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X-Linked Hypoparathyroidism via the Interstitial Deletion-Insertion Involving Chromosomes 2p25.3 and Xq27.1, Near SOX3

Summary and Pricing

Test Method

Targeted Deletion Testing via PCR
Test Code Test Copy GenesTest CPT Code Gene CPT Codes Copy CPT Codes Base Price
SOX3 81479 81479 $350
Test Code Test Copy Genes Test CPT Code Gene CPT Codes Copy CPT Code Base Price
4201SOX381479 81479 $350 Order Options and Pricing

An additional 25% charge will be applied to STAT orders. STAT orders are prioritized throughout the testing process.

Turnaround Time

4 weeks on average for standard orders or 2 weeks on average for STAT orders.

Please note: Once the testing process begins, an Estimated Report Date (ERD) range will be displayed in the portal. This is the most accurate prediction of when your report will be complete and may differ from the average TAT published on our website. About 85% of our tests will be reported within or before the ERD range. We will notify you of significant delays or holds which will impact the ERD. Learn more about turnaround times here.


Genetic Counselors


  • Fang Xu, PhD, FACMG

Clinical Features and Genetics

Clinical Features

Hypoparathyroidism (HPT) is an abnormality of calcium metabolism characterized by hypocalcemia and hyperphosphatemia due to inadequate (absent or markedly reduced) secretion of parathyroid hormone (PTH) (Garfield et al. 2001. PubMed ID: 11504667; De Sanctis et al. 2012. PubMed ID: 23128574; Al-Azem et al. 2012. PubMed ID: 22863393; Kim et al. 2015. PubMed ID: 26384470). HPT can occur as part of a complex congenital syndrome or isolated. Males with X-linked recessive HPT have deficiency of circulating immunoreactive PTH due to parathyroid agenesis. If untreated, patients suffer from neonatal or infantile onset of hypocalcemic seizures (Bowl et al. 2005. PubMed ID: 16167084; Taylor et al. 2015. PubMed ID: 25985138).


X-Linked hypoparathyroidism is caused by the interstitial deletion-insertion involving chromosomes 2p25.3 and Xq27.1 and affecting expression of the SOX3 gene. Two similar interstitial deletion-insertions have been reported in two related Missouri kindreds and an unrelated individual. The variant reported in the Missouri kindreds consisted of the insertion of 304 kb from chromosome 2p25 within a 23-25 kb deletion located 67 kb downstream of the SOX3 gene on chromosome X. This variant was shown to affect the expression of the SOX3 gene, which is important for the embryonic development of the parathyroid glands (Bowl et al. 2005. PubMed ID: 16167084). The second interstitial deletion-insertion in an unrelated affected individual consisted of the insertion of 47 kb from chromosome 2p25.3 within a 1.4 kb deletion located 82 kb downstream of the SOX3 gene on chromosome X (Taylor et al. 2015. PubMed ID: 25985138). This test detects the complex rearrangement described by Taylor et al. (2015), but not the complex rearrangement described in the Missouri kindreds by Bowl et al. (2005).

Clinical Sensitivity - Targeted Deletion

The interstitial deletion-insertion involving chromosomes 2p25.3 and Xq27.1 detectable with this assay has been reported in only a single individual with X-Linked hypoparathyroidism (Bowl et al. 2005. PubMed ID: 16167084) Therefore, the prevalence of this complex rearrangement event in a larger cohort of patients with X-Linked hypoparathyroidism is unknown. Overall, interstitial deletion-insertions involving chromosomes 2p25.3 and Xq27.1 have been reported in only two unrelated kindreds (Bowl et al. 2005. PubMed ID: 16167084; Taylor et al. 2015. PubMed ID: 25985138).

Testing Strategy

This test involves amplification of patient DNA with several sets of specific PCR primers that flank the interstitial deletion-insertion junction point. In a patient with this rearrangement allele, two separate primer sets amplify across the insertion boundary resulting in 490 bp and 331 bp products. Other control primers are used to detect the normal allele. Sanger sequencing of this rearrangement allele will also be done to confirm the breakpoint positions at the insertion boundary. This test permits the identification of patients with normal genotypes, male patients who are hemizygous for this rearrangement allele, and heterozygous female carriers.

Indications for Test

Candidates for this test are patients with X-Linked hypoparathyroidism.


Official Gene Symbol OMIM ID
SOX3 313430
Inheritance Abbreviation
Autosomal Dominant AD
Autosomal Recessive AR
X-Linked XL
Mitochondrial MT


Name Inheritance OMIM ID
Hypoparathyroidism, X-linked XL 307700

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Ordering Options

We offer several options when ordering sequencing tests. For more information on these options, see our Ordering Instructions page. To view available options, click on the Order Options button within the test description.

myPrevent - Online Ordering

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For Requisition Forms, visit our Forms page

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