v9.6.5 (Database Updated 06/06/2024)

Database updated on 06/06/2024 with 437 changes
Gene Annotation Version 6.57
Anatomy Ontology Version 2024-04-25

Welcome to REDfly
Regulatory Element Database for Drosophila and other insects v9.6.5

About REDfly

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REDfly is a collaboration between the Halfon lab and the Center for Computational Research at the University at Buffalo.

The REDfly team respects the diversity of all individuals, regardless of race, ethnicity, sex, disability, religion, gender identification, or sexual orientation.

Using REDfly:

Please see our User's Guide for more information.

Citing REDfly:

When referencing specific CRMs, please be sure to include a reference to the original discoverers (cited in the "cite" tab or under "PMID" in the GFF-formatted download).
  • Keränen, S.V.E., Villahoz-Baleta, A., Bruno, A.E., and Halfon, M.S. (2022). REDfly: An integrated knowledgebase for insect regulatory genomics. Insects, 13:618; doi: 10.3390/ insects13070618
  • Rivera, John, Keränen, Soile V. E., Gallo, Steven M. and Halfon, Marc S. (2018). REDfly: the transcriptional regulatory element database for Drosophila. Nucleic Acids Res.; doi:10.1093/nar/gky957
  • Gallo, S.M., Gerrard, D.T., Miner, D., Simich, M., Des Soye, B., Bergman, C.M. and Halfon, M.S. (2010). REDfly v3.0: Toward a comprehensive database of transcriptional regulatory elements in Drosophila. Nucleic Acids Res.; doi:39/suppl_1/D118/2509243
  • Halfon, M.S., Gallo, S.M., and Bergman, C.M. (2008). REDfly 2.0: an integrated database of cis-regulatory modules and transcription factor binding sites in Drosophila. Nucleic Acids Res. 36, D594-598; doi:36/suppl_1/D594/7632242
  • Gallo, S. M., Li, L., Hu, Z. and Halfon, M. S. (2006). REDfly: a regulatory element database for Drosophila. Bioinformatics, Vol. 22 no. 3 2006, pages 381-383; doi:22/3/381/220380
  • Bergman, C. M., Carlson, J. W. and Celniker, S. E. (2005). Drosophila DNase I footprint database: a systematic genome annotation of transcription factor binding sites in the fruitfly, Drosophila melanogaster. Bioinformatics, Vol. 21 no. 5 2005, pages 1747-1749; doi:21/8/1747/249595

REDfly licensing statement:

The REDfly database is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives License v4 International by-nc-nd (CC BY-NC-ND 4.0) and its underlying source code under a GNU General Public License v3 (GNU GPL 3.0). See disclaimer.

About our logo:

The REDfly logo was designed by Alex Read as part of the GMOD Spring 2010 Logo Program.

Funding Support:

REDfly is funded in part by National Institutes of Health grant U24 GM142435. Previous support was provided by NIH grant R01 GM114067 and National Science Foundation grants DBI-1758252 and DBI-1355511.


REDfly utilizes the MariaDB database. A schema diagram can be found here.

We would like to give special thanks to our student curators from the following classes:