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5q31.3 microdeletion syndrome
Reviewed by Medicinsk Expert•Last updated: 2026-10-22•Condition

5q31.3 microdeletion syndrome

5q31.3 microdeletion syndrome causes severe speech and motor delays, profound hypotonia, feeding and breathing difficulties, and frequent seizures due to loss of the PURA gene.

Overview

5q31.3 microdeletion syndrome is a very rare genetic condition characterized by markedly delayed development of speech and motor skills such as walking. Affected individuals present in infancy with weak muscle tone (hypotonia), feeding difficulties, and breathing problems that can be life‑threatening. The disorder also includes distinctive facial features and a high incidence of seizures and brain abnormalities related to myelin production.

Symptoms

  • Severe delay in speech and walking
  • Hypotonia (weak muscle tone) from infancy
  • Feeding difficulties and dysphagia (trouble swallowing)
  • Breathing problems that may be life‑threatening
  • Distinctive facial features:
    • Widely spaced eyes
    • Open mouth with a tented (outward‑pointing) upper lip
    • High‑arched palate
    • Small lower jaw (micrognathia)
    • Lack of facial expression (often linked to hypotonia)
  • Recurrent seizures (epilepsy) and seizure‑like episodes (muscle jerking, twitching, stiffening)
  • Brain abnormalities, often due to reduced production or delayed maturation of myelin

Causes & Risk Factors

5q31.3 microdeletion syndrome results from a chromosomal deletion on the long (q) arm of chromosome 5 at band q31.3. The deleted segment can range from several thousand to several million base pairs and typically removes at least three genes. The loss of one copy of the PURA gene is believed to produce most of the characteristic features.

The PURA gene encodes the protein Pur‑alpha (Purα), which has multiple cellular roles, including regulation of gene activity and assistance in DNA replication. Pur‑α is especially important for normal brain development, guiding the growth and division of nerve cells and possibly influencing myelin formation or maturation.

Haploinsufficiency of PURA likely disrupts normal neuronal development, leading to developmental delay, hypotonia, seizures, and other neurological problems. Some studies suggest that loss of additional nearby genes may increase severity, but the contribution of those genes remains unclear.

Inheritance

5q31.3 microdeletion syndrome follows an autosomal dominant pattern, meaning a single copy of the altered chromosome is sufficient to cause the disorder. The condition is typically not inherited; the deletion arises de novo during the formation of reproductive cells (eggs or sperm) or early fetal development, and most families have no prior history of the syndrome.

Other Names

  • Severe neonatal hypotonia‑seizures‑encephalopathy syndrome due to 5q31.3 microdeletion

Additional Information & Resources

Genetic Testing Information

  • Genetic Testing Registry: PURA‑related severe neonatal hypotonia‑seizures‑encephalopathy syndrome

Patient Support and Advocacy Resources

  • National Organization for Rare Disorders (NORD)

Scientific Articles on PubMed

  • PubMed

References

  • Bonaglia MC, Zanotta N, Giorda R, D'Angelo G, Zucca C. Long‑term follow‑up of a patient with 5q31.3 microdeletion syndrome and the smallest de novo 5q31.2q31.3 deletion involving PURA. Mol Cytogenet. 2015 Nov 14;8:89. doi:10.1186/s13039-015-0193-9.
  • Brown N, Burgess T, Forbes R, McGillivray G, Kornberg A, Mandelstam S, Stark Z. 5q31.3 Microdeletion syndrome: clinical and molecular characterization of two further cases. Am J Med Genet A. 2013 Oct;161A(10):2604‑2608. doi:10.1002/ajmg.a.36108.
  • Hosoki K, Ohta T, Natsume J, Imai S, Okumura A, Matsui T, Harada N, Bacino CA, Scaglia F, Jones JY, Niikawa N, Saitoh S. Clinical phenotype and candidate genes for the 5q31.3 microdeletion syndrome. Am J Med Genet A. 2012 Aug;158A(8):1891‑1896. doi:10.1002/ajmg.a.35439.
  • Shimojima K, Isidor B, Le Caignec C, Kondo A, Sakata S, Ohno K, Yamamoto T. A new microdeletion syndrome of 5q31.3 characterized by severe developmental delays, distinctive facial features, and delayed myelination. Am J Med Genet A. 2011 Apr;155A(4):732‑736. doi:10.1002/ajmg.a.33891.
  • White MK, Johnson EM, Khalili K. Multiple roles for Puralpha in cellular and viral regulation. Cell Cycle. 2009 Feb 1;8(3):1‑7. doi:10.4161/cc.8.3.7585.

Frequently Asked Questions

Seizure management typically involves anti-epileptic medications tailored to the individual's specific seizure type and frequency. Regular monitoring by a neurologist is vital to adjust medications as needed and to assess for any changes in seizure activity. Parents should be educated on seizure recognition and first aid, and a seizure action plan should be in place.
The most critical concerns in infants are often severe feeding difficulties and potentially life-threatening breathing problems due to profound weak muscle tone (hypotonia). These issues can lead to poor weight gain and respiratory distress, requiring immediate medical intervention and close monitoring. Frequent seizures are also a common and serious concern that needs prompt management.
Early and intensive therapies are essential. Physical therapy, occupational therapy, and speech therapy are crucial to help manage profound hypotonia, improve motor skills, and facilitate communication development. Feeding therapy and nutritional support are often necessary for feeding difficulties. Early intervention programs are highly recommended to support overall development.
The PURA gene is critical for normal brain development, playing a role in the growth and division of nerve cells and potentially influencing the formation or maturation of myelin, which is the protective covering around nerve fibers. The loss of one copy of this gene (haploinsufficiency) disrupts these processes, leading to the characteristic brain abnormalities, severe developmental delays, and neurological issues like seizures and hypotonia.
Source: MedlinePlus, National Library of Medicine

MedlinePlus brings together authoritative health information from the National Library of Medicine (NLM), the National Institutes of Health (NIH), and other government agencies and health-related organizations.

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