ETFDH
protein-codingelectron transfer flavoprotein dehydrogenase
Gene summary
This gene encodes a component of the electron-transfer system in mitochondria and is essential for electron transfer from a number of mitochondrial flavin-containing dehydrogenases to the main respiratory chain. Mutations in this gene are associated with glutaric acidemia. Alternatively spliced transcript variants that encode distinct isoforms have been observed. [provided by RefSeq, Aug 2013]
MANE transcript
Inheritance
ClinVar variants
Top phenotype
gnomAD constraint
Max pathogenic AF
Genomic locus
External References & Databases
Transcript & Mutation Effects
hg38 • Region Span ~38.8 kbGenCC Phenotypes & Disease Associations
Curated gene-disease validity assertions and inheritance patterns
Inheritance Pattern: AR
Disease ID:MONDO:0009282
Submitter: G2P
Inheritance Pattern: AR
Disease ID:MONDO:0009282
Submitter: ClinGen
*ETFDH* (MIM 231675) was first reported in relation to autosomal recessive multiple acyl-CoA dehydrogenase deficiency in 2003 (PMID: 12815589). This disorder affects fatty acid oxidation and electron transfer, presenting with metabolic acidosis, hypoglycemia, hypotonia, hepatomegaly, and variable onset from neonatal to adulthood. Twenty-one variants (including missense, nonsense, frameshift, and splice-site changes) have been reported in 19 probands in 11 publications (PMIDs: 12815589, 17584774, 19249206, 19265687, 20020044, 22013910, 22580358, 22611163, 24123825, 29249369, 2989828). These variants include missense changes in highly conserved residues within the FAD-binding domain (e.g., p.Ala84Thr, p.Arg175Leu), frameshift variants (e.g., c.51dupT), splice-site alterations (e.g., c.405+3A>T), and nonsense mutations. Functional studies demonstrate that several missense variants markedly reduce ETFDH activity and impair riboflavin responsiveness, while null variants result in absent protein expression in patient fibroblasts (PMIDs: 2989828, 22611163). More evidence is available in the literature, but the maximum score for genetic evidence (12 pts.) has been reached. Experimental evidence further supports this gene-disease relationship. *ETFDH* encodes electron transfer flavoprotein-ubiquinone oxidoreductase (ETF-QO), a key component of mitochondrial β-oxidation, and its deficiency disrupts energy metabolism, leading to characteristic biochemical abnormalities (PMID: 3620453). Patient cells show absent ETF-QO protein and activity (PMID: 2989828), and non-patient cell assays confirm reduced activity of mutant proteins under riboflavin-limited conditions (PMID: 22611163). Zebrafish and fruit fly models with ETFDH disruption exhibit metabolic profiles similar to those observed in affected individuals, including accumulation of acylcarnitines and mitochondrial dysfunction (PMIDs: 20020044, 22580358). In summary, there is definitive evidence to support the relationship between *ETFDH* and autosomal recessive MADD. This has been repeatedly demonstrated in both the research and clinical diagnostic settings and has been upheld over time. This classification was approved by the ClinGen FAO GCEP on the meeting date 2018 May 22 (SOP Version 6). ETFDH: Data provided by the ClinGen Prenatal GCEP from July 9, 2025 secondary analysis Multiple acyl-CoA dehydrogenation deficiency (MADD) is an autosomal recessive disorder of fatty acid oxidation due to deficiency of the mitochondrial electron transfer chain. MADD can be caused by deficiencies in any of three proteins electron transfer flavoprotein (ETF) system, including ETFA, ETFB, and ETFDH. Pathogenic variants in the *ETFDH* gene are the most common cause of MADD and represent approximately 93% of cases. Although genetically heterogeneous, there does not appear to be a difference in clinical phenotypes. The severity of disease is correlated with residual protein function and ranges from a severe neonatal form with or without congenital anomalies to a milder, later onset form. Neonatal forms present with hypotonia, severe metabolic acidosis, hyperammonemia, hypoglycemia, respiratory distress, hepatomegaly, and a sweaty feet odor. Prenatal features and congenital physical anomalies can include cystic/dysplastic kidneys with sequelae of oligohydramnios/anhydramnios, hypertrophic cardiomyopathy, dysmorphic facial features including midface hypoplasia, tented upper lip, low set ears, or high anterior hairline. Most severely affected newborns die in the first week of life. (PMID 12815589, 36406819, 32959991)
Inheritance Pattern: AR
Disease ID:MONDO:0009282
Submitter: Labcorp Genetics (formerly Invitae)
Inheritance Pattern: AR
Disease ID:MONDO:0009282
Submitter: Natera
Inheritance Pattern: AR
Disease ID:MONDO:0009282
Submitter: PanelApp Australia
Inheritance Pattern: AR
Disease ID:MONDO:0009282
Submitter: Ambry Genetics
Clinical Genomic Database (CGD)
Manifestation: Biochemical; Gastrointestinal; Musculoskeletal; Neurologic; Renal
Intervention: Biochemical
Rationale: Dietary measures (fasting avoidance and low-fat diet, as well as supplementation, such as with riboflavin and carnitine) may be beneficial
ClinVar Associated Diseases & Phenotypes
Reported disease conditions connected to ETFDH variants in ClinVar
ClinVar Variants & Pathogenicity by Type
Statistics based on transcript NM_004453.4. Only rare variants are included.
