Dent Disease via the CLCN5 Gene
Summary and Pricing 
Test Method
Exome Sequencing with CNV Detection
| Test Code | Test Copy Genes | Test CPT Code | Gene CPT Codes Copy CPT Code | Base Price | |
|---|---|---|---|---|---|
| 11181 | CLCN5 | 81479 | 81479,81479 | $990 | Order Options and Pricing |
Pricing Comments
Our favored testing approach is exome based NextGen sequencing with CNV analysis. This will allow cost effective reflexing to PGxome or other exome based tests. However, if full gene Sanger sequencing is desired for STAT turnaround time, insurance, or other reasons, please see link below for Test Code, pricing, and turnaround time information.
An additional 25% charge will be applied to STAT orders. STAT orders are prioritized throughout the testing process.
Click here for costs to reflex to whole PGxome (if original test is on PGxome Sequencing platform).
Click here for costs to reflex to whole PGnome (if original test is on PGnome Sequencing platform).
The Sanger Sequencing method for this test is NY State approved.
For Sanger Sequencing click here.Turnaround Time
3 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.
Targeted Testing
For ordering sequencing of targeted known variants, go to our Targeted Variants page.
Clinical Features and Genetics
Clinical Features
Dent disease is a progressive proximal renal tubulopathy with hypercalciuria, low-molecular-weight proteinuria, and nephrocalcinosis (Devuyst and Thakker 2010). Signs and symptoms of this condition appear in early childhood and progress to end-stage renal disease (ESRD) in early to mid-adulthood. Some patients may develop rickets or osteomalacia. The severity of the disease in affected individuals may vary greatly within the same family.
Genetics
Dent disease is inherited in an X-linked recessive pattern. Defects in the CLCN5 and OCRL genes account for about 50-60% and 15% of all cases of Dent disease, respectively (Devuyst and Thakker 2010). Dent disease occurs de novo in approximately 10% of patients. The milder features of low-molecular-weight (LMW) proteinuria proteinuria and hypercalciuria present in approximately 70% and 50% of females carriers, respectively. The CLCN5 gene encodes the ClC-5 chloride channel expressed in tubular epithelial cells. So far, genetic defects of CLCN5 found in Dent disease include missense, nonsense, splicing variants, small deletion/insertions and large deletions (Human Gene Mutation Database).
Clinical Sensitivity - Sequencing with CNV PGxome
Defects in the CLCN5 gene account for about 50-60% of all cases of Dent disease (Devuyst and Thakker 2010). Given that large deletions are not detectable by Sanger sequencing, the overall CLCN5 mutation detection rate via current Sanger sequencing will be lower than 50-60% for Dent disease.
Testing Strategy
This test provides full coverage of all coding exons of the CLCN5 gene plus 10 bases of flanking noncoding DNA in all available transcripts along with other non-coding regions in which pathogenic variants have been identified at PreventionGenetics or reported elsewhere. We define full coverage as >20X NGS reads or Sanger sequencing. PGnome panels typically provide slightly increased coverage over the PGxome equivalent. PGnome sequencing panels have the added benefit of additional analysis and reporting of deep intronic regions (where applicable).
Dependent on the sequencing backbone selected for this testing, discounted reflex testing to any other similar backbone-based test is available (i.e., PGxome panel to whole PGxome; PGnome panel to whole PGnome).
Indications for Test
Candidates for this test are patients with Dent disease. Testing is also indicated for family members of patients who have known pathogenic variants in the CLCN5 gene.
Candidates for this test are patients with Dent disease. Testing is also indicated for family members of patients who have known pathogenic variants in the CLCN5 gene.
Gene
| Official Gene Symbol | OMIM ID |
|---|---|
| CLCN5 | 300008 |
| Inheritance | Abbreviation |
|---|---|
| Autosomal Dominant | AD |
| Autosomal Recessive | AR |
| X-Linked | XL |
| Mitochondrial | MT |
Disease
| Name | Inheritance | OMIM ID |
|---|---|---|
| Dent Disease 1 | XL | 300009 |
Citations
- Devuyst O, Thakker RV. 2010. Dent’s disease. Orphanet J Rare Dis 5: 28. PubMed ID: 20946626
- Human Gene Mutation Database (Bio-base).
Ordering/Specimens
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
- The test can be added to your online orders in the Summary and Pricing section.
- Once the test has been added log in to myPrevent to fill out an online requisition form.
- PGnome sequencing panels can be ordered via the myPrevent portal only at this time.
Requisition Form
- A completed requisition form must accompany all specimens.
- Billing information along with specimen and shipping instructions are within the requisition form.
- All testing must be ordered by a qualified healthcare provider.
For Requisition Forms, visit our Forms page
If ordering a Duo or Trio test, the proband and all comparator samples are required to initiate testing. If we do not receive all required samples for the test ordered within 21 days, we will convert the order to the most effective testing strategy with the samples available. Prior authorization and/or billing in place may be impacted by a change in test code.
Specimen Types
Specimen Requirements and Shipping Details
PGxome (Exome) Sequencing Panel
PGnome (Genome) Sequencing Panel
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ORDER OPTIONS
View Ordering Instructions1) Select Test Type
2) Select Additional Test Options
No Additional Test Options are available for this test.