ZMYM3zinc finger MYM-type containing 3
Autism Reports / Total Reports
2 / 8Rare Variants / Common Variants
27 / 0Aliases
-Associated Syndromes
-Chromosome Band
Xq13.1Associated Disorders
-Relevance to Autism
ZMYM3 was initially identified as a neurodevelopmental disorder candidate gene in a female with intellectual disability who had a balanced translocation affecting the 5'UTR of one isoform of ZMYM3 (van der Maarel et al., 1996) and in three affected brothers with intellectual disability, ADHD, and syndromic features who had a maternally-inherited ZMYM3 missense variant (Philips et al., 2014). Hiatt et al., 2022 utilized the MatchMaker Exchange to assemble a cohort of 27 individuals with rare, protein-altering variation in the ZMYM3 gene; 24 of these individuals were male and presented with overlapping features including developmental delay (23/23 individuals), intellectual disability (17/20 individuals), behavioral abnormalities (including a diagnosis of autism or a report of autistic traits in 15/21 individuals), and a specific facial gestalt, whereas the three affected females in this cohort displayed a more variable phenotype of developmental delay and some facial dysmorphism. Several studies have suggested a link between allelic variation in an exceptionally long short tandem repeat in the 5'UTR of the ZMYM3 gene and schizophrenia, bipolar disorder, and late-onset neurocognitive disorder (Alizadeh et al., 2018; Alizadeh et al., 2019; Afshar et al., 2020).
Molecular Function
This gene is located on the X chromosome and is subject to X inactivation. It is highly conserved in vertebrates and most abundantly expressed in the brain. The encoded protein is a component of histone deacetylase-containing multiprotein complexes that function through modifying chromatin structure to keep genes silent. Plays a role in the regulation of cell morphology and cytoskeletal organization.
External Links
SFARI Genomic Platforms
Reports related to ZMYM3 (8 Reports)
# | Type | Title | Author, Year | Autism Report | Associated Disorders |
---|---|---|---|---|---|
1 | Support | - | Philips AK et al. (2014) | No | ADHD |
2 | Positive Association | - | Alizadeh F et al. (2018) | No | - |
3 | Positive Association | - | Alizadeh F et al. (2019) | No | - |
4 | Support | Large-Scale Exome Sequencing Study Implicates Both Developmental and Functional Changes in the Neurobiology of Autism | Satterstrom FK et al. (2020) | Yes | - |
5 | Positive Association | - | Afshar H et al. (2020) | No | - |
6 | Primary | - | Hiatt SM et al. (2023) | Yes | ADHD |
7 | Support | - | Giovenino C et al. (2023) | No | - |
8 | Support | - | van der Maarel SM et al. (1996) | No | - |
Rare Variants (27)
Status | Allele Change | Residue Change | Variant Type | Inheritance Pattern | Parental Transmission | Family Type | PubMed ID | Author, Year |
---|---|---|---|---|---|---|---|---|
- | - | translocation | Unknown | - | - | 8817323 | van der Maarel SM et al. (1996) | |
c.507A>T | p.Arg169Ser | missense_variant | Unknown | - | Simplex | 36586412 | Hiatt SM et al. (2023) | |
c.2255A>G | p.Tyr752Cys | missense_variant | De novo | - | Simplex | 36586412 | Hiatt SM et al. (2023) | |
c.3192T>C | p.Tyr1064= | synonymous_variant | De novo | - | - | 31981491 | Satterstrom FK et al. (2020) | |
c.3605T>A | p.Val1202Asp | missense_variant | De novo | - | Simplex | 36586412 | Hiatt SM et al. (2023) | |
c.3638T>C | p.Met1213Thr | missense_variant | Unknown | - | Simplex | 36586412 | Hiatt SM et al. (2023) | |
