Search for predicted worm microRNA targets         [Go to TargetScanHuman]
  [Go to TargetScanMouse]
  [Go to TargetScanFly]
  [Go to TargetScanFish]

1. Enter a WormBase ID (e.g. WBGene00000254), a gene symbol (e.g. bli-4), or a NCBI Entrez Gene ID (e.g. 172333):
AND/OR

2. Select one of the following:

a conserved* microRNA family

a nonconserved* microRNA family

*conserved = conserved across C. elegans and C. briggsae


TargetScan predicts biological targets of miRNAs by searching for the presence of conserved 8mer, 7mer, and 6mer sites that match the seed region of each miRNA (ref. 1). Note that additional types of seed matches are preferentially conserved in worms, compared to flies and mammals (ref.2). Also identified are sites with mismatches in the seed region that are compensated by conserved 3' pairing (ref. 2). As an option, nonconserved sites are also predicted.

TargetScanWorm displays predicted regulatory targets of worm microRNAs (ref. 2).

This website considers matches to sites in the 6-species 3' UTRs, which were based on updated annotations of C. elegans 3' UTRs (ref. 2). Conserved targeting has also been detected in open reading frames (ORFs), but TargetScanWorm does not consider targeting in ORFs. Many predicted targets are the same as those presented in the previous version of the TargetScanWorm site.

An introduction to microRNAs (iBioseminar)

Frequently Asked Questions (FAQs)

More information about TargetScanWorm Release 6.2

Download all data


References:
1) Conserved Seed Pairing, Often Flanked by Adenosines, Indicates that Thousands of Human Genes are MicroRNA Targets
Benjamin P Lewis, Christopher B Burge, David P Bartel.     Cell, 120:15-20 (2005).

2) Formation, regulation and evolution of Caenorhabditis elegans 3'UTRs.
Calvin H Jan, Robin C Friedman, J Graham Ruby, David P Bartel.     Nature, 469:97-101 (2011).


Links
  • Bartel lab
  • Whitehead Institute
  • MiRscan Web Server
  • Burge lab
  • MIT Department of Biology
  • miRBase
  • Bioinformatics and Research Computing (Whitehead Institute)
  • TargetScanWorm has been developed and tested with the following browsers: Firefox (Windows/Mac/Linux), Internet Explorer (Windows), Safari (Mac)