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GeneE
25 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
β“˜GeneE is for informational purposes only. It is not a substitute for professional medical advice, diagnosis, or treatment.
CUX1
cut like homeobox 1
Chromosome 7 Β· 7q22.1
NCBI Gene: 1523Ensembl: ENSG00000257923.13HGNC: HGNC:2557UniProt: P39880
195PubMed Papers
21Diseases
0Drugs
52Pathogenic Variants
FUNCTIONAL ROLE
Highly ConstrainedTranscription FactorTransporter
RESEARCH IMPACT
TrendingVariant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
nucleoplasmnucleusGolgi apparatussequence-specific DNA bindingglobal developmental delay with or without impaired intellectual developmentcancermyelodysplastic syndromegenetic disorder
✦AI Summary

CUX1 is a homeodomain transcription factor that plays multifaceted roles in development and disease. Functionally, CUX1 regulates cell cycle progression at the G1/S transition through proteolytic processing into a 110 kDa N-terminal truncated form (CDP/Cux p110) that stably binds DNA and activates genes like POLA1 1. CUX1 controls expression of genes involved in DNA replication, mitosis, and cell motility 1, while also regulating dendrite branching and synapse formation in cortical pyramidal neurons 1. Pathogenic heterozygous CUX1 variants cause neurodevelopmental disorder characterized by delayed speech and motor development, intellectual disability, seizures, and joint laxity 2. Mouse models demonstrate that haploinsufficiency reduces CUX1 protein expression and increases seizure susceptibility, though symptoms may ameliorate with age 2. CUX1 exhibits paradoxical roles in cancer: loss of heterozygosity or mutations function as tumor suppression, while genomic amplification and overexpression in advanced tumors correlate with poor prognosis 34. In myeloid malignancies, CUX1 loss on chromosome 7 cooperates with EZH2 inactivation to promote chemotherapy resistance through defective DNA damage response 56. Recent evidence reveals CUX1 exerts species-specific effects on adipogenesis, promoting human adipocyte differentiation while inhibiting mouse differentiation 7.

Sources cited
1
Heterozygous CUX1 variants cause developmental delay, intellectual disability, seizures, and reduced CUX1 expression in heterozygous mice with age-dependent amelioration
PMID: 37644171
2
CUX1 regulates genes in DNA replication, S phase progression, cell motility, dendrite branching and synapse formation
PMID: 22306263
3
CUX1 functions as a haploinsufficient tumor suppressor yet is paradoxically overexpressed in tumors, representing a controversial dual role
PMID: 32547943
4
CUX1 exhibits haploinsufficiency in tumor suppression while increased expression associates with tumor progression
PMID: 25190083
5
Combined CUX1 and EZH2 loss drives chemotherapy resistance and myeloid neoplasm development through defective DNA damage response
PMID: 40453147
6
CUX1 is a critical tumor suppressor on chromosome 7q involved in myeloid malignancy pathogenesis
PMID: 35084368
7
CUX1 promotes human adipocyte differentiation but inhibits mouse adipocyte differentiation, showing species-specific opposing roles
PMID: 41318063
Disease Associationsβ“˜21
global developmental delay with or without impaired intellectual developmentOpen Targets
0.75Strong
cancerOpen Targets
0.59Moderate
myelodysplastic syndromeOpen Targets
0.53Moderate
genetic disorderOpen Targets
0.52Moderate
acute lymphoblastic leukemiaOpen Targets
0.51Moderate
basal cell carcinomaOpen Targets
0.48Moderate
leukemiaOpen Targets
0.47Moderate
breast carcinomaOpen Targets
0.47Moderate
skin neoplasmOpen Targets
0.46Moderate
Neurodevelopmental disorderOpen Targets
0.45Moderate
atrial fibrillationOpen Targets
0.45Moderate
chronic myelogenous leukemiaOpen Targets
0.44Moderate
alcohol drinkingOpen Targets
0.43Moderate
skin cancerOpen Targets
0.43Moderate
preeclampsiaOpen Targets
0.43Moderate
lymphoid neoplasmOpen Targets
0.37Weak
pancreatic neuroendocrine tumorOpen Targets
0.37Weak
pancreatic carcinomaOpen Targets
0.37Weak
prostate adenocarcinomaOpen Targets
0.37Weak
skin basal cell carcinomaOpen Targets
0.37Weak
Neurodevelopmental disorder with developmental delay and with or without motor or speech delayUniProt
Pathogenic Variants52
NM_181552.4(CUX1):c.1981C>T (p.Arg661Ter)Pathogenic
