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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.
SART3
spliceosome associated factor 3, U4/U6 recycling protein
Chromosome 12 Β· 12q23.3
NCBI Gene: 9733Ensembl: ENSG00000075856.12HGNC: HGNC:16860UniProt: A0A499FI31
212PubMed Papers
20Diseases
0Drugs
8Pathogenic Variants
RESEARCH IMPACT
Trending
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
U4/U6 x U5 tri-snRNP complexU4atac/U6atac snRNPU4 snRNA bindingregulation of gene expressionneurodegenerative diseaseopen-angle glaucomaporokeratosisdisseminated superficial actinic porokeratosis
✦AI Summary

SART3 (spliceosome associated factor 3, U4/U6 recycling protein) is an RNA-binding protein that functions primarily in RNA splicing and spliceosome assembly. The protein serves as a reader of symmetrically dimethylated arginine (SDMA)-marked glycine- and arginine-rich motifs through its HAT (half-a-tetratricopeptide) repeat domains, which is essential for recognizing proteins like fibrillarin and coilin 1. SART3 plays crucial roles in spliceosome recycling and RNA processing, with its dysfunction causing aberrant splicing patterns 2. Beyond splicing, SART3 promotes homologous recombination DNA repair by facilitating DNA-RNA hybrid removal and enhancing DNA end resection through interactions with DDX1 helicase and the USP15-BARD1 pathway 3. Clinically, biallelic SART3 variants cause a spliceosomopathy termed INDYGON syndrome, characterized by intellectual disability, neurodevelopmental defects, and gonadal dysgenesis in 46,XY individuals 2. SART3 is also recognized as a tumor-associated antigen, with elevated expression in various cancers including hepatocellular carcinoma and breast cancer, where it correlates with poor prognosis and can induce cytotoxic T lymphocyte responses 45. The protein's involvement in cancer stemness through CD44 alternative splicing regulation further underscores its clinical significance 6.

