raremaprare-disease reference indexOrphadata 2026-06-23 · HPO 2026-09-01
ORPHA:261652

Kleefstra syndrome due to a point mutation

Type
Etiological subtype
Group
Subtype of disorder
Inheritance
Autosomal dominant
Age of onset
Neonatal
Status
active

This disease is described under Kleefstra syndrome

1

Names in Orphadata languages

12 of 12 languages
LangNameSynonyms
enKleefstra syndrome due to a point mutation
frSyndrome de Kleefstra dû à une mutation ponctuelle
deKleefstra-Syndrom durch Punktmutationen
esSíndrome de Kleefstra por una mutación puntual
itSindrome di Kleefstra da mutazione puntiforme
nlSyndroom van Kleefstra door puntmutatie
ptSíndrome Kleefstra por uma mutação pontual
plZespół Kleefstra z powodu mutacji punktowej
csKleefstrové syndrom způsobený bodovou mutací
ukСиндром Клефстри, зумовлений точковою мутацією
zh点突变所致Kleefstra综合征
trNokta mutasyonuna bağlı Kleefstra sendromu
2

Cross-references

qualifier = Orphanet mapping relation
SourceCodeQualifierICD relationValidation
OMIM610253NTBTvalidated
OMIM617768BTNTvalidated
ICD-10Q87.8NTBTattributedvalidated
ICD-11LD2F.1YNTBTattributedvalidated
MONDO0016865Evalidated
UMLSC5680724Evalidated

E exact · NTBT this ORPHAcode is narrower than the target · BTNT broader than the target · ND not decided.

3

Classification

Preferential parent (Orphanet linearisation):

Parents in the classifications (1):

No children.

4

Genes

2 direct
GeneAssociationStatusHGNCEnsemblOMIMLocusNameSource of validation
EHMT1Disease-causing germline mutation(s) (loss of function) inAssessedHGNC:24650ENSG000001810906070019q34.3euchromatic histone lysine methyltransferase 120945554[PMID]
KMT2CDisease-causing germline mutation(s) (loss of function) inAssessedHGNC:13726ENSG000000556096068337q36.1lysine methyltransferase 2C29069077[PMID]
5

Prevalence and incidence

2 records
TypeClassValueAreaQualificationValidationSource
Cases/families23 casesWorldwideCase(s)Validated22670141[PMID]_[EXPERT]
Point prevalence<1 / 1 000 000—WorldwideClass onlyValidatedORPHANET

Value is Orphadata's ValMoy: the mean estimate per 100 000 for prevalence and incidence, the number of cases or families for case reports.

6

HPO phenotypes

50 annotations · validated 2020-11-10
HPOTerm (as annotated by Orphanet)Diagnostic
Very frequent (99-80%)
HP:0001999Abnormal facial shape
HP:0001263Global developmental delay
HP:0001249Intellectual disability
Frequent (79-30%)
HP:0001627Abnormal heart morphology
HP:0000078Abnormality of the genital system
HP:0000708Atypical behavior
HP:0410263Brain imaging abnormality
HP:0001548Overgrowth
HP:0002719Recurrent infections
Occasional (29-5%)
HP:0002500Abnormal cerebral white matter morphology
HP:0200005Abnormal shape of the palpebral fissure
HP:0000077Abnormality of the kidney
HP:0033127Abnormality of the musculoskeletal system
HP:0000729Autistic behavior
HP:0001321Cerebellar hypoplasia
HP:0002194Delayed gross motor development
HP:0000750Delayed speech and language development
HP:0001508Failure to thrive
HP:0002020Gastroesophageal reflux
HP:0000365Hearing impairment
HP:0002079Hypoplasia of the corpus callosum
HP:0000023Inguinal hernia
HP:0002463Language impairment
HP:0001520Large for gestational age
HP:0000252Microcephaly
HP:0011800Midface retrusion
HP:0011351Moderate receptive language delay
HP:0001270Motor delay
HP:0001250Seizure
HP:0100716Self-injurious behavior
HP:0006863Severe expressive language delay
HP:0004322Short stature
HP:0000179Thick lower lip vermilion
HP:0009909Uplifted earlobe
HP:0002119Ventriculomegaly
HP:0000076Vesicoureteral reflux
Very rare (<4-1%)
HP:0000164Abnormality of the dentition
HP:0002023Anal atresia
HP:0000248Brachycephaly
HP:0000519Developmental cataract
HP:0002171Gliosis
HP:0000974Hyperextensible skin
HP:0000540Hypermetropia
HP:0001252Hypotonia
HP:0000695Natal tooth
HP:0001357Plagiocephaly
HP:0000826Precocious puberty
HP:0001182Tapered finger
HP:0002779Tracheomalacia
HP:0001537Umbilical hernia

Run the differential on the 3 obligate / very frequent terms

Annotation source: 22670141[PMID]_27123477[PMID]_23232695[PMID]

7

Sources for this card