Global developmental delay with or without impaired intellectual development|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 661
NM_181552.4(CUX1):c.2584C>T (p.Gln862Ter)Pathogenic
Global developmental delay with or without impaired intellectual development|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 862
NM_181552.4(CUX1):c.1576del (p.Ser526fs)Pathogenic
Neurodevelopmental disorder|Global developmental delay with or without impaired intellectual development
β˜…β˜…β˜†β˜†2022β†’ Residue 526
NM_181552.4(CUX1):c.3164dup (p.Ala1056fs)Pathogenic
Global developmental delay with or without impaired intellectual development|not provided
β˜…β˜…β˜†β˜†2022β†’ Residue 1056
NM_181552.4(CUX1):c.2950C>T (p.Arg984Ter)Pathogenic
Global developmental delay with or without impaired intellectual development
β˜…β˜†β˜†β˜†2025β†’ Residue 984
NM_181552.4(CUX1):c.3721C>T (p.Gln1241Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 1241
NM_181552.4(CUX1):c.2637G>A (p.Trp879Ter)Likely pathogenic
Global developmental delay with or without impaired intellectual development
β˜…β˜†β˜†β˜†2025β†’ Residue 879
NM_181552.4(CUX1):c.1289del (p.Pro430fs)Pathogenic
Inborn genetic diseases
β˜…β˜†β˜†β˜†2025β†’ Residue 430
NM_181552.4(CUX1):c.466C>T (p.Gln156Ter)Pathogenic
Global developmental delay with or without impaired intellectual development
β˜…β˜†β˜†β˜†2024β†’ Residue 156
NM_181552.4(CUX1):c.1314_1327del (p.Gly439fs)Likely pathogenic
not provided
β˜…β˜†β˜†β˜†2024β†’ Residue 439
NM_001913.5(CUX1):c.1855_1856del (p.Thr619fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2024β†’ Residue 619
NM_181552.4(CUX1):c.346C>T (p.Gln116Ter)Pathogenic
Inborn genetic diseases
β˜…β˜†β˜†β˜†2024β†’ Residue 116
NM_181552.4(CUX1):c.4242_4260del (p.Ala1415fs)Likely pathogenic
Inborn genetic diseases
β˜…β˜†β˜†β˜†2024β†’ Residue 1415
NM_001913.5(CUX1):c.1451-2A>GLikely pathogenic
Global developmental delay with or without impaired intellectual development
β˜…β˜†β˜†β˜†2024
NM_181552.4(CUX1):c.1042C>T (p.Gln348Ter)Likely pathogenic
Global developmental delay with or without impaired intellectual development
β˜…β˜†β˜†β˜†2024β†’ Residue 348
NM_181552.4(CUX1):c.3170_3171del (p.Pro1057fs)Likely pathogenic
not provided
β˜…β˜†β˜†β˜†2024β†’ Residue 1057
NM_181552.4(CUX1):c.1297C>T (p.Gln433Ter)Pathogenic
Inborn genetic diseases
β˜…β˜†β˜†β˜†2024β†’ Residue 433
NM_181552.4(CUX1):c.16G>T (p.Gly6Ter)Likely pathogenic
Global developmental delay with or without impaired intellectual development
β˜…β˜†β˜†β˜†2024β†’ Residue 6
NM_181552.4(CUX1):c.3556C>T (p.Gln1186Ter)Pathogenic
Global developmental delay with or without impaired intellectual development
β˜…β˜†β˜†β˜†2023β†’ Residue 1186
NM_001913.5(CUX1):c.1782C>A (p.Tyr594Ter)Likely pathogenic
Global developmental delay with or without impaired intellectual development
β˜…β˜†β˜†β˜†2023β†’ Residue 594
View on ClinVar β†—
Related Genes
SS18L1Shared pathway100%RB1Protein interaction100%CCNA2Protein interaction98%SOX2Protein interaction90%GOLGA5Protein interaction89%TBR1Protein interaction88%
Tissue Expression6 tissues
Heart
100%
Lung
60%
Ovary
60%
Bone Marrow
57%
Brain
46%
Liver
31%
Gene Interaction Network
Click a node to explore
CUX1SS18L1RB1CCNA2SOX2GOLGA5TBR1
PROTEIN STRUCTURE
Preparing viewer…
PDB8WQF Β· 3.27 Γ… Β· EM
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
0.28Highly Constrained
pLIβ“˜
1.00Intolerant
Observed/Expected LoF0.20 [0.15–0.28]
RankingsWhere CUX1 stands among ~20K protein-coding genes
  • #2,172of 20,598
    Most Researched195 Β· top quartile
  • #1,288of 5,498
    Most Pathogenic Variants52 Β· top quartile
  • #966of 17,882
    Most Constrained (LOEUF)0.28 Β· top 10%
Genes detectedCUX1
Sources retrieved25 papers
Response timeβ€”
πŸ“„ Sources
25β–Ό
1
CUX1-related neurodevelopmental disorder: deep insights into phenotype-genotype spectrum and underlying pathology.
PMID: 37644171
Eur J Hum Genet Β· 2023
1.00
2
FGFR inhibitors: Effects on cancer cells, tumor microenvironment and whole-body homeostasis (Review).
PMID: 27245147
Int J Mol Med Β· 2016
0.90
3
CUX1 transcription factors: from biochemical activities and cell-based assays to mouse models and human diseases.
PMID: 22306263
Gene Β· 2012
0.80
4
Of travelling homeoproteins and medulloblastomas.
PMID: 40760093
Oncogene Β· 2025
0.72
5
The significance of CUX1 and chromosome 7 in myeloid malignancies.
PMID: 35084368
Curr Opin Hematol Β· 2022
0.70