Summary Statistics:
ASD Reports: 13
Recent Reports: 1
Annotated variants: 76
Associated CNVs: 1
Evidence score: 4
Gene Score:
Relevance to Autism
De novo frameshift variants in the KMT2B were recently reported in two unrelated individuals diagnosed with autism spectrum disorder: the first was from the Children's Neurodevelopmental Center, Hasbro Children's Hospital and also presented with dysmorphic features, developmental delay/intellectual disability, and additional behavioral comorbidities, while the second was from a cohort of 112 Chinese ASD patients and their non-ASD parents from Peking University Sixth Hospital (Chang et al., 2024; Lob et al., 2024). Additional de novo variants in the KMT2B gene, incluiding a de novo nonsense variant, a de novo splice-donor variant, and five de novo missense variants, have been observed in ASD probands from the Autism Sequencing Consortium, the Simons Simplex Collection, the SPARK cohort, and the MSSNG cohort (Iossifov et al., 2014; Yuen et al., 2017; Feliciano et al., 2019; Satterstrom et al., 2020; Zhou et al., 2022; Fu et al., 2022). Heterozygous mutations in the KMT2B gene are also responsible for autosomal dominant intellectual developmental disorder 68 (MRD68; OMIM 619934) and childhood-onset dystonia 28 (DYT28; OMIM 617284). Cif et al., 2020 described a cohort of 53 patients with KMT2B mutations presenting with either dystonia (n=44) or a non-dystonic neurodevelopmental phenotype (n=9); autism spectrum disorder was reported in individuals from both subsets of KMT2B-associated disease.
Molecular Function
This gene encodes a protein which contains multiple domains including a CXXC zinc finger, three PHD zinc fingers, two FY-rich domains, and a SET (suppressor of variegation, enhancer of zeste, and trithorax) domain. The SET domain is a conserved C-terminal domain that characterizes proteins of the MLL (mixed-lineage leukemia) family. This gene is ubiquitously expressed in adult tissues.
References
Primary
Genetic Diagnostic Yield in Autism Spectrum Disorder (ASD) and Epilepsy Phenotypes in Children with Genetically Defined ASD
ASD
DD, ID
Support
KMT2B-related disorders: expansion of the phenotypic spectrum and long-term efficacy of deep brain stimulation
Autosomal dominant intellectual developmental diso
ASD, ADHD
Support
Genetic Traces in Autism Spectrum Disorders: A Whole Exome Sequencing Study from Türkiye
ASD
DD
Support
Large-Scale Exome Sequencing Study Implicates Both Developmental and Functional Changes in the Neurobiology of Autism
ASD
Support
Pathogenic variants in chromatin-related genes: Linking immune dysregulation to neuroregression and acute neuropsychiatric disorders
ASD, DD
Support
Exome sequencing of 457 autism families recruited online provides evidence for autism risk genes
ASD
Support
Variable expressivity of KMT2B variants at codon 2565 in patients with dystonia and developmental disorders
DD, ID, dystonia
ASD
Support
Whole genome sequencing resource identifies 18 new candidate genes for autism spectrum disorder
ASD
Support
Genomic insights from a deeply phenotyped highly consanguineous neurodevelopmental disorders cohort
DD
ASD or autistic behavior, epilepsy/seizures
Support
The contribution of de novo coding mutations to autism spectrum disorder
ASD
Support
Rare coding variation provides insight into the genetic architecture and phenotypic context of autism
ASD
Support
Integrating de novo and inherited variants in 42
ASD
Recent recommendation
Whole-genome sequencing identifies novel genes for autism in Chinese trios
ASD
GEN1466R001
frameshift_variant
c.6895dup
p.Arg2299ProfsTer4
De novo
GEN1466R002
frameshift_variant
c.6754_6755insGC
p.Ala2252GlyfsTer10
De novo
Simplex
GEN1466R003
synonymous_variant
c.4368C>T
p.Phe1456=
De novo
Simplex
GEN1466R004
synonymous_variant
c.2871C>T
p.His957=
De novo
Simplex
GEN1466R005
synonymous_variant
c.4056C>T
p.Ser1352=
De novo
Multiplex
GEN1466R006
missense_variant
c.7715C>T
p.Thr2572Met
De novo
Multiplex
GEN1466R007
missense_variant
c.3050C>T
p.Ala1017Val
De novo
GEN1466R008
stop_gained
c.5335C>T
p.Arg1779Ter
De novo
GEN1466R009
missense_variant
c.5475T>G
p.Asp1825Glu
De novo
Simplex
GEN1466R010
inframe_insertion
c.11_16dup
p.Ala4_Ala5dup
De novo
Simplex
GEN1466R011
synonymous_variant
