The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]

  • See Evidence submitted by expert panel for details.

Variant: NM_000277.2(PAH):c.827T>G (p.Met276Arg)

CA229797

102858 (ClinVar)

Gene: PAH
Condition: phenylketonuria
Inheritance Mode: Autosomal recessive inheritance
UUID: 81e99b34-e26c-4f1b-af94-b863ba7c1e11
Approved on: 2018-12-10
Published on: 2019-04-05

HGVS expressions

NM_000277.2:c.827T>G
NM_000277.2(PAH):c.827T>G (p.Met276Arg)
NC_000012.12:g.102852830A>C
CM000674.2:g.102852830A>C
NC_000012.11:g.103246608A>C
CM000674.1:g.103246608A>C
NC_000012.10:g.101770738A>C
NG_008690.1:g.69773T>G
NG_008690.2:g.110581T>G
NM_000277.1:c.827T>G
NM_001354304.1:c.827T>G
NM_000277.3:c.827T>G
ENST00000307000.7:c.812T>G
ENST00000549247.6:n.586T>G
ENST00000553106.5:c.827T>G
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Likely Pathogenic

Met criteria codes 4
PM5 PM2 PP3 PP4

Evidence Links 2

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
Phenylketonuria VCEP
The c.827T>G (p.Met276Arg) variant in PAH is absent from population databases and predicted damaging by in silico models. It is a novel missense change at an amino acid residue where different pathogenic missense changes have been reported (p.Met276Val is LP in ClinVar, p.Met276Lys is LP via PAH EP). It has been reported in individuals with phenylkeonuria in the literature, although a defect in the metabolism of BH4 has not been excluded as a cause for elevated phenylalanine in any of these patients (PMID: 23932990, 15300621). In summary, this variant meets criteria to be classified as likely pathogenic for PAH. PAH-specific ACMG/AMP criteria applied: PP4, PM2, PM5, PP3.
Met criteria codes
PM5
p.Met276Val is LP in ClinVar, p.Met276Lys is LP via PAH EP
PM2
Absent from population databases
PP3
In silico agree on damaging effet. REVEL=0.882
PP4
Listed in Zhang 2004 (PMID: 15300621) in a PKU cohort, no other information provided, and Zu 2013 (PMID: 23932990) as an allele with unclassified BH4 responsiveness.

Curation History
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