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Any benign neonatal seizures in which the cause of the disease is a mutation in the KCNQ3 gene.
Features include very common findings: Focal clonic seizure. 4 total HPO annotations.
Organ System | Phenotype Count | Example Features |
|---|---|---|
Brain and nerves | 4 | Bilateral tonic-clonic seizure, Focal clonic seizure, Global developmental delay |
To date, about 140 individuals have been identified with a pathogenic variant in KCNQ3 [, , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , ]. The following description of the phenotypic features associated with this condition is based on these reports. Table 2. KCNQ3-Related Disorders: Frequency of Select Features1
Phenotype | Feature | % of Persons w/Feature2 | Comment |
|---|---|---|---|
KCNQ3-SLFNE | Epilepsy | 90% | Age of onset of seizures is between 2-8 days of life; spontaneously disappear between age 1-12 mos in otherwise healthy infant.; Seizures are generally brief, lasting 1-2 minutes. |
Seizure types incl tonic or apneic episodes, focal clonic activity, autonomic changes. Normal psychomotor development | 90% | Rare reports of DD or ID | — |
KCNQ3-SLFIE | Epilepsy | 100% (6/6) | Age of onset of seizures is w/in 1st yr of life, beyond neonatal period, seizures disappear in 1-2 years. |
Seizures are generally brief, lasting ~2 minutes; they are usually focal but can be also generalized. Normal psychomotor development | 100% (6/6) | — | — |
KCNQ3-NDD | Developmental delays/ intellectual disability | 90% | Moderate-to-severe ID |
Autism spectrum disorder | ~20% (12/59) | Autistic features incl stereotypies, mouthing nonfood objects, aggressive, impulsive, self-injurious behaviors.3 Given that ASD features ( other details about phenotype) in larger cohorts of ID/DD are not reported, this figure may be underestimated. | — |
Epilepsy | ~20% | Even persons w/o clinical seizures often have abundant sleep-activated epileptic activity on EEG recordings. | — |
Source: GeneReviews — "KCNQ3-Related Disorders"
KCNQ3 encodes potassium voltage-gated channel subfamily Q member 3 (872 aa). Pore-forming subunit of the voltage-gated potassium (Kv) M-channel which is responsible for the M-current, a key controller of neuronal excitability. Highest expression in Brain Frontal Cortex BA9 (22.6 TPM) and Brain Cortex (18.2 TPM).
Seizures, benign familial neonatal, 2 is associated with mutations in the KCNQ3 gene on chromosome 8.
The KCNQ3 protein participates in Ankyrins link voltage-gated sodium and potassium channels to spectrin and L1 pathway.
KCNQ3 is classified as a druggable target (Cell Surface, Druggable Genome, and Ion Channel categories) with score 3.7.
Pathogenic variants in KCNQ3 reported in typical familial forms of self-limited epilepsies (SLFNE and SLFIE) are commonly missense alterations located within the pore region (S5, S6, and intervening loop) and resulting in loss of function (LOF) of channel activity. Similar but more dramatic functional LOF effects have also been found in KCNQ3 channels carrying autosomal dominantly transmitted pathogenic variants responsible for more severe phenotypes, leading to the hypothesis that the degree of KCNQ3 functional impairment may contribute to clinical disease severity . Given the low number of pathogenic KCNQ3 variants described to date, definitive genotype-phenotype correlations are not very clear.
Source: GeneReviews — "KCNQ3-Related Disorders"
In KCNQ3-SLFNE, penetrance is reduced (0.8-0.85): SLFNE is found in 72/80 (90%) of individuals with a KCNQ3 pathogenic variant [, , , , , , , , , , , , , , , , , ]. Reduced penetrance in KCNQ3-SLFNE and KCNQ3-SLFIE may be due to failure to recognize the seizures (which can be brief and disappear spontaneously very soon after onset) in some individuals. Penetrance in KCNQ3-NDD is little studied given the small number of reported individuals, but pathogenic variants with a proven functional effect are fully penetrant.
Source: GeneReviews — "KCNQ3-Related Disorders"
KCNQ3-related disorders include self-limited familial neonatal epilepsy (SLFNE) and self-limited familial infantile epilepsy (SLFIE), which are epilepsy syndromes associated with a structurally normal brain and mostly normal neurologic findings and psychomotor development. Pathogenic variants in KCNQ3 have also been described in individuals with neurodevelopmental features including developmental delay or intellectual disability with or without seizures.
KCNQ3-related disorders should be suspected in individuals with the following clinical and laboratory findings (by phenotype), imaging findings, and family history.
KCNQ3-related self-limited familial neonatal epilepsy (KCNQ3-SLFNE)
• Clinical findings
Source: GeneReviews — "KCNQ3-Related Disorders"
The genetic differential diagnosis of KCNQ3-related epilepsy includes the differential diagnoses for:
Self-limited familial neonatal epilepsy (SLFNE);
Self-limited familial infantile epilepsy (SLFIE); and
Self-limited familial neonatal-infantile epilepsy (SLFNIE).
Source: GeneReviews — "KCNQ3-Related Disorders"
Genetic testing for KCNQ3 is available. Testing is considered confirmatory for diagnosis.
