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GeneE
25 sources retrieved Β· Most recent: April 2026 Β· Index updated 15 days ago
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GATAD2B
GATA zinc finger domain containing 2B
Chromosome 1 Β· 1q21.3
NCBI Gene: 57459Ensembl: ENSG00000143614.12HGNC: HGNC:30778UniProt: Q8WXI9
172PubMed Papers
1Diseases
0Drugs
111Pathogenic Variants
FUNCTIONAL ROLE
Highly ConstrainedTranscription Factor
RESEARCH IMPACT
TrendingVariant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
protein-containing complexchromosome, telomeric regionchromatinnucleusGand syndrome
✦AI Summary

GATAD2B is a transcriptional repressor and core component of the NuRD chr1 remodeling complex 123. It functions by enhancing MBD2-mediated transcriptional repression and requires GATAD2A for efficient repression 12. Beyond transcriptional regulation, GATAD2B plays critical roles in DNA damage response by promoting histone deacetylation and establishing chr1 boundaries following double-strand breaks 4, and regulates spindle assembly during oocyte meiosis through histone deacetylation 5. GATAD2B's O-GlcNAcylation protects it from ubiquitin-mediated degradation, regulating cancer stem cell properties and chemoresistance in breast cancer 6. Heterozygous pathogenic de novo variants in GATAD2B cause GATAD2B-associated neurodevelopmental disorders (GAND), characterized by intellectual disability with language impairment, infantile hypotonia, macrocephaly, and dysmorphic features 789. Recently, GATAD2B variants have been associated with developmental and epileptic encephalopathy presenting as drug-resistant atypical absences, expanding the clinical spectrum beyond typical developmental delay 9. Additionally, chr1 translocations involving GATAD2B, such as t(X;1) generating GATAD2B::MTCP1 fusion, have emerged in myeloid malignancies 10.

