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NM_001018005.2(TPM1):c.148C>A (p.Leu50Ile) AND Hypertrophic cardiomyopathy

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Sep 1, 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:
RCV000464388.4

Allele description [Variation Report for NM_001018005.2(TPM1):c.148C>A (p.Leu50Ile)]

NM_001018005.2(TPM1):c.148C>A (p.Leu50Ile)

Gene:
TPM1:tropomyosin 1 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
15q22.2
Genomic location:
Preferred name:
NM_001018005.2(TPM1):c.148C>A (p.Leu50Ile)
HGVS:
  • NC_000015.10:g.63044060C>A
  • NG_007557.1:g.6422C>A
  • NM_000366.6:c.148C>A
  • NM_001018004.2:c.148C>A
  • NM_001018005.2:c.148C>AMANE SELECT
  • NM_001018006.2:c.148C>A
  • NM_001018007.2:c.240+229C>A
  • NM_001018020.2:c.240+229C>A
  • NM_001301244.2:c.240+229C>A
  • NM_001365776.1:c.148C>A
  • NM_001365777.1:c.148C>A
  • NM_001365778.1:c.274C>A
  • NM_001365779.1:c.148C>A
  • NP_000357.3:p.Leu50Ile
  • NP_001018004.1:p.Leu50Ile
  • NP_001018005.1:p.Leu50Ile
  • NP_001018006.1:p.Leu50Ile
  • NP_001352705.1:p.Leu50Ile
  • NP_001352706.1:p.Leu50Ile
  • NP_001352707.1:p.Leu92Ile
  • NP_001352708.1:p.Leu50Ile
  • LRG_387t1:c.148C>A
  • LRG_387:g.6422C>A
  • LRG_387p1:p.Leu50Ile
  • NC_000015.9:g.63336259C>A
  • NM_001018005.1:c.148C>A
Protein change:
L50I
Links:
dbSNP: rs1060501866
NCBI 1000 Genomes Browser:
rs1060501866
Molecular consequence:
  • NM_001018007.2:c.240+229C>A - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001018020.2:c.240+229C>A - intron variant - [Sequence Ontology: SO:0001627]
  • NM_001301244.2:c.240+229C>A - intron variant - [Sequence Ontology: SO:0001627]
  • NM_000366.6:c.148C>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001018004.2:c.148C>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001018005.2:c.148C>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001018006.2:c.148C>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001365776.1:c.148C>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001365777.1:c.148C>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001365778.1:c.274C>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001365779.1:c.148C>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Hypertrophic cardiomyopathy
Synonyms:
HYPERTROPHIC MYOCARDIOPATHY
Identifiers:
MONDO: MONDO:0005045; MeSH: D002312; MedGen: C0007194; Human Phenotype Ontology: HP:0001639

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000547696Invitae
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))
Uncertain significance
(Sep 1, 2022)
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 Invitae, SCV000547696.5

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

Description

This variant has not been reported in the literature in individuals affected with TPM1-related conditions. 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 (SIFT, PolyPhen-2, Align-GVGD) all suggest that this variant is likely to be tolerated. ClinVar contains an entry for this variant (Variation ID: 408135). This variant is not present in population databases (gnomAD no frequency). This sequence change replaces leucine, which is neutral and non-polar, with isoleucine, which is neutral and non-polar, at codon 50 of the TPM1 protein (p.Leu50Ile).

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

Last Updated: May 7, 2024