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

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Variant: NM_000277.2(PAH):c.545A>G (p.Glu182Gly)

CA229617

102731 (ClinVar)

Gene: PAH
Condition: phenylketonuria
Inheritance Mode: Autosomal recessive inheritance
UUID: c6768475-78a0-4239-88ff-e933187bd6e6
Approved on: 2020-07-25
Published on: 2020-07-25

HGVS expressions

NM_000277.2:c.545A>G
NM_000277.2(PAH):c.545A>G (p.Glu182Gly)
NM_000277.1:c.545A>G
NM_001354304.1:c.545A>G
NM_000277.3:c.545A>G
NM_001354304.2:c.545A>G
ENST00000307000.7:c.530A>G
ENST00000549111.5:n.641A>G
ENST00000551988.5:n.566A>G
ENST00000553106.5:c.545A>G
NC_000012.12:g.102855297T>C
CM000674.2:g.102855297T>C
NC_000012.11:g.103249075T>C
CM000674.1:g.103249075T>C
NC_000012.10:g.101773205T>C
NG_008690.1:g.67306A>G
NG_008690.2:g.108114A>G
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Likely Pathogenic

Met criteria codes 5
PP4_Moderate PP3 PP1 PM2 PM3

Evidence Links 2

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
Phenylketonuria VCEP
The NM_000277.3:c.545A>G (p.Glu182Gly) variant is a missense variant in exon 6/13 of PAH. The variant was reported in confirmed trans with the p.R261Q allele (Pathogenic per ClinGen PAH VCEP) among two siblings with mild hyperphenylalanemia; BH4 deficiency was not noted to have been formally excluded (PMID: 26542770) (PP1; PM3). The variant has also been previously reported among “two alleles” in a cohort of Armenian PKU patients among whom BH4 deficiency was excluded; no further detail appears to be given (PMID: 10541324) (PP4_Moderate). It has also been noted in ClinVar (ID 102731), without a classification. Three heterozygotes and zero homozygotes for the variant are present in gnomAD, corresponding to a global AF of 0.0000119 and maximum population frequency of 0.0000264 (non-Finnish European population), under the frequency cutoff of 0.0002 for use of PM2 (PM2). The variant is predicted damaging by multiple in-silico missense predictors, including REVEL (REVEL score 0.929) (PP3). Classification: Likely Pathogenic Supporting Criteria: PM2; PM3; PP1; PP4_Moderate; PP3
Met criteria codes
PP4_Moderate
PMID:10541324. Two alleles in California population of PKU patients. "BH4 defects excluded in all patients in California"

PP3
Predicted deleterious in SIFT, PolyPhen2, MutationTaster, REVEL=0.929.
PP1
Detected in 2 siblings PMID: 26542770.
PM2
extremely low frequency in gnomAD MAF=0.00003
PM3
PMID: 26542770. Two sibs with c.782G>A (p.R261Q) (pathogenic per ClinVar) Parental testing confirmed

Curation History
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