Rice Genome Sequencing and Variant Calling-30X Test
Short Name: Rice Genome Seq 30X
Also known as: Rice Whole Genome Sequencing, Rice WGS 30X, Rice Variant Analysis
Rice Genome Sequencing and Variant Calling-30X Test test available at DNA Labs India for ₹0. Uses Next-Generation Sequencing (NGS), Illumina platform, 30X whole genome coverage on Extracted DNA samples. Results in Reports are delivered within 8 weeks from the date of sample receipt.. Free home collection in 300+ cities across India.
🩺 Medically Reviewed By
Dr Pasupathy Arumugam
Consultant Pathologist · Reg: 21521
Last reviewed: September 7, 2026
Overview
The purpose of rice genome sequencing and variant calling is to provide a comprehensive genetic map of an individual rice plant or variety. This information is used to identify genes and genetic variations associated with desirable traits, such as high yield, pest and disease resistance, and improved nutritional content. It also helps in understanding the genetic diversity within rice populations, which is essential for conservation and breeding programs. By comparing the sequenced genome to a reference, researchers can pinpoint mutations that may be responsible for specific phenotypes, facilitating functional genomics studies. Ultimately, this service aims to accelerate the development of improved rice varieties that can withstand environmental stresses and meet the demands of a growing population.
- Test Code
- 6345
- CPT Code
- 81479
- ICD Code
- Z13.9
- Sample Type
- Extracted DNA
- Result Time
- Reports are delivered within 8 weeks from the date of sample receipt.
- Fasting Required
- No
- Method
- Next-Generation Sequencing (NGS), Illumina platform, 30X whole genome coverage
Sample Collection
Ensure the extracted DNA is of high quality (A260/280 ratio 1.8-2.0) and quantity (≥1 µg). Avoid repeated freeze-thaw cycles. Ship on dry ice if possible.
Method: Sample submission at collection center or courier
Laboratory Analysis
No special requirements during collection. The sample should be labeled clearly with the sample ID and submission form.
Report Delivery
Store the DNA at -20°C or below until shipment. Ship the sample to the laboratory within 24 hours of collection.
Timeline: Reports are delivered within 8 weeks from the date of sample receipt.
Patient Instructions
About This Test
Who Should Get This Test
The purpose of rice genome sequencing and variant calling is to provide a comprehensive genetic map of an individual rice plant or variety. This information is used to identify genes and genetic variations associated with desirable traits, such as high yield, pest and disease resistance, and improved nutritional content. It also helps in understanding the genetic diversity within rice populations, which is essential for conservation and breeding programs. By comparing the sequenced genome to a reference, researchers can pinpoint mutations that may be responsible for specific phenotypes, facilitating functional genomics studies. Ultimately, this service aims to accelerate the development of improved rice varieties that can withstand environmental stresses and meet the demands of a growing population.
How to Prepare
- Use sterile collection tubes
- Label the tube with sample ID and date
- Include a completed requisition form
- Ship on dry ice for long transit
- Avoid exposure to high temperatures
Doctor's Notes
Reviewed by Dr Pasupathy Arumugam — MBBS, MD (Pathology) · Reg. No. 21521
"Rice genome sequencing at 30X coverage provides high-confidence variant calls essential for marker-assisted breeding and functional genomics studies."
Last medically reviewed: September 7, 2026
Test Parameters & Specifications
Sample Stability
- Sample with insufficient DNA quantity (<500 ng)
- Degraded DNA showing smearing on gel
- Sample without proper labeling
- Sample in improper container
- Sample exposed to extreme temperatures
Understanding Your Results
SNP
Action: Check if synonymous or non-synonymous
Indel
Action: Assess impact on gene reading frame
Structural variant
Action: Validate with other methods
Homozygous
Action: May have stronger phenotypic effect
Heterozygous
Action: May be recessive or dominant
This test is intended for research and agricultural purposes. If you are a researcher or breeder, consult with a geneticist or bioinformatician to interpret the results and plan next steps. For clinical applications in humans, please consult a medical geneticist.
Limitations
- ⚠Variant calling may miss structural variants or complex rearrangements
- ⚠Regions with high GC content or repetitive sequences may have lower coverage
- ⚠Interpretation of variants requires functional annotation and validation
- ⚠This test is for research purposes and not intended for clinical diagnosis in humans
Risks & Considerations
- ●No physical risks as this is a laboratory test on extracted DNA
- ●Potential for inconclusive results due to sample quality issues
- ●Interpretation may require additional bioinformatics analysis
Interfering Factors
- ●Degraded or fragmented DNA can reduce sequencing quality
- ●Contamination with plant pathogens or other organisms
- ●Insufficient DNA quantity or concentration
- ●PCR duplicates may affect variant calling accuracy
- ●Reference genome choice may influence variant detection
Compare With Similar Tests
| Test | Rice Genome Sequencing and Variant Calling-30X | Rice Genome Sequencing 15X | Rice Exome Sequencing | Rice Genotyping by Sequencing (GBS) |
|---|---|---|---|---|
| Comparison | Rice Genome Sequencing and Variant Calling-30X |
Frequently Asked Questions
What is the cost of Rice Genome Sequencing and Variant Calling-30X?
What does 30X coverage mean?
What type of sample is required?
How long does it take to get results?
Can this test be used for human genetic testing?
What kind of variants can be detected?
Is home sample collection available?
What is the difference between this test and exome sequencing?
Can this test help in breeding programs?
What is the quality of DNA required?
How are the results delivered?
Is this test NABL accredited?
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