Provides web servers dedicated to predict sites of RNA editing in plant organellar genes. PREP Suite identifies sites based on the principle that editing increases protein conservation among species. This server contains 3 differents predictive RNA editors (i) for plant mitochondrial genes (PREP-Mt), (ii) for chloroplast genes (PREP-Cp), and (iii) for alignments submitted by the user (PREPAln).
Performs genome-wide RED based on human RNA-seq data alone. RED-ML is a highly accurate, speedy and general-purpose tool for RNA editing detection using RNA-seq data. It can take advantage of matching DNA-seq data if available, and integrates well with other common RNA-seq data analysis steps. It can accurately detect novel RNA editing sites without relying on curated RNA editing databases. It can benefit the RNA editing research community and has profound impact to accelerate our understanding of this intriguing post-transcriptional modification process.
Performs C-to-U RNA editing sites’ prediction in the chloroplasts of seed plants. CURE-Chloroplast provides a platform for processing an entire chloroplast genome sequence according a basic mode and an advanced mode. The application allows users to customize micro-analyze and blast parameter. Each job submitted is returned including the job summary, the sequence filtering report, the prediction details and the result downloading engine.
Allows users to predict, analyze, annotate and display RNA editing sites for both directions of pyrimidine exchanges. PREPACT aims to (i) standardize RNA editing annotation and nomenclature, (ii) make editing information available with manually curated reference editomes, and (iii) analyze and predict RNA editing in organelle sequence data. It also includes information on pentatricopeptide repeat (PPR)-type editing factors.
A webserver for the identification of mature microRNA editing events using deep sequencing data. Raw microRNA sequencing reads can be provided as input, the reads are aligned against the genome and custom scripts process the data, search for potential editing sites and assess the statistical significance of the findings.
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