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GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 15 days ago
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AHDC1
AT-hook DNA binding motif containing 1
Chromosome 1 Β· 1p36.11-p35.3
NCBI Gene: 27245Ensembl: ENSG00000126705.16HGNC: HGNC:25230UniProt: Q5TGY3
64PubMed Papers
21Diseases
0Drugs
176Pathogenic Variants
FUNCTIONAL ROLE
Highly ConstrainedTranscription Factor
RESEARCH IMPACT
Variant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
DNA-binding transcription factor activityprotein bindingpromoter-enhancer loop anchoring activitymesoderm formationAHDC1-related intellectual disability-obstructive sleep apnea-mild dysmorphism syndromeIntellectual disabilitygenetic disordersleep apnea
✦AI Summary

AHDC1 (AT-hook DNA binding motif containing 1), also known as Gibbin, is a transcription factor essential for early epithelial morphogenesis and skin development 1. The protein directly binds promoter and enhancer regions to maintain local enhancer-promoter chr1 architecture 1. AHDC1 interacts with sequence-specific zinc-finger transcription factors and methyl-CpG-binding proteins to regulate mesoderm gene expression, enabling proper dermal-epidermal signaling and keratinocyte stratification 1. Loss of AHDC1 function increases DNA methylation at mesodermal genes, disrupting ectoderm-mesoderm patterning and resulting in defective epidermal stratification 1. Clinically, AHDC1 mutations cause Xia-Gibbs syndrome (XGS), a rare neurodevelopmental disorder characterized by intellectual disability, developmental delay, hypotonia, and speech impairment 23. Recent studies reveal broader physiological roles: AHDC1 deficiency causes obesity with reduced energy expenditure, insulin resistance, and metabolic dysfunction 4. Emerging evidence suggests genotype-phenotype correlations, with N-terminal variants associated with developmental regression and other variants linked to epilepsy and scoliosis 2. Novel associations include musculoskeletal abnormalities and genital/gonadal alterations, indicating multisystem involvement beyond neurodevelopmental deficits 2. AHDC1 has been reclassified from a Tdark to Tbio gene, reflecting increasing recognition of its biological and clinical significance 5.

Sources cited
1
AHDC1 (Gibbin) is a transcription factor required for epithelial morphogenesis; directly binds promoter/enhancer regions to maintain chromatin architecture; interacts with zinc-finger transcription factors and methyl-CpG-binding proteins to regulate mesoderm genes; loss causes increased DNA methylation at mesodermal genes and defective epidermal stratification
PMID: 35585237
2
XGS phenotype includes ID, hypotonia, motor delay, speech impairment, autism spectrum disorder; novel associations with hyperphagia, genital/gonadal alterations, and Achilles tendon shortening; genotype-phenotype associations between N-terminal variants and developmental regression, and other variants with epilepsy and scoliosis
PMID: 40501103
3
De novo missense AHDC1 mutations cause XGS with phenotypes including delayed motor milestones, intellectual disability, hypotonia, and speech delay; missense mutations cluster in conserved protein domains representing functional motifs
PMID: 34950897
4
AHDC1 deficiency in mice leads to obesity from weaning, reduced energy expenditure, hyperleptinemia, insulin resistance, abnormal glycolipid metabolism, and fatty liver; AHDC1 is a key regulator of obesity and energy metabolism
PMID: 37819197
5
AHDC1 was reclassified from Tdark to Tbio gene in 2023; it is a top-ranking gene in SFARI database for its role in neurodevelopmental disorder Xia-Gibbs syndrome; identified in 2014; historically understudied but growing research interest
PMID: 40844525
Disease Associationsβ“˜21
AHDC1-related intellectual disability-obstructive sleep apnea-mild dysmorphism syndromeOpen Targets
0.83Strong
Intellectual disabilityOpen Targets
0.71Strong
genetic disorderOpen Targets
0.53Moderate
sleep apneaOpen Targets
0.51Moderate
Delayed speech and language developmentOpen Targets
0.51Moderate
HypotoniaOpen Targets
0.46Moderate
Global developmental delayOpen Targets
0.46Moderate
Neonatal hypotoniaOpen Targets
0.45Moderate
Neurodevelopmental abnormalityOpen Targets
0.45Moderate
Neurodevelopmental delayOpen Targets
0.41Moderate
Neurodevelopmental disorderOpen Targets
0.34Weak
Rare genetic intellectual disability with developmental anomalyOpen Targets
0.34Weak
Cerebellar vermis hypoplasiaOpen Targets
0.33Weak
metabolic syndromeOpen Targets
0.27Weak
isolated cerebellar hypoplasia/agenesisOpen Targets
0.26Weak
neurodegenerative diseaseOpen Targets
0.23Weak
placenta praeviaOpen Targets
0.22Weak
sialolithiasisOpen Targets
0.20Weak
optic neuritisOpen Targets