c.894T>G
p.Gly298=
De novo
Simplex
GEN1466R012
synonymous_variant
c.2736G>A
p.Ala912=
De novo
GEN1466R013
splice_site_variant
c.2999_3002+6del
De novo
GEN1466R014
missense_variant
c.6869C>T
p.Pro2290Leu
De novo
GEN1466R015
missense_variant
c.5381A>C
p.His1794Pro
De novo
GEN1466R016
synonymous_variant
c.6027C>T
p.Ala2009=
De novo
GEN1466R017
synonymous_variant
c.7506G>A
p.Pro2502=
De novo
GEN1466R018
copy_number_loss
De novo
GEN1466R019
copy_number_loss
Unknown
GEN1466R020
frameshift_variant
c.12_24dup
p.Ser9GlyfsTer111
De novo
GEN1466R021
frameshift_variant
c.118del
p.Ala40ProfsTer6
De novo
Multiplex (monozygotic twins)
GEN1466R022
frameshift_variant
c.816dup
p.Gly273ArgfsTer61
De novo
GEN1466R023
stop_gained
c.850C>T
p.Gln284Ter
De novo
GEN1466R024
frameshift_variant
c.1107dup
p.Glu370ArgfsTer19
De novo
GEN1466R025
frameshift_variant
c.1656dup
p.Lys553GlnfsTer46
De novo
GEN1466R026
frameshift_variant
c.2137dup
p.Thr713AsnfsTer4
Unknown
Not maternal
GEN1466R027
stop_gained
c.2227_2228delinsTAG
p.Ala743Ter
Unknown
GEN1466R028
stop_gained
c.2425C>T
p.Gln809Ter
De novo
GEN1466R029
stop_gained
c.2428C>T
p.Gln810Ter
De novo
GEN1466R030
stop_gained
c.2434C>T
p.Gln812Ter
Unknown
GEN1466R031
missense_variant
c.3014G>A
p.Cys1005Tyr
De novo
GEN1466R032
splice_site_variant
c.3058+1G>A
De novo
GEN1466R033
frameshift_variant
c.3147_3160del
p.Gly1050ProfsTer33
Familial
Maternal
GEN1466R034
frameshift_variant
c.3325del
p.Arg1109GlufsTer73
Unknown
Multiplex
GEN1466R035
stop_gained
c.3592_3626del
p.Gly1198GlnfsTer14
De novo
GEN1466R036
frameshift_variant
c.3602del
p.Pro1201ArgfsTer154
De novo
GEN1466R037
splice_site_variant
c.3642+5G>A
De novo
GEN1466R038
frameshift_variant
c.3997del
p.Glu1333ArgfsTer22
Unknown
Not maternal
GEN1466R039
stop_gained
c.4760dup
p.Tyr1587Ter
Unknown
GEN1466R040
stop_gained
c.4760dup
p.Tyr1587Ter
De novo
GEN1466R041
missense_variant
c.4789C>T
p.Arg1597Trp
De novo
GEN1466R042
inframe_deletion
c.4825_4827del
p.Val1609del
De novo
GEN1466R043
missense_variant
c.4847C>T
p.Ala1616Val
De novo
GEN1466R044
missense_variant
c.4931G>T
p.Cys1644Phe
De novo
GEN1466R045
missense_variant
c.4960T>C
p.Cys1654Arg
Familial
Maternal
GEN1466R046
frameshift_variant
c.5230_5233del
p.Ser1744IlefsTer150
Unknown
Not maternal
GEN1466R047
frameshift_variant
c.5658del
p.Ser1887ProfsTer8
De novo
GEN1466R048
frameshift_variant
c.5682del
p.Thr1895ProfsTer39
Unknown
GEN1466R049
frameshift_variant
c.5724_5751del
p.Pro1909LeufsTer16
De novo
GEN1466R050
frameshift_variant
c.6090dup
p.Thr2031HisfsTer29
De novo
GEN1466R051
frameshift_variant
c.6245_6266dup
p.Val2090HisfsTer25
De novo
GEN1466R052
stop_gained
c.6439C>T
p.Gln2147Ter
De novo
GEN1466R053
splice_site_variant
c.7297+1G>A
De novo
GEN1466R054
splice_site_variant
c.7298-1G>A
De novo
GEN1466R055
stop_gained
c.7348C>T
p.Arg2450Ter
Unknown
Not maternal
GEN1466R056
frameshift_variant
c.7614del
p.Thr2539ProfsTer75
De novo
GEN1466R057
stop_gained
c.7759C>T
p.Arg2587Ter
De novo
GEN1466R058
missense_variant
c.7943C>T
p.Ala2648Val
Unknown
Not maternal
GEN1466R059
missense_variant
c.7945C>T
p.Arg2649Cys
Unknown
GEN1466R060
frameshift_variant
c.1127_1130del
p.Lys376ArgfsTer10
De novo
GEN1466R061
missense_variant
c.3665G>A
p.Cys1222Tyr
De novo
GEN1466R062
stop_gained
c.3885G>A
p.Trp1295Ter
De novo
GEN1466R063
missense_variant
c.4789C>T
p.Arg1597Trp
De novo
GEN1466R064
missense_variant
c.5046C>G
p.Cys1682Trp
De novo
GEN1466R065
frameshift_variant
c.6895dup
p.Arg2299ProfsTer4
De novo
GEN1466R066
frameshift_variant
c.7271dup
p.Ser2425GlnfsTer3
De novo
GEN1466R067a
missense_variant
c.479C>T
p.Pro160Leu
Unknown
GEN1466R067b
missense_variant
c.573G>T
p.Gln191His
Unknown
GEN1466R068
missense_variant
c.6683C>A
p.Ala2228Asp
Unknown
GEN1466R069
missense_variant
c.4198C>T
p.Arg1400Cys
Unknown
GEN1466R070
missense_variant
c.7693C>G
p.Arg2565Gly
Familial
Paternal
Simplex
GEN1466R071
missense_variant
c.7693C>G
p.Arg2565Gly
Unknown
Multiplex
GEN1466R072
missense_variant
c.7693C>T
p.Arg2565Cys
De novo
Simplex
GEN1466R073
frameshift_variant
c.7288_7292dup
p.Glu2432AlafsTer9
De novo
Simplex
GEN1466R074
missense_variant
c.2318A>G
p.Glu773Gly
Familial
Maternal
GEN1466R075
splice_region_variant
c.7160-4C>T
Unknown
No Common Variants Available
No Animal Model Data Available
No PIN Data Available