The ClinGen Evidence Repository is an FDA-recognized human genetic variant database containing expert-curated assertions regarding variants' pathogenicity and supporting evidence summaries. [Disclaimer]
  • Gene obtained from curated document aligns with the Allele Registry but not with ClinVar data
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  • No CSPEC computer assertion could be determined for this classification!

  • See Evidence submitted by expert panel for details.

Variant: NM_000018.4(ACADVL):c.1367G>A (p.Arg456His)

CA240224

194316 (ClinVar)

Gene: ACADVL
Condition: very long chain acyl-CoA dehydrogenase deficiency
Inheritance Mode: Autosomal recessive inheritance
UUID: a5d0977a-fee2-40d0-945b-7ffa18e83a0c
Approved on: 2024-04-23
Published on: 2024-04-23

HGVS expressions

NM_000018.4:c.1367G>A
NM_000018.4(ACADVL):c.1367G>A (p.Arg456His)
NC_000017.11:g.7224002G>A
CM000679.2:g.7224002G>A
NC_000017.10:g.7127321G>A
CM000679.1:g.7127321G>A
NC_000017.9:g.7068045G>A
NG_007975.1:g.9169G>A
NG_008391.2:g.1049C>T
NG_033038.1:g.15543C>T
ENST00000356839.10:c.1367G>A
ENST00000322910.9:c.*1322G>A
ENST00000350303.9:c.1301G>A
ENST00000356839.9:c.1367G>A
ENST00000542255.6:c.225G>A
ENST00000543245.6:c.1436G>A
ENST00000578711.1:n.498G>A
ENST00000579425.5:n.483G>A
ENST00000579546.1:c.204G>A
ENST00000579894.5:n.78G>A
ENST00000583074.5:n.86G>A
ENST00000583850.5:n.142G>A
ENST00000583858.5:c.396G>A
ENST00000585203.6:n.558G>A
NM_000018.3:c.1367G>A
NM_001033859.2:c.1301G>A
NM_001270447.1:c.1436G>A
NM_001270448.1:c.1139G>A
NM_001033859.3:c.1301G>A
NM_001270447.2:c.1436G>A
NM_001270448.2:c.1139G>A
More

Likely Pathogenic

Met criteria codes 4
PP4_Moderate PP3 PM2_Supporting PM3_Strong

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
ACADVL VCEP
The c.1367G>A (NM_000018.4) variant in ACADVL is a missense variant predicted to cause substitution of arginine by histidine at amino acid 456 (p.Arg456His). This variant has been detected in at least four individuals with very long chain acyl CoA dehydrogenase (VLCAD) deficiency and VLCAD enzyme activity of less than 20%, which is highly specific for VLCAD deficiency (PP4_Moderate, PMIDs: 30194637, 17206456). Of those individuals, one individual was presumed homozygous for the variant and two were confirmed compound heterozygous for the variant and a distinct variant, one of which is approved by the ACADVL VCEP as pathogenic (PM3, 1.5 points, PMIDs: 30194637, 17206456). The highest population minor allele frequency in gnomAD v2.1.1 is 0.00001709 in the European non-Finnish population, which is lower than the ClinGen ACADVL Variant Curation Expert Panel threshold (<0.001) for PM2_Supporting, meeting this criterion (PM2_Supporting). The computational predictor REVEL gives a score of 0.947, which is above the threshold of 0.75, evidence that correlates with impact to ACADVL function (PP3). In summary, this variant meets the criteria to be classified as likely pathogenic for autosomal recessive VLCAD deficiency based on the ACMG/AMP criteria applied, as specified by the ClinGen ACADVL Variant Curation Expert Panel: PM2_Supporting, PM3, PP3, PP4_Moderate (ACADVL VCEP specifications version 1; approved November 9, 2021).
Met criteria codes
PP4_Moderate
At least four patients with this variant displayed abnormal newborn screening followed by very long chain acyl-CoA dehydrogenase (VLCAD) enzyme activity of less than 20%, which is highly specific for VLCAD deficiency (PP4_Moderate, PMIDs: 30194637, 17206456).
PP3
The computational predictor REVEL gives a score of 0.947, which is above the threshold of 0.75, evidence that correlates with impact to ACADVL function (PP3).
PM2_Supporting
The highest population minor allele frequency in gnomAD v2.1.1 is 0.00001709 in the European non-Finnish population, which is lower than the ClinGen ACADVL Variant Curation Expert Panel threshold (<0.001) for PM2_Supporting, meeting this criterion (PM2_Supporting).
PM3_Strong
This variant has been detected in at least four individuals with very long chain acyl CoA dehydrogenase (VLCAD) deficiency. Of those individuals, one individual was presumed homozygous for the variant and two were confirmed compound heterozygous for the variant and a distinct variant, one of which is approved by the VCEP as pathogenic (PM3, 1.5 point, PMIDs: 30194637, 17206456).
Curation History
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