Sources cited
1
GATAD2B functions as a transcriptional repressor that enhances MBD2-mediated repression
PMID: 12183469
2
GATAD2B is a transcriptional repressor requiring GATAD2A for efficient repression
PMID: 16415179
3
GATAD2B acts as a component of the NuRD histone deacetylase complex
PMID: 16428440
4
De novo mutations in GATAD2B cause moderate to severe intellectual disability
PMID: 25356899
5
GATAD2B pathogenic variants identified in neurodevelopmental cohort with intellectual disability
PMID: 38114583
6
GATAD2B pathogenic variants cause developmental and epileptic encephalopathy with drug-resistant seizures
PMID: 39976362
7
GATAD2B O-GlcNAcylation regulates cancer stem cell properties and chemoresistance in breast cancer
PMID: 40136647
8
GATAD2B regulates spindle assembly through histone deacetylation during oocyte meiosis
PMID: 40468728
9
GATAD2B-NuRD complex promotes histone deacetylation and chromatin condensation at DNA breaks
PMID: 38719994
10
GATAD2B::MTCP1 fusion identified in acute myeloid leukemia transformed from chronic myelomonocytic leukemia
PMID: 39696784
Disease Associationsβ“˜1
Gand syndromeUniProt
Pathogenic Variants111
NM_020699.4(GATAD2B):c.535C>T (p.Arg179Ter)Pathogenic
Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome|not provided|Intellectual disability
β˜…β˜…β˜†β˜†2025β†’ Residue 179
NM_020699.4(GATAD2B):c.1241G>A (p.Arg414Gln)Pathogenic
not provided|Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome
β˜…β˜…β˜†β˜†2025β†’ Residue 414
NM_020699.4(GATAD2B):c.432_435del (p.Glu144fs)Pathogenic
not provided|Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome
β˜…β˜…β˜†β˜†2025β†’ Residue 144
NM_020699.4(GATAD2B):c.565_566del (p.Gln190fs)Pathogenic
Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 190
NM_020699.4(GATAD2B):c.1432C>T (p.Arg478Ter)Pathogenic
not provided|Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome
β˜…β˜…β˜†β˜†2025β†’ Residue 478
NM_020699.4(GATAD2B):c.1198_1199del (p.Ser400fs)Pathogenic
Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome|not provided|See cases
β˜…β˜…β˜†β˜†2024β†’ Residue 400
NM_020699.4(GATAD2B):c.1408C>T (p.Gln470Ter)Pathogenic
Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome|Inborn genetic diseases|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 470
NM_020699.4(GATAD2B):c.646del (p.His216fs)Pathogenic
not provided|Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome
β˜…β˜…β˜†β˜†2024β†’ Residue 216
NM_020699.4(GATAD2B):c.199C>T (p.Gln67Ter)Pathogenic
not provided|Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome
β˜…β˜…β˜†β˜†2024β†’ Residue 67
NM_020699.4(GATAD2B):c.818dup (p.Gln274fs)Pathogenic
Inborn genetic diseases|Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome
β˜…β˜…β˜†β˜†2023β†’ Residue 274
NM_020699.4(GATAD2B):c.520C>T (p.Arg174Ter)Pathogenic
Inborn genetic diseases|not provided|Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome
β˜…β˜…β˜†β˜†2023β†’ Residue 174
NM_020699.4(GATAD2B):c.655C>T (p.Gln219Ter)Pathogenic
not provided
β˜…β˜…β˜†β˜†2023β†’ Residue 219
NM_020699.4(GATAD2B):c.918del (p.Pro307fs)Pathogenic
not provided|Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome
β˜…β˜…β˜†β˜†2023β†’ Residue 307
NM_020699.4(GATAD2B):c.597+1G>ALikely pathogenic
Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome|Inborn genetic diseases
β˜…β˜…β˜†β˜†2023
NM_020699.4(GATAD2B):c.658C>T (p.Gln220Ter)Pathogenic
not provided|Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome
β˜…β˜…β˜†β˜†2023β†’ Residue 220
NM_020699.4(GATAD2B):c.973C>T (p.Gln325Ter)Pathogenic
not provided|Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome
β˜…β˜…β˜†β˜†2023β†’ Residue 325
NM_020699.4(GATAD2B):c.346C>T (p.Arg116Ter)Pathogenic
not provided|GATAD2B-related disorder|GATAD2B-related intellectual disability syndrome|Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome
β˜…β˜…β˜†β˜†2023β†’ Residue 116
NM_020699.4(GATAD2B):c.1429C>T (p.Gln477Ter)Pathogenic
Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome|not provided
β˜…β˜…β˜†β˜†2023β†’ Residue 477
NM_020699.4(GATAD2B):c.1438C>T (p.Gln480Ter)Pathogenic
not provided|Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome
β˜…β˜…β˜†β˜†2023β†’ Residue 480
NM_020699.4(GATAD2B):c.574C>T (p.Gln192Ter)Pathogenic
Severe intellectual disability-poor language-strabismus-grimacing face-long fingers syndrome|not provided
β˜…β˜…β˜†β˜†2023β†’ Residue 192
View on ClinVar β†—
Related Genes
H2AC20Protein interaction100%BRD4Protein interaction100%H2BC21Protein interaction100%H2AZ1Protein interaction100%HDAC1Protein interaction99%CDK2AP1Protein interaction99%
Tissue Expression

No tissue expression data available for this gene.

Gene Interaction Network
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GATAD2BH2AC20BRD4H2BC21H2AZ1HDAC1CDK2AP1
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted Β· UniProt Q8WXI9
View on AlphaFold β†—
Constraintβ“˜
LOEUFβ“˜
0.24Highly Constrained
pLIβ“˜
1.00Intolerant
Observed/Expected LoF0.12 [0.06–0.24]
RankingsWhere GATAD2B stands among ~20K protein-coding genes
  • #2,562of 20,598
    Most Researched172 Β· top quartile
  • #707of 5,498
    Most Pathogenic Variants111 Β· top quartile
  • #675of 17,882
    Most Constrained (LOEUF)0.24 Β· top 5%
Genes detectedGATAD2B
Sources retrieved25 papers
Response timeβ€”
πŸ“„ Sources
25β–Ό
1
De novo mutations in moderate or severe intellectual disability.
PMID: 25356899
PLoS Genet Β· 2014
1.00
2
Integrative RNA profiling of TBEV-infected neurons and astrocytes reveals potential pathogenic effectors.
PMID: 35685361
Comput Struct Biotechnol J Β· 2022
0.90
3
De novo variants underlying monogenic syndromes with intellectual disability in a neurodevelopmental cohort from India.
PMID: 38114583
Eur J Hum Genet Β· 2024
0.80
4
GATAD2B-related developmental and epileptic encephalopathy (DEE): Extending the epilepsy phenotype and a literature appraisal.
PMID: 39976362
Epilepsia Open Β· 2025
0.70
5
1q21.3 deletion involving GATAD2B: An emerging recurrent microdeletion syndrome.
PMID: 28211977
Am J Med Genet A Β· 2017
0.64