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NM_001079802.2(FKTN):c.1167dup (p.Phe390fs) AND not provided

Germline classification:
Pathogenic (3 submissions)
Last evaluated:
Sep 12, 2023
Review status:
2 stars out of maximum of 4 stars
criteria provided, multiple submitters, no conflicts
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:
RCV000079427.27

Allele description

NM_001079802.2(FKTN):c.1167dup (p.Phe390fs)

Gene:
FKTN:fukutin [Gene - OMIM - HGNC]
Variant type:
Duplication
Cytogenetic location:
9q31.2
Genomic location:
Preferred name:
NM_001079802.2(FKTN):c.1167dup (p.Phe390fs)
HGVS:
  • NC_000009.11:g.108382330_108382331insA
  • NC_000009.12:g.105620056dup
  • NG_008754.1:g.66927dup
  • NM_001079802.2:c.1167dupMANE SELECT
  • NM_001198963.2:c.1167dup
  • NM_001351496.2:c.1167dup
  • NM_001351497.2:c.1098dup
  • NM_001351498.2:c.1167dup
  • NM_001351499.2:c.771dup
  • NM_001351500.2:c.771dup
  • NM_001351501.2:c.771dup
  • NM_001351502.2:c.771dup
  • NM_006731.2:c.1167dup
  • NP_001073270.1:p.Phe390fs
  • NP_001185892.1:p.Phe390fs
  • NP_001338425.1:p.Phe390fs
  • NP_001338426.1:p.Phe367fs
  • NP_001338427.1:p.Phe390fs
  • NP_001338428.1:p.Phe258fs
  • NP_001338429.1:p.Phe258fs
  • NP_001338430.1:p.Phe258fs
  • NP_001338431.1:p.Phe258fs
  • NP_006722.2:p.Phe390fs
  • LRG_434t2:c.1167dup
  • LRG_434:g.66927dup
  • LRG_434p2:p.Phe390fs
  • NC_000009.11:g.108382330_108382331insA
  • NC_000009.11:g.108382337dup
  • NC_000009.11:g.108382337dupA
  • NM_001079802.1:c.1167dupA
  • NM_001079802.2:c.1167dup
  • NM_006731.2:c.1167dupA
  • NR_147213.2:n.1118dup
  • NR_147214.2:n.1290dup
  • c.1167dupA (p.Phe390Ilefs*14)
  • c.1167insA
Note:
NCBI staff reviewed the sequence information reported in PubMed 10545611 Fig. 3 to determine the location of this allele on the current reference sequence.
Protein change:
F258fs
Links:
Genetic Testing Registry (GTR): GTR000531545; Genetic Testing Registry (GTR): GTR000570054; OMIM: 607440.0005; dbSNP: rs398123555
NCBI 1000 Genomes Browser:
rs398123555
Molecular consequence:
  • NM_001079802.2:c.1167dup - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001198963.2:c.1167dup - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001351496.2:c.1167dup - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001351497.2:c.1098dup - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001351498.2:c.1167dup - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001351499.2:c.771dup - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001351500.2:c.771dup - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001351501.2:c.771dup - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_001351502.2:c.771dup - frameshift variant - [Sequence Ontology: SO:0001589]
  • NM_006731.2:c.1167dup - frameshift variant - [Sequence Ontology: SO:0001589]
  • NR_147213.2:n.1118dup - non-coding transcript variant - [Sequence Ontology: SO:0001619]
  • NR_147214.2:n.1290dup - non-coding transcript variant - [Sequence Ontology: SO:0001619]
Observations:
7

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000329807GeneDx
criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)
Pathogenic
(Nov 30, 2022)
germlineclinical testing

Citation Link,

SCV000331176Eurofins Ntd Llc (ga)
criteria provided, single submitter

(EGL Classification Definitions)
Pathogenic
(Dec 6, 2012)
germlineclinical testing

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

Citation Link,

SCV002023727Revvity Omics, Revvity
criteria provided, single submitter

(ACMG Guidelines, 2015)
Pathogenic
(Sep 12, 2023)
germlineclinical testing

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

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyesnot providednot providednot providednot providednot providedclinical testing
not providedgermlineunknown7not providednot providednot providednot providedclinical testing

Citations

PubMed

Free the data: one laboratory's approach to knowledge-based genomic variant classification and preparation for EMR integration of genomic data.

Bean LJ, Tinker SW, da Silva C, Hegde MR.

Hum Mutat. 2013 Sep;34(9):1183-8. doi: 10.1002/humu.22364. Epub 2013 Aug 5.

PubMed [citation]
PMID:
23757202

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]
PMID:
25741868
PMCID:
PMC4544753

Details of each submission

From GeneDx, SCV000329807.8

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

Description

Reported in association with Fukuyama congenital muscular dystrophy (FCMD), limb girdle muscular dystrophy (LGMD), and Walker-Warburg syndrome (WWS) (Kondo-Iida et al., 1999; Godfrey et al., 2006; Cotarelo et al., 2008; Manzini et al., 2008; Chang et al., 2009); Reported with a second variant in the FKTN gene in a patient with dilated cardiomyopathy; however, segregation information was not provided (Burstein et al., 2021); Founder mutation in the Ashkenazi Jewish population, present in 81/10350 (0.78%) alleles from individuals of Ashkenazi Jewish ancestry in large population cohorts (gnomAD; Cotarelo et al., 2008; Manzini et al., 2008; Chang et al., 2009); Frameshift variant predicted to result in protein truncation, as the last 72 amino acids are replaced with 13 different amino acids, and other loss-of-function variants have been reported downstream in HGMD; This variant is associated with the following publications: (PMID: 18752264, 18177472, 19266496, 20961758, 10545611, 27065010, 29327352, 17044012, 31980526, 32746448)

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

From Eurofins Ntd Llc (ga), SCV000331176.3

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided7not providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot provided7not providednot providednot provided

From Revvity Omics, Revvity, SCV002023727.3

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Jul 15, 2024