We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.
Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.
| Effect | PathogenicP | Likely pathogenicLP | VUS | Likely benignLB | BenignB | Sum |
|---|---|---|---|---|---|---|
| synonymous | 9 | 241 | 250 | |||
| missense | 16 | 121 | 261 | 12 | 410 | |
| nonsense | 27 | 22 | 49 | |||
| start loss | 3 | 1 | 1 | 5 | ||
| frameshift | 45 | 59 | 1 | 105 | ||
| splice donor/acceptor (+/-2bp) | 6 | 39 | 3 | 1 | 49 | |
| Total | 97 | 242 | 275 | 254 | 0 | 868 |
Highest pathogenic variant AF is 0.00020300421
Transcript Catalog
Annotated transcript isoforms across RefSeq and Ensembl databases
| Transcript ID | Source | Protein ID | Coding Exons | MANE Status |
|---|---|---|---|---|
| RefSeq | NP_004444.2 | 13 | MANE Select | |
| Ensembl | ENSP00000426638.1 | 13 | MANE Select | |
| RefSeq | NP_001268666.1 | 12 | Standard | |
| RefSeq | NP_001268667.1 | 11 | Standard |
Model Organisms & Knockout Phenotypes
Observed phenotypic effects in mouse and zebrafish models
| Gene / Model | Organism | Observed Phenotype |
|---|---|---|
| etfdh | Danio rerio | Structure: glial cell Quality: malformed abnormal |
Gene Ontology (GO) Annotations & Pathways
Biological processes, molecular functions, cellular components and pathways
Pathways ConsensusPathDB
- Respiratory electron transport
- The citric acid (TCA) cycle and respiratory electron transport
- Metabolism
- Respiratory electron transport, ATP synthesis by chemiosmotic coupling, and heat production by uncoupling proteins.
Biological Process
- response to oxidative stress
- electron transport chain
- respiratory electron transport chain
- fatty acid beta-oxidation using acyl-CoA dehydrogenase
Molecular Function
- electron-transferring-flavoprotein dehydrogenase activity
- electron transfer activity
- oxidoreductase activity
- oxidoreductase activity, oxidizing metal ions with flavin as acceptor
- metal ion binding
Cellular Component
- mitochondrial matrix
- integral component of mitochondrial inner membrane
- mitochondrial membrane
gnomAD Constraint
Source:
- Gene type
- protein_coding
- Transcript type
- protein_coding
- Transcript
- ENST00000511912
- Coding exons
- 13
- Length
- 37499
- Individuals with no LoFs
- 125610
- Homozygous LoFs
- 0
- Heterozygous LoFs
- 137
- Defined
- 125747
- p
- 0.000545
| Z-Score | Observed | Expected | Observed/Expected | Mutation Rate | Total Possible | |
|---|---|---|---|---|---|---|
| Missense | 0.393 | 314 | 334 | 0.940 | 0.0000166 | 4022 |
| Missense (PolyPhen) | 139 | 148.76 | 0.93436 | 1713 | ||
| Synonymous | -0.163 | 119 | 117 | 1.02 | 0.00000609 | 1196 |
| Loss of Function | 1.36 | 24 | 32.3 | 0.742 | 0.00000152 | 397 |
Population LoF Frequency
| Population | CAF | p-value | Status |
|---|---|---|---|
| African | 0.00075 | 0.00074 | rare |
| Latino/Admixed American | 0.0011 | 0.0011 | notable |
| Ashkenazi Jewish | 0.00060 | 0.00050 | rare |
| East Asian | 0.00016 | 0.00016 | rare |
| Finnish | 0.000096 | 0.000092 | rare |
| European (Non-Finnish) | 0.00061 | 0.00061 | rare |
| South Asian | 0.00020 | 0.00020 | rare |
| Other | 0.00051 | 0.00049 | rare |
dbNSFP Gene Annotations
Source:
- Function
- FUNCTION: Accepts electrons from ETF and reduces ubiquinone.;
- Disease
- DISEASE: Glutaric aciduria 2C (GA2C) [MIM:231680]: An autosomal recessively inherited disorder of fatty acid, amino acid, and choline metabolism. It is characterized by multiple acyl-CoA dehydrogenase deficiencies resulting in large excretion not only of glutaric acid, but also of lactic, ethylmalonic, butyric, isobutyric, 2-methyl-butyric, and isovaleric acids. {ECO:0000269|PubMed:12359134, ECO:0000269|PubMed:12815589, ECO:0000269|PubMed:16527485, ECO:0000269|PubMed:17412732, ECO:0000269|PubMed:19249206, ECO:0000269|PubMed:20370797}. Note=The disease is caused by mutations affecting the gene represented in this entry.;
Recessive Scores
- pRec
- 0.315
Intolerance Scores
- LoFtool
- 0.286
- RVIS EVS
- -0.56
- RVIS percentile EVS
- 19.54
Essentials
- Essential (CRISPR)
- N
- Essential (CRISPR2)
- N
- Essential (gene trap)
- N
- Indispensability pred.
- E
- Indispensability score
- 0.951
Gene Damage Prediction
| All | Recessive | Dominant | |
|---|---|---|---|
| Mendelian | Medium | Medium | Medium |
| Primary Immunodeficiency | Medium | Medium | Medium |
| Cancer | Medium | Medium | Medium |