No approved treatments are currently available for seizures, benign familial neonatal, 2. The disease remains an area of unmet medical need.
No clinical practice guidelines for KCNQ3-related disorders have been published. Evaluations Following Initial Diagnosis To establish the extent of disease and needs in an individual diagnosed with a KCNQ3-related disorder, the evaluations summarized (if not performed as part of the evaluation that led to the diagnosis) are recommended. Table 4. KCNQ3-Related Disorders: Recommended Evaluations Following Initial Diagnosis
System/Concern | Evaluation | Comment |
|---|---|---|
Neurologic | Assessment by neurologist for eval of suspected seizures, as indicated | To incl EEG high-resolution brain MRI if not performed as part of eval prior to diagnosis |
Developmental evaluation | Developmental assessment | To incl motor, adaptive, cognitive, speech-language eval; Eval for early intervention/ special education Neurobehavioral/ |
Psychiatric | Neuropsychiatric eval | For persons age 12 mos: screening for concerns incl sleep disturbances, ADHD, anxiety, /or findings suggestive of ASD |
Musculoskeletal | Orthopedics/ physical medicine rehab/ PT OT eval | To incl assessment of:; Gross motor fine motor skills; Contractures, clubfoot, kyphoscoliosis; Mobility, ADL, need for adaptive devices; Need for PT (to improve gross motor skills) /or OT (to improve fine motor skills) Gastrointestinal/ |
Feeding |
Source: GeneReviews — "KCNQ3-Related Disorders"
In individuals with known gain-of-function pathogenic variants in KCNQ3, the use of the potassium channel opener retigabine/ezogabine may be contraindicated.
Source: GeneReviews — "KCNQ3-Related Disorders"
Search ClinicalTrials.gov in the US and EU Clinical Trials Register in Europe for access to information on clinical studies for a wide range of diseases and conditions. Note: There may not be clinical trials for this disorder.
Source: GeneReviews — "KCNQ3-Related Disorders"
View trials for seizures, benign familial neonatal, 2
To monitor existing manifestations, the individual's response to supportive care, and the emergence of new manifestations, the evaluations summarized in are recommended.
Table 6.
KCNQ3-Related Disorders: Recommended Surveillance
System/Concern | Evaluation | Frequency
| Monitor w/EEG | KCNQ3-SLFNE:
EEG at onset age 3, 12, 24 mos is recommended.
EEG at 24 mos should be normal.
KCNQ3-SLFIE:
EEG at onset age 12, 24, 36 mos is recommended.
The EEG at 36 mos should be normal.
KCNQ3-NDD: sleep EEG at diagnosis is recommended to evaluate presence of sleep-activated epileptic activity.
Assess for new manifestations such as changes in seizure types, changes in tone, movement disorders. | At each visit
Video EEG monitoring | When new or different seizure types are suspected
| Monitor developmental progress, communication skills, educational needs. | At each visit
Neurobehavioral/
| Assessment for anxiety, ADHD, ASD, aggression, self-injury
| Assess family need for social work support care coordination.
Source: GeneReviews — "KCNQ3-Related Disorders"
Phenotype severity distribution: 1 very common feature.
No clinical trials have been registered for seizures, benign familial neonatal, 2.
4 publications have been identified in PubMed for seizures, benign familial neonatal, 2. Research spans Case Report / Case Series (50%) and Basic Science / Preclinical (50%).
Xiong J (2026). [PMID: 41579097](https://pubmed.ncbi.nlm.nih.gov/41579097/). *Epilepsia*. [Basic Science / Preclinical]
Pereira DA (2026). [PMID: 42255468](https://pubmed.ncbi.nlm.nih.gov/42255468/). *Case Rep Pediatr*. [Case Report / Case Series]
Wong SH (2024). [PMID: 38788659](https://pubmed.ncbi.nlm.nih.gov/38788659/). *Epilepsy Behav*. [Case Report / Case Series]
Edmond MA (2024). [PMID: 39300259](https://pubmed.ncbi.nlm.nih.gov/39300259/). *Commun Biol*. [Basic Science / Preclinical]
Data assembled from 6 of 12 sources · Last updated Sep 20, 2026, 1:01 AM UTC
Online Mendelian Inheritance in Man
Genetic and Rare Diseases Info Center
Gastroenterology/ nutrition/ feeding team eval
To incl eval of aspiration risk nutritional status; Consider eval for gastrostomy tube placement in persons w/dysphagia /or aspiration risk. |
Eyes | Ophthalmologic eval | To assess for reduced vision, abnormal ocular movement, best corrected visual acuity, refractive errors, strabismus, more complex findings that may require subspecialty referral |
Hearing | Audiologic eval | To assess for hearing loss |
Genetic counseling | By genetics professionals1 | To obtain a pedigree inform affected persons their families re nature, MOI, implications of KCNQ3-related disorders to facilitate medical personal decision making Family support resources |
KCNQ3-Related Disorders: Treatment of Manifestations Manifestation/Concern | Treatment | Considerations/Other Epilepsy |
SLFNE | Standard treatment w/ASM by experienced neurologist | Seizures are generally well-controlled using standard ASM. Due to the limited nature of the epilepsy, most ASMs are discontinued between age 3-6 mos in KCNQ2-related disorders. |