It is thought that long noncoding RNAs (lncRNA) are composed of modular units called elements, and these discrete sequences act as molecular docking sites for proteins, RNAs, and DNA through sequence motifs or structures in the mature lncRNA molecule.

ElementaLdb is a webserver that contains a curated set of annotations previously implicated in lncRNA function, such as Repeat Insertion Domains of LncRNAs (RIDL), conserved RNA secondary structures (CRS) and RNA binding protein sites (RBP).

  • ElementaLdb is paired with the latest GENCODE annotation and allows the user to produce publication-ready figures of lncRNAs alongside subsets of elements of interest.
  • The user could specify to generate a transcript-relative annotation and plot, which removes all intronic regions and transform the coordinates relatives to the mature lncRNA. Additionally, intron spacing can be specified for a better visualisation of exonic regions.
  • ElementaLdb outputs annotations in tabular form (BED and CSV formats), as well as an XML Integrative Genome Viewer (IGV) session for further local inspection.
  • ElementaLdb will be constantly updated with new element sets.
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Check datasets below
Using GENCODE version 37