Degradome sequencing has been use to identify microRNA (miRNA) cleavage sites, because miRNAs can cause endonucleolytic cleavage of mRNA by extensive and often perfect complementarity to mRNAs. Degradome sequencing has revealed many known and novel plant miRNA (siRNA) targets.

  1. In plants, microRNAs tend to cause cleavage of their targets at the position between nucleotides 10 and 11 of the microRNA
  2. Next-Gen sequencing of the 5’ ends of RNA degradation products allows identification of over-represented 5’  ends (microRNA cleavage sites)
  3. Matching cleavage sites to known microRNA sequences links microRNAs to their targets

Next-Gen DNA Sequencer

LC Sciences provides a a one-stop solution (i.e. from sample to data) degradome sequencing service using the Illumina next-generation sequencing technology which enables comprehensive coverage, highly sensitive and specific profiling of miRNAs and mRNA degradome in your total RNA sample.

This service is comprehensive – from sample to data, providing advanced technology and years of experience in efficient discovery and profiling of RNAs.

Our comprehensive profiling service includes:

  • Sample QC
  • Library preparation (includes both small RNA and degradome library prep)
  • High-throughput sequencing (RNA-Seq method, Illumina Next-Gen sequencing technology)
  • Bioinformatics analysis
  • Customer data report

Assessment of sequencing and quality filtering of raw reads
Raw sequencing data – up to 100M  50bp single-end reads/lane – either FASTA-A or FASTA-Q files with base-calling quality scores
LC Sciences quality filtered data reduced to mappable reads, a list of unique sequences and their copy numbers
Identification of rRNAs, tRNAs, snRNAs, snoRNAs, polyN and other non-coding RNAs
Distribution of degradation fragments on selected region of genome
Identification of target mRNAs
Statistical summary of mRNA degradation sites
Identification of degradation mRNA related microRNAs from miRBase (Results will be shown in a target plot diagram.)

User friendly HTML customer data report – includes a summary of methods and all statistic analysis

Sample Data