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NM_024122.5(APOO):c.350T>C (p.Ile117Thr) AND not provided

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
May 3, 2021
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
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:
RCV001375911.2

Allele description [Variation Report for NM_024122.5(APOO):c.350T>C (p.Ile117Thr)]

NM_024122.5(APOO):c.350T>C (p.Ile117Thr)

Gene:
APOO:apolipoprotein O [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
Xp22.11
Genomic location:
Preferred name:
NM_024122.5(APOO):c.350T>C (p.Ile117Thr)
HGVS:
  • NC_000023.11:g.23868631A>G
  • NG_013219.1:g.44310T>C
  • NM_024122.5:c.350T>CMANE SELECT
  • NP_077027.1:p.Ile117Thr
  • NC_000023.10:g.23886748A>G
  • NR_026545.4:n.531T>C
Protein change:
I117T; ILE117THR
Links:
OMIM: 300753.0001; dbSNP: rs1925449605
NCBI 1000 Genomes Browser:
rs1925449605
Molecular consequence:
  • NM_024122.5:c.350T>C - missense variant - [Sequence Ontology: SO:0001583]
  • NR_026545.4:n.531T>C - non-coding transcript variant - [Sequence Ontology: SO:0001619]
Functional consequence:
protein loss of function [Variation Ontology: 0043]

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
SCV001572888OMIM
no assertion criteria provided
Uncertain significance
(May 3, 2021)
germlineliterature only

Beninca, C., Zanette, V., Brischigliaro, M., Johnson, M., Reyes, A., Almeida do Valle, D., Robinson, A. J., Degiorgi, A., Yeates, A., Telles, B. A., Prudent, J., Baruffini, E., Santos, M. L. S. F., de Souza, R. L. R., Fernandez-Vizarra, E., Whitworth, A. J., Zeviani, M. Mutation in the MICOS subunit gene APOO (MIC26) associated with an X-linked recessive mitochondrial myopathy, lactic acidosis, cognitive impairment and autistic features. J. Med. Genet. 58: 155-167, 2021.

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlinenot providednot providednot providednot providednot providednot providedliterature only

Details of each submission

From OMIM, SCV001572888.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature onlynot provided

Description

This variant is classified as a variant of unknown significance because its contribution to a variable phenotype including muscle weakness, neurologic abnormalities, and increased blood lactate has not been confirmed.

In 8 individuals (3 females and 5 males) across 3 generations of a family with variable clinical features including muscle weakness, neurologic abnormalities, and increased blood lactate, Beninca et al. (2021) identified hemizygosity in the males and heterozygosity in the females for a c.350T-C transition in exon 5 of the APOO gene, resulting in an ile117-to-thr (I117T) substitution. The mutation was found by whole-exome sequencing in the 8-year-old proband and by Sanger sequencing in the other affected individuals. Three clinically unaffected females in the family were also heterozygous for the variant. X-chromosome skewing patterns were inconclusive in some affected females and were shown to be skewed in others. The variant was not found in the ExAC or 1000 Genomes Project databases. Abnormal processing of the 22-kD isoform of APOO was demonstrated in fibroblasts from one of the patients. Patient fibroblasts also showed abnormal MICOS complex assembly and abnormal christae junctions. Studies in HeLa cells suggested that APOO with the I117T mutation has a looser association with the mitochondrial inner membrane compared to wildtype.

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

Last Updated: Dec 24, 2023