0.12Weak
neuropathyOpen Targets
0.10Suggestive
Xia-Gibbs syndromeUniProt
Pathogenic Variants176
NM_001371928.1(AHDC1):c.1759C>T (p.Arg587Ter)Pathogenic
not provided|AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome
β˜…β˜…β˜†β˜†2025β†’ Residue 587
NM_001371928.1(AHDC1):c.3543dup (p.Phe1182fs)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 1182
NM_001371928.1(AHDC1):c.2062C>T (p.Arg688Ter)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome|not provided|Intellectual disability
β˜…β˜…β˜†β˜†2025β†’ Residue 688
NM_001371928.1(AHDC1):c.2968C>T (p.Gln990Ter)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome
β˜…β˜…β˜†β˜†2024β†’ Residue 990
NM_001371928.1(AHDC1):c.2365C>T (p.Arg789Ter)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 789
NM_001371928.1(AHDC1):c.2773C>T (p.Arg925Ter)Pathogenic
Abdominal obesity-metabolic syndrome 3|not provided|AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome
β˜…β˜…β˜†β˜†2024β†’ Residue 925
NM_001371928.1(AHDC1):c.994C>T (p.Gln332Ter)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome|not provided
β˜…β˜…β˜†β˜†2023β†’ Residue 332
NM_001371928.1(AHDC1):c.3814C>T (p.Arg1272Ter)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome
β˜…β˜…β˜†β˜†2023β†’ Residue 1272
NM_001371928.1(AHDC1):c.2373_2374del (p.Cys791fs)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome|Intellectual disability;Delayed speech and language development;Global developmental delay;Neonatal hypotonia;Sleep apnea|not provided|Hypotonia;Delayed speech and language development;Sleep apnea
β˜…β˜…β˜†β˜†2022β†’ Residue 791
NM_001371928.1(AHDC1):c.2188G>T (p.Glu730Ter)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome|Inborn genetic diseases
β˜…β˜…β˜†β˜†2022β†’ Residue 730
NM_001371928.1(AHDC1):c.1122del (p.Pro376fs)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome|AHDC1-related disorder
β˜…β˜…β˜†β˜†2022β†’ Residue 376
NM_001371928.1(AHDC1):c.1433del (p.Met478fs)Pathogenic
Inborn genetic diseases|AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome
β˜…β˜…β˜†β˜†2022β†’ Residue 478
NM_001371928.1(AHDC1):c.1481_1482del (p.Lys494fs)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome
β˜…β˜…β˜†β˜†2021β†’ Residue 494
NM_001371928.1(AHDC1):c.1758dup (p.Arg587fs)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome|not provided|Neurodevelopmental abnormality
β˜…β˜…β˜†β˜†2021β†’ Residue 587
NM_001371928.1(AHDC1):c.2547del (p.Ser850fs)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome|Intellectual disability;Delayed speech and language development;Global developmental delay;Neonatal hypotonia;Sleep apnea|Hypotonia;Delayed speech and language development;Sleep apnea
β˜…β˜…β˜†β˜†2014β†’ Residue 850
NM_001371928.1(AHDC1):c.1009del (p.Leu337fs)Likely pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome
β˜…β˜†β˜†β˜†2026β†’ Residue 337
NM_001371928.1(AHDC1):c.2516A>C (p.Tyr839Ser)Likely pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 839
NM_001371928.1(AHDC1):c.3069_3084del (p.Pro1024fs)Likely pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome
β˜…β˜†β˜†β˜†2025β†’ Residue 1024
NM_001371928.1(AHDC1):c.2667_2685del (p.Ser890fs)Pathogenic
AHDC1-related intellectual disability - obstructive sleep apnea - mild dysmorphism syndrome
β˜…β˜†β˜†β˜†2025β†’ Residue 890
NM_001371928.1(AHDC1):c.4692C>A (p.Tyr1564Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 1564
View on ClinVar β†—
Related Genes
MSGN1Shared pathway50%MESP2Shared pathway33%TBX19Shared pathway20%CDSNShared pathway14%TBXTShared pathway11%WLSShared pathway10%
Tissue Expression6 tissues
Ovary
100%
Brain
52%
Lung
43%
Heart
37%
Liver
31%
Bone Marrow
20%
Gene Interaction Network
Click a node to explore
AHDC1MSGN1MESP2TBX19CDSNTBXTWLS
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted Β· UniProt Q5TGY3
View on AlphaFold β†—
Constraintβ“˜
LOEUFβ“˜
0.17Highly Constrained
pLIβ“˜
1.00Intolerant
Observed/Expected LoF0.09 [0.05–0.17]
RankingsWhere AHDC1 stands among ~20K protein-coding genes
  • #7,232of 20,598
    Most Researched64
  • #416of 5,498
    Most Pathogenic Variants176 Β· top 10%
  • #288of 17,882
    Most Constrained (LOEUF)0.17 Β· top 5%
Genes detectedAHDC1
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Molecular features of AHDC1: insights into an overlooked gene with broad functional potential.
PMID: 40844525
Hum Genet Β· 2025
1.00
2
Ahdc1 is a potent regulator of obesity and energy metabolism.
PMID: 37819197
Am J Physiol Endocrinol Metab Β· 2023
0.90
3
Long read sequencing and expression studies of AHDC1 deletions in Xia-Gibbs syndrome reveal a novel genetic regulatory mechanism.
PMID: 36054313
Hum Mutat Β· 2022
0.80
4
Gibbin mesodermal regulation patterns epithelial development.
PMID: 35585237
Nature Β· 2022
0.70
5
PMID: 34950897
HGG Adv Β· 2021
0.60