Sources cited
1
SART3 reads SDMA-marked GAR motifs through HAT repeat domains and interacts with fibrillarin and coilin
PMID: 38985674
2
Biallelic SART3 variants cause INDYGON syndrome with intellectual disability and gonadal dysgenesis
PMID: 37296101
3
SART3 promotes homologous recombination repair through DNA-RNA hybrid removal and DDX1 interaction
PMID: 40050279
4
SART3 is elevated in hepatocellular carcinoma and correlates with poor prognosis
PMID: 37632835
5
SART3 is a tumor-associated antigen that can induce CTL responses in breast cancer
PMID: 11286471
6
SART3 regulates CD44 alternative splicing and cancer stemness
PMID: 38364571
Disease Associationsβ“˜20
neurodegenerative diseaseOpen Targets
0.53Moderate
open-angle glaucomaOpen Targets
0.33Weak
porokeratosisOpen Targets
0.19Weak
complex neurodevelopmental disorderOpen Targets
0.18Weak
disseminated superficial actinic porokeratosisOpen Targets
0.18Weak
porokeratosis 3, disseminated superficial actinic typeOpen Targets
0.11Weak
hepatocellular carcinomaOpen Targets
0.10Suggestive
lung cancerOpen Targets
0.08Suggestive
hyperpituitarismOpen Targets
0.08Suggestive
urinary bladder carcinomaOpen Targets
0.06Suggestive
infectionOpen Targets
0.06Suggestive
self-injurious ideationOpen Targets
0.06Suggestive
neoplasmOpen Targets
0.06Suggestive
cancerOpen Targets
0.04Suggestive
esophageal squamous cell carcinomaOpen Targets
0.04Suggestive
cytomegalovirus infectionOpen Targets
0.04Suggestive
breast cancerOpen Targets
0.03Suggestive
multiple myelomaOpen Targets
0.03Suggestive
gastric cancerOpen Targets
0.03Suggestive
melanomaOpen Targets
0.03Suggestive
Pathogenic Variants8
NM_014706.4(SART3):c.2507G>A (p.Arg836Gln)Likely pathogenic
Intellectual disability, Neurodevelopmental defects and Developmental delay with 46,XY gonadal dysgenesis
β˜†β˜†β˜†β˜†2023β†’ Residue 836
NM_014706.4(SART3):c.631G>A (p.Glu211Lys)Likely pathogenic
Intellectual disability, Neurodevelopmental defects and Developmental delay with 46,XY gonadal dysgenesis
β˜†β˜†β˜†β˜†2023β†’ Residue 211
NM_014706.4(SART3):c.2299C>T (p.Arg767Trp)Likely pathogenic
Intellectual disability, Neurodevelopmental defects and Developmental delay with 46,XY gonadal dysgenesis
β˜†β˜†β˜†β˜†2023β†’ Residue 767
NM_014706.4(SART3):c.757C>T (p.Arg253Ter)Likely pathogenic
Intellectual disability, Neurodevelopmental defects and Developmental delay with 46,XY gonadal dysgenesis
β˜†β˜†β˜†β˜†2023β†’ Residue 253
NM_014706.4(SART3):c.1477C>T (p.Arg493Trp)Likely pathogenic
Intellectual disability, Neurodevelopmental defects and Developmental delay with 46,XY gonadal dysgenesis
β˜†β˜†β˜†β˜†2023β†’ Residue 493
NM_014706.4(SART3):c.646T>C (p.Ser216Pro)Likely pathogenic
Intellectual disability, Neurodevelopmental defects and Developmental delay with 46,XY gonadal dysgenesis
β˜†β˜†β˜†β˜†2023β†’ Residue 216
NM_014706.4(SART3):c.2153C>T (p.Pro718Leu)Likely pathogenic
Intellectual disability, Neurodevelopmental defects and Developmental delay with 46,XY gonadal dysgenesis
β˜†β˜†β˜†β˜†2023β†’ Residue 718
NM_014706.4(SART3):c.1555A>G (p.Arg519Gly)Likely pathogenic
Intellectual disability, Neurodevelopmental defects and Developmental delay with 46,XY gonadal dysgenesis
β˜†β˜†β˜†β˜†2023β†’ Residue 519
View on ClinVar β†—
Related Genes

No related genes found for this gene.

Tissue Expression

No tissue expression data available for this gene.

Gene Interaction Network

No interaction data available for this gene.

PROTEIN STRUCTURE
Preparing viewer…
PDB5CTT Β· 1.70 Γ… Β· X-ray
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
0.42Moderately Constrained
pLIβ“˜
1.00Intolerant
Observed/Expected LoF0.32 [0.25–0.42]
RankingsWhere SART3 stands among ~20K protein-coding genes
  • #1,968of 20,598
    Most Researched212 Β· top 10%
  • #3,031of 5,498
    Most Pathogenic Variants8
  • #2,203of 17,882
    Most Constrained (LOEUF)0.42 Β· top quartile
Genes detectedSART3
Sources retrieved25 papers
Response timeβ€”
πŸ“„ Sources
25β–Ό
1
Variants in SART3 cause a spliceosomopathy characterised by failure of testis development and neuronal defects.
PMID: 37296101
Nat Commun Β· 2023
1.00
2
SART3 reads methylarginine-marked glycine- and arginine-rich motifs.
PMID: 38985674
Cell Rep Β· 2024
0.90
3
SART3 promotes homologous recombination repair by stimulating DNA-RNA hybrids removal and DNA end resection.
PMID: 40050279
Nat Commun Β· 2025
0.80
4
K48-linked deubiquitination of VGLL4 by USP15 enhances the efficacy of tumor immunotherapy in triple-negative breast cancer.
PMID: 38431034
Cancer Lett Β· 2024
0.76
5
Mouse homologue of the human SART3 gene encoding tumor-rejection antigen.
PMID: 10761712
Jpn J Cancer Res Β· 2000
0.70