met
  • NP_001393690.1:p.Thr5Met
  • NP_001393691.1:p.Thr5Met
  • NP_001393692.1:p.Thr5Met
  • NP_001393693.1:p.Thr5Met
  • NP_001393694.1:p.Thr5Met
  • NP_001393695.1:p.Thr5Met
  • NP_001393696.1:p.Thr5Met
  • NP_001393697.1:p.Thr5Met
  • NP_001393698.1:p.Thr5Met
  • NP_001393699.1:p.Thr5Met
  • NP_001393700.1:p.Thr5Met
  • NP_001393701.1:p.Thr5Met
  • NP_001393702.1:p.Thr5Met
  • NP_001393703.1:p.Thr5Met
  • NP_001393704.1:p.Thr5Met
  • NP_001393705.1:p.Thr5Met
  • NP_001393706.1:p.Thr5Met
  • NP_001393707.1:p.Thr5Met
  • NP_001393708.1:p.Thr5Met
  • NP_001393709.1:p.Thr5Met
  • NP_001393710.1:p.Thr5Met
  • NP_001393711.1:p.Thr5Met
  • NP_001393712.1:p.Thr5Met
  • NP_001393713.1:p.Thr5Met
  • NP_001393714.1:p.Thr5Met
  • NP_001393715.1:p.Thr5Met
  • NP_001393716.1:p.Thr5Met
  • NP_001393717.1:p.Thr5Met
  • NP_001393718.1:p.Thr5Met
  • NP_001393719.1:p.Thr5Met
  • NP_001393720.1:p.Thr5Met
  • NP_001393721.1:p.Thr5Met
  • NP_001393722.1:p.Thr5Met
  • NP_001393723.1:p.Thr5Met
  • NP_065680.1:p.Thr5Met
  • NP_065681.1:p.Thr5Met
  • NP_065681.1:p.Thr5Met
  • NP_065681.1:p.Thr5Met
  • NP_066124.1:p.Thr5Met
  • NP_066124.1:p.Thr5Met
  • LRG_518t1:c.14C>T
  • LRG_518t2:c.14C>T
  • LRG_518:g.5204C>T
  • LRG_518p1:p.Thr5Met
  • LRG_518p2:p.Thr5Met
  • NC_000010.10:g.43572720C>T
  • NM_020630.4:c.14C>T
  • NM_020630.6:c.14C>T
  • NM_020975.4:c.14C>T
Protein change:
T5M
Links:
dbSNP: rs1444096302
NCBI 1000 Genomes Browser:
rs1444096302
Molecular consequence:
  • NM_000323.2:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406743.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406744.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406759.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406760.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406761.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406762.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406763.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406764.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406765.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406766.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406767.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406768.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406769.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406770.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406771.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406772.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406773.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406774.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406775.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406776.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406777.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406778.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406779.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406780.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406781.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406782.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406783.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406784.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406785.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406786.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406787.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406788.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406789.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406790.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406791.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406792.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406793.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001406794.1:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_020629.2:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_020630.7:c.14C>T - missense variant - [Sequence Ontology: SO:0001583]
  • NM_020975.6:c.14C>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
SCV002702082Ambry Genetics
criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)		Uncertain significance
(Sep 19, 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, SCV002702082.2

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

Description

The p.T5M variant (also known as c.14C>T), located in coding exon 1 of the RET gene, results from a C to T substitution at nucleotide position 14. The threonine at codon 5 is replaced by methionine, an amino acid with similar properties. This amino acid position is 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