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_000018.4(ACADVL):c.308_309del (p.Lys103fs)

CA16041859

371068 (ClinVar)

Gene: ACADVL
Condition: very long chain acyl-CoA dehydrogenase deficiency
Inheritance Mode: Autosomal recessive inheritance
UUID: c9b07233-8c58-48b7-b8c9-d55e9e51d8ca

HGVS expressions

NM_000018.4:c.308_309del
NM_000018.4(ACADVL):c.308_309del (p.Lys103fs)
NC_000017.11:g.7220796_7220797del
CM000679.2:g.7220796_7220797del
NC_000017.10:g.7124115_7124116del
CM000679.1:g.7124115_7124116del
NC_000017.9:g.7064839_7064840del
NG_007975.1:g.5963_5964del
NG_008391.2:g.4255_4256del
ENST00000356839.10:c.308_309del
ENST00000322910.9:c.*263_*264del
ENST00000350303.9:c.242_243del
ENST00000356839.9:c.308_309del
ENST00000543245.6:c.377_378del
ENST00000577191.5:n.385_386del
ENST00000577433.5:n.516_517del
ENST00000577857.5:n.259_260del
ENST00000579286.5:n.489_490del
ENST00000579886.2:c.202-149_202-148del
ENST00000580365.1:n.39_40del
ENST00000581378.5:n.7_8del
ENST00000581562.5:n.355_356del
ENST00000582056.5:n.398_399del
ENST00000582166.1:n.196_197del
ENST00000582356.5:n.507_508del
ENST00000583312.5:c.308_309del
ENST00000584103.5:c.308_309del
NM_000018.3:c.308_309del
NM_001033859.2:c.242_243del
NM_001270447.1:c.377_378del
NM_001270448.1:c.80_81del
NM_001033859.3:c.242_243del
NM_001270447.2:c.377_378del
NM_001270448.2:c.80_81del

Likely Pathogenic

The Expert Panel has overridden the computationally generated classification - "Uncertain Significance - Insufficient Evidence"
Met criteria codes 2
PM2_Supporting PVS1
Not Met criteria codes 2
PM3 PP4

Evidence Links 0

Expert Panel

Criteria Specification Information

Criteria Specifications for this VCEP
Evidence submitted by expert panel
ACADVL VCEP
The c.308_309del (p.Lys103Argfs*20) variant in ACADVL is a frameshift variant predicted to cause a premature stop codon in biologically-relevant-exon 6/20 leading to nonsense mediated decay in a gene in which loss-of-function is an established disease mechanism (PVS1; PMIDs: 9973285, 11590124). This variant has been detected in one individual identified by abnormal newborn screening or presumed positive on newborn screening for very long chain acyl CoA dehydrogenase (VLCAD) deficiency with no reported follow-up plasma acylcarnitine or enzyme activity; a second distinct pathogenic or likely pathogenic variant in ACADVL was not reported in this individual (PMID: 26385305). This variant is absent from gnomAD v2.1.1 (PM2_Supporting). To our knowledge, functional assays have not been reported for this variant. In summary, this variant meets the criteria to be classified as LIKELY PATHOGENIC for autosomal recessive very long chain acyl-CoA dehydrogenase (VLCAD) deficiency based on the ACMG/AMP criteria applied, as specified by the ClinGen ACADVL Variant Curation Expert Panel: PVS1, PM2_Supporting (ClinGen ACADVL VCEP specifications version#2; 05-00-2022).
Met criteria codes
PM2_Supporting
PM2_Supporting is met. This variant is absent from gnomAD v2.1.1 (PM2_Supporting).
PVS1
PVS1 is met. The c.308_309del (p.Lys103Argfs*20) variant in ACADVL is a frameshift variant predicted to cause a premature stop codon in biologically-relevant-exon 6/20 leading to nonsense mediated decay in a gene in which loss-of-function is an established disease mechanism (PVS1; PMIDs: 9973285, 11590124).
Not Met criteria codes
PM3
PM3 at any strength is not met. This variant has been detected in one individual identified by abnormal newborn screening or presumed positive on newborn screening for very long chain acyl CoA dehydrogenase (VLCAD) deficiency with no reported follow-up plasma acylcarnitine or enzyme activity; a second distinct pathogenic or likely pathogenic variant in ACADVL was not reported in this individual (PMID: 26385305).
PP4
PP4 is not met at any strength. This variant has been detected in one individual identified by abnormal newborn screening or presumed positive on newborn screening for very long chain acyl CoA dehydrogenase (VLCAD) deficiency with no reported follow-up plasma acylcarnitine or enzyme activity; a second distinct pathogenic or likely pathogenic variant in ACADVL was not reported in this individual (PMID: 26385305).
Approved on: 2022-05-10
Published on: 2022-05-10
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