Hereditary Spastic Paraplegia NGS Panel

Test Information

This panel of 79 genes is intended for patients with a diagnosis or clinical suspicion of Hereditary Spastic Paraplegia and is performed by Next Generation Sequencing (NGS). This molecular test is useful to confirm the diagnosis and to identify the disease causing mutations within a family to allow for carrier testing and prenatal diagnosis.

Turnaround Time

8 weeks

CPT Code(s)





  • ABCD1
  • ACOX1
  • ADAR
  • ALDH18A1
  • ALS2
  • AP4B1
  • AP4E1
  • AP4M1
  • AP4S1
  • AP5Z1
  • ATL1
  • ATP13A2
  • B4GALNT1
  • BICD2
  • BSCL2
  • C19orf12
  • CAPN1
  • CPT1C
  • CYP2U1
  • CYP7B1
  • DDHD1
  • DDHD2
  • ENTPD1
  • ERLIN1
  • ERLIN2
  • EXOSC3
  • FA2H
  • FARS2
  • GBA2
  • GJC2
  • HACE1
  • HSPD1
  • IFIH1
  • KDM5C
  • KIDINS220
  • KIF1A
  • KIF1C
  • KIF5A
  • KLC2
  • L1CAM
  • MAG
  • MARS1
  • MECP2
  • NIPA1
  • NT5C2
  • OPA3
  • PGAP1
  • PLA2G6
  • PLP1
  • PNPLA6
  • PQBP1
  • RAB3GAP2
  • REEP1
  • REEP2
  • RTN2
  • SACS
  • SAMHD1
  • SLC16A2
  • SLC2A1
  • SLC33A1
  • SPG11
  • SPG21
  • SPG7
  • TECPR2
  • TFG
  • TREX1
  • TUBB3
  • TUBB4A
  • UCHL1
  • VAMP1
  • VPS37A
  • WASHC5
  • WDR45
  • ZFYVE26
  • ZFYVE27

Clinical Information

This panel consists of 79 genes associated with hereditary spastic paraplegia, or HSP, which refers to a group of disorders associated with increased muscle tone, stiffness, and weakness in the lower extremities. In uncomplicated, also known as pure, spastic paraplegia, loss of sensation and overactive bladder may occur. Additional features including intellectual disability, gait abnormalities, seizures, dementia, and peripheral neuropathy, have been reported in cases that are considered to be complicated. The upper extremities are usually spared of symptoms. The prevalence of HSP is approximately 3 in 100,000, and an estimated 10% of patients have complicated HSP with additional clinical features. These conditions can be inherited in autosomal dominant, autosomal recessive, and X-linked dominant and recessive patterns, and each type exhibits variable clinical presentation, age of onset, degree of severity, and disease progression. Lifespan is typically unaffected. List of Genes and Conditions


Next Generation Sequencing


The current design of this panel covers all genes and the flanking intronic sequences. This method allows for analysis of greater than 98% of the targeted sequence for the detection of nucleotide substitutions and small deletions and duplications. Large deletions and duplications will not be detected by this panel. Mutations and variants identified on the panel are confirmed with Sanger sequencing. All novel and apparently pathogenic changes are reported when found within the coding region as well as within 10 basepairs of each intron/exon boundary for each gene. Promoter and 3' untranslated sequences are not included in the current analysis. It should be noted that the current protocol is not specifically designed to detect copy number alterations and single exon deletions may require additional follow-up to determine whether or not they represent technical artifacts. We recommend further array-based testing to more accurately address the concerns of dosage alterations. The Cytogenetic Laboratory at GGC offers a high resolution whole genome SNP microarray. The GGC Diagnostic Laboratory Directors are available for further consultation regarding the limitations of the NGS and array testing procedures.

Specimen Requirements

The preferred sample type is 3-5 ml of peripheral blood collected in an EDTA (purple top) tube. Extracted DNA and saliva are also accepted for this test. Saliva samples must be submitted in an approved saliva kit. Contact the lab to receive a saliva kit or to have one sent to your patient.

Transport Instructions

The specimen should be kept at room temperature and delivered via overnight shipping. If shipment is delayed by one or two days, the specimen should be refrigerated and shipped at room temperature. Do not freeze the specimen. Samples collected on Friday can be safely designated for Monday delivery.

Prenatal Testing Information

Prenatal diagnosis is available if the familial mutations are known. Additional fees for cell culture and maternal cell contamination may apply. Maternal cell contamination studies are required for all prenatal molecular tests. Contact the laboratory prior to sending a prenatal specimen.

Have Questions? Need Support?

Call our laboratory at 1-800-473-9411 or contact one of our Laboratory Genetic Counselors for assistance.
Robin Fletcher, MS, CGC
Falecia Thomas, MS, CGC
Alex Finley, MS, CGC

Mother and son

A Rare Beauty

The lobby of the JC Self Research Institute at GGC was transformed into a garden – of sorts. The art exhibit titled ‘Rare Roses’ consisted of 12 paintings that depict real roses with genetic variations. The series was created by Nicole Shannon, an artist from Greenville. Nicole was inspired by her son, who has a rare genetic disorder, and other individuals with genetic differences. Quinn, now 4, was born with a myriad of health issues and ...

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