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NM_001159699.2(FHL1):c.876_877del (p.Ala293fs) AND X-linked myopathy with postural muscle atrophy

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
May 7, 2023
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:
RCV003868957.2

Allele description [Variation Report for NM_001159699.2(FHL1):c.876_877del (p.Ala293fs)]

NM_001159699.2(FHL1):c.876_877del (p.Ala293fs)

Gene:
FHL1:four and a half LIM domains 1 [Gene - OMIM - HGNC]
Variant type:
Microsatellite
Cytogenetic location:
Xq26.3
Genomic location:
Preferred name:
NM_001159699.2(FHL1):c.876_877del (p.Ala293fs)
HGVS:
  • NC_000023.11:g.136210008TG[1]
  • NG_015895.1:g.67609TG[1]
  • NM_001159699.2:c.876_877delMANE SELECT
  • NM_001159700.2:c.828_829del
  • NM_001159701.2:c.915_916del
  • NM_001159702.3:c.*54TG[1]
  • NM_001159703.2:c.*54TG[1]
  • NM_001159704.1:c.828_829del
  • NM_001167819.1:c.828_829del
  • NM_001330659.2:c.*54TG[1]
  • NM_001369326.1:c.*54TG[1]
  • NM_001369327.2:c.*54TG[1]
  • NM_001369328.1:c.*54TG[1]
  • NM_001369329.1:c.828_829del
  • NM_001369330.1:c.828_829del
  • NM_001369331.1:c.828_829del
  • NM_001449.5:c.828_829del
  • NP_001153171.1:p.Ala293fs
  • NP_001153172.1:p.Ala277fs
  • NP_001153173.1:p.Ala306fs
  • NP_001153176.1:p.Ala277fs
  • NP_001161291.1:p.Ala277fs
  • NP_001356258.1:p.Ala277fs
  • NP_001356259.1:p.Ala277fs
  • NP_001356260.1:p.Ala277fs
  • NP_001440.2:p.Ala277fs
  • LRG_739t1:c.876_877del
  • LRG_739t2:c.*54TG[1]
  • LRG_739:g.67609TG[1]
  • LRG_739p1:p.Ala293fs
  • NC_000023.10:g.135292167TG[1]
  • NC_000023.10:g.135292167_135292168del
  • NR_027621.2:n.1237TG[1]
Protein change:
A277fs
Molecular consequence:
  • NM_001159702.3:c.*54TG[1] - 3 prime UTR variant - [Sequence Ontology: SO:0001624]
  • NM_001159703.2:c.*54TG[1] - 3 prime UTR variant - [Sequence Ontology: SO:0001624]
  • NM_001330659.2:c.*54TG[1] - 3 prime UTR variant - [Sequence Ontology: SO:0001624]
  • NM_001369326.1:c.*54TG[1] - 3 prime UTR variant - [Sequence Ontology: SO:0001624]
  • NM_001369327.2:c.*54TG[1] - 3 prime UTR variant - [Sequence Ontology: SO:0001624]
  • NM_001369328.1:c.*54TG[1] - 3 prime UTR variant - [Sequence Ontology: SO:0001624]
  • NM_001159699.2:c.876_877del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001159700.2:c.828_829del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001159701.2:c.915_916del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001159704.1:c.828_829del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001167819.1:c.828_829del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001369329.1:c.828_829del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001369330.1:c.828_829del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001369331.1:c.828_829del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001449.5:c.828_829del - frameshift variant - [Sequence Ontology: SO:0001589]
  • NR_027621.2:n.1237TG[1] - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Name:
X-linked myopathy with postural muscle atrophy
Identifiers:
MONDO: MONDO:0010401; MedGen: C2678055; OMIM: 300696

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV004669116Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))		Uncertain significance
(May 7, 2023) 		germlineclinical testing

PubMed (1)
[See all records that cite this PMID]

Help

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 Labcorp Genetics (formerly Invitae), Labcorp, SCV004669116.1

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

Description

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. Experimental studies and prediction algorithms are not available or were not evaluated, and the functional significance of this variant is currently unknown. This variant has not been reported in the literature in individuals affected with FHL1-related conditions. This variant is not present in population databases (gnomAD no frequency). This sequence change results in a frameshift in the FHL1 gene (p.Ala277Glnfs*6). While this is not anticipated to result in nonsense mediated decay, it is expected to disrupt the last 4 amino acid(s) of the FHL1 protein and extend the protein by 1 additional amino acid residues.

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

Last Updated: Sep 29, 2024