c.3820C>T | p.Arg1274Trp | missense_variant | De novo | - | Simplex | 36586412 | Hiatt SM et al. (2023) | |
c.3880C>T | p.Arg1294Cys | missense_variant | De novo | - | Simplex | 36586412 | Hiatt SM et al. (2023) | |
c.1321C>T | p.Arg441Trp | missense_variant | Unknown | - | Multiplex | 36586412 | Hiatt SM et al. (2023) | |
c.1360T>C | p.Cys454Arg | missense_variant | De novo | - | Multiplex | 36586412 | Hiatt SM et al. (2023) | |
c.905G>A | p.Arg302His | missense_variant | Familial | Maternal | Simplex | 36586412 | Hiatt SM et al. (2023) | |
c.1322G>A | p.Arg441Gln | missense_variant | Familial | Maternal | Simplex | 36586412 | Hiatt SM et al. (2023) | |
c.2794A>G | p.Ile932Val | missense_variant | Familial | Maternal | Simplex | 36586412 | Hiatt SM et al. (2023) | |
c.3409T>A | p.Tyr1137Asn | missense_variant | Familial | Maternal | Simplex | 36586412 | Hiatt SM et al. (2023) | |
c.3970C>T | p.Arg1324Trp | missense_variant | Familial | Maternal | Simplex | 36586412 | Hiatt SM et al. (2023) | |
c.4029G>A | p.Met1343Ile | missense_variant | Familial | Maternal | Simplex | 36586412 | Hiatt SM et al. (2023) | |
c.721G>A | p.Glu241Lys | missense_variant | Familial | Maternal | Multiplex | 36586412 | Hiatt SM et al. (2023) | |
c.1183C>A | p.Arg395Ser | missense_variant | Familial | Maternal | Multiplex | 36586412 | Hiatt SM et al. (2023) | |
c.1192C>T | p.Pro398Ser | missense_variant | Familial | Maternal | Multiplex | 36586412 | Hiatt SM et al. (2023) | |
c.1322G>A | p.Arg441Gln | missense_variant | Familial | Maternal | Multiplex | 36586412 | Hiatt SM et al. (2023) | |
c.2193G>C | p.Glu731Asp | missense_variant | Familial | Maternal | Multiplex | 36586412 | Hiatt SM et al. (2023) | |
c.1321C>T | p.Arg441Trp | missense_variant | Familial | Maternal | Multiplex | 24721225 | Philips AK et al. (2014) | |
c.1322G>A | p.Arg441Gln | missense_variant | Familial | Maternal | Multiplex | 36879111 | Giovenino C et al. (2023) | |
c.205G>A | p.Asp69Asn | missense_variant | Familial | Maternal | Extended multiplex | 36586412 | Hiatt SM et al. (2023) | |
c.3371G>A | p.Arg1124Gln | missense_variant | Familial | Maternal | Extended multiplex | 36586412 | Hiatt SM et al. (2023) | |
c.3518G>A | p.Ser1173Asn | missense_variant | Familial | Maternal | Extended multiplex | 36586412 | Hiatt SM et al. (2023) | |
c.671_672insATGG | p.Asp224GlufsTer10 | frameshift_variant | Familial | Maternal | Simplex | 36586412 | Hiatt SM et al. (2023) |
Common Variants
No common variants reported.
SFARI Gene score
Syndromic


Score Delta: Score remained at S
criteria met
See SFARI Gene'scoring criteriaThe syndromic category includes mutations that are associated with a substantial degree of increased risk and consistently linked to additional characteristics not required for an ASD diagnosis. If there is independent evidence implicating a gene in idiopathic ASD, it will be listed as "#S" (e.g., 2S, 3S, etc.). If there is no such independent evidence, the gene will be listed simply as "S."
Krishnan Probability Score
Score 0.49119380669097
Ranking 5722/25841 scored genes
[Show Scoring Methodology]
ExAC Score
Score 0.99996681593756
Ranking 553/18225 scored genes
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Sanders TADA Score
Score 0.94474774516919
Ranking 16197/18665 scored genes
[Show Scoring Methodology]
Zhang D Score
Score 0.29649314646553
Ranking 2795/20870 scored genes
[Show Scoring Methodology]