Search for predicted fly microRNA targets         [Go to the newest version of TargetScan]
  [Go to mammalian TargetScan]
  [Go to TargetScanWorm]

1. Enter an Flybase symbol or ID (e.g. "Khc-73", "FBgn0019968")


2. Do one of the following:

  • Select a conserved* microRNA family

  • Select a poorly conserved microRNA family

  • Enter an miRNA gene name (e.g. "dme-miR-4")

    Go to TargetScanFly Custom if your RNA is not included in the microRNA families listed above.

  • * conserved = conserved beyond the Sophophora subgenus

    TargetScanS predicts biological targets of microRNAs by searching for the presence of conserved 8mer and 7mer sites that match the seed region of each microRNA (ref. 1).

    TargetScanFly Release 4.1 displays predicted regulatory targets of previously annotated D. melanogaster microRNAs (as refined in ref. 2), including mirtronic microRNAs (ref. 3). Targets of 59 additional microRNAs (ref. 2) have been added since Release 4.0. Targets are predicted using the TargetScanS algorithm and conservation cutoffs calculated as in ref. 4.

    This website considers matches to sites in the 3' UTRs.

    More information about TargetScanFly Release 4.1

    Download all data

    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) Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs
    J. Graham Ruby, Alexander Stark, Wendy K. Johnston, Manolis Kellis, David P. Bartel, and Eric C. Lai.     Genome Res., 17:1850-1864 (2007)
    3) Intronic microRNA precursors that bypass Drosha processing
    J. Graham Ruby, Calvin H. Jan, David P Bartel.     Nature, 448:83-86, 2007.
    4) Reliable prediction of regulator targets using 12 Drosophila genomes.
    Pouya Kheradpour, Alexander Stark, Sushmita Roy, and Manolis Kellis     Genome Res., 17:1919-1931 (2007).

  • Burge lab
  • MIT Department of Biology
  • MiRscan Web Server
  • Bartel lab
  • Whitehead Institute
  • miRBase
  • Bioinformatics and Research Computing (Whitehead Institute)
  • TargetScanFly 4.1 has been developed and tested with the following browsers: Firefox (Windows/Mac/Linux), Internet Explorer (Windows), Safari (Mac)