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NM_000531.6(OTC):c.860_861dup (p.Met288fs) AND Ornithine carbamoyltransferase deficiency

Germline classification:
Likely pathogenic (1 submission)
Last evaluated:
Oct 13, 2019
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:
RCV001192544.1

Allele description [Variation Report for NM_000531.6(OTC):c.860_861dup (p.Met288fs)]

NM_000531.6(OTC):c.860_861dup (p.Met288fs)

Gene:
OTC:ornithine transcarbamylase [Gene - OMIM - HGNC]
Variant type:
Duplication
Cytogenetic location:
Xp11.4
Genomic location:
Preferred name:
NM_000531.6(OTC):c.860_861dup (p.Met288fs)
HGVS:
  • NC_000023.11:g.38409018_38409019dup
  • NG_008471.1:g.61536_61537dup
  • NM_000531.6:c.860_861dupMANE SELECT
  • NP_000522.3:p.Met288fs
  • LRG_846t1:c.860_861dup
  • LRG_846:g.61536_61537dup
  • LRG_846p1:p.Met288fs
  • NC_000023.10:g.38268271_38268272dup
  • NM_000531.5:c.860_861dup
Protein change:
M288fs
Links:
dbSNP: rs2068530385
NCBI 1000 Genomes Browser:
rs2068530385
Molecular consequence:
  • NM_000531.6:c.860_861dup - frameshift variant - [Sequence Ontology: SO:0001589]

Condition(s)

Name:
Ornithine carbamoyltransferase deficiency (OTCD)
Synonyms:
ORNITHINE TRANSCARBAMYLASE DEFICIENCY, HYPERAMMONEMIA DUE TO; Ornithine transcarbamylase deficiency; OTC deficiency; See all synonyms [MedGen]
Identifiers:
MONDO: MONDO:0010703; MedGen: C0268542; Orphanet: 664; OMIM: 311250

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Assertion and evidence details

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Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV001360756Women's Health and Genetics/Laboratory Corporation of America, LabCorp
criteria provided, single submitter

(LabCorp Variant Classification Summary - May 2015)		Likely pathogenic
(Oct 13, 2019) 		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 Women's Health and Genetics/Laboratory Corporation of America, LabCorp, SCV001360756.1

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

Description

Variant summary: OTC c.860_861dupCA (p.Met288GlnfsX2) results in a premature termination codon, predicted to cause a truncation of the encoded protein or absence of the protein due to nonsense mediated decay, which are commonly known mechanisms for disease. The variant was absent in 182805 control chromosomes. To our knowledge, no occurrence of c.860_861dupCA in individuals affected with Ornithine Transcarbamylase Deficiency and no experimental evidence demonstrating its impact on protein function have been reported. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar after 2014. Based on the evidence outlined above, the variant was classified as likely pathogenic.

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

Last Updated: Mar 26, 2023