EvryRNA : IRSOM2

IRSOM2

PREDICTION

  • Paste your sequences in FASTA format.
  • Upload your sequences to predict.
    Processing times of example files are described in the "Example files" section below.
  • The optimal value of this parameter varies depending on the species:
    - All species: 0.7
    - Homo sapiens: 0.8
    - Arabidopsis thaliana: 0.6
    - Drosophila melanogaster: 0.75
    - Escherichia coli: 0.2
    - Danio rerio: 0.5
    - Mus musculus: 0.75
    - Oryza sativa: 0.8
    - Saccharomyces cerevisae: 0.1 _____________________________________________________________________________
  • Minimum probability for a sequence to be classified as Bifunctional RNA.
  • Plot feature profiles (ORFs and Codon Bias) for predicted sequences.
  • Localize open reading frames in sequences identified as Bifunctional RNA.

    • Dataset used in Platon et al., 2018
    • This FASTA file is constituted with:
      • 22978 coding RNA sequences
      • 15085 non-coding RNA sequences
    • Processing time: ~ 2min45s

     

    • These sequences are a subset of the Homo sapiens dataset.
    • This FASTA file is constituted with:
      • 500 coding RNA sequences
      • 500 non-coding RNA sequences
    • Processing time: ~ 15s

     

    • Dataset from the SPENCER database
    • This FASTA file is constituted with 733 translated lncRNA sequences
    • Processing time: ~ 12s

     

    • Dataset from the LncPep database
    • This FASTA file is constituted with 1525 translated lncRNA sequences
    • Processing time: ~ 14s

     

    • Dataset from the LncPep database
    • This FASTA file is constituted with 299 translated lncRNA sequences
    • Processing time: ~ 11s

     

    • Dataset from the LncPep database
    • This FASTA file is constituted with 16 translated lncRNA sequences
    • Processing time: ~ 10s

     

    • Processing times may vary depending on the number of requests on calculation servers.
    For any questions, comments or suggestions about IRSOM, please feel free to contact: fariza.tahi@ibisc.univ-evry.fr