RNAex specifications

Unique identifier:
Web user interface
Input data:
To use RNAex, users are required to first select two matched probing datasets and a folding method. Then, users need to input their transcripts of interest for structure prediction, by providing the transcript IDs or the genomic locations in GTF format. RNAex can run multiple transcripts in parallel. RNAex accepts the following transcript IDs for known transcripts: TAIR (v10) ID for Arabidopsis transcripts, SGD (SacCer2) ID for yeast transcripts, GENCODE (v19 for DMS-seq and v12 for PARS data) ID for human transcripts and GENCODE (v2) ID for mouse transcripts. RNAex also accepts genomic locations in GTF format for novel transcripts.
RNA secondary structure prediction enhanced by high-throughput experimental data
Restrictions to use:
Computer skills:
  • Animals
    • Homo sapiens
    • Mus musculus
  • Fungi
    • Saccharomyces cerevisiae
  • Plants
    • Arabidopsis thaliana

RNAex support



  • Rex Team <>


tutorial arrow
Communicate with other users
Participate in the forum to get support for using tools. Ask questions about technical specifications.
Take part in the discussion
Sign up for free to ask question and share your advices

No open topic.


tutorial arrow
Promote your skills
Define all the tasks you managed and assign your profile the appropriate badges. Become an active member.
Promote your work
Sign up for free to badge your contributorship



MOE Key Laboratory of Bioinformatics, Center for Synthetic and Systems Biology, Center for Plant Biology and Tsinghua-Peking Joint Center for Life Sciences, School of Life Sciences, Tsinghua University, Beijing, China

Funding source(s)

National Key Basic Research Program of China [2012CB316503]; National High-Tech Research and Development Program of China [2014AA021103]; National Natural Science Foundation of China [31271402, 31522030]; Tsinghua University Initiative Scientific Research Program [2014z21045]; Computing Platform of National Protein Facilities (Tsinghua University)

User review

tutorial arrow
Vote up tools and offer feedback
Give value to tools and make your expertise visible
Give your feedback on this tool
Sign up for free to join and share with the community

0 user reviews

star_border star_border star_border star_border star_border
star star star star star

0 user reviews

star_border star_border star_border star_border star_border
star star star star star

No review has been posted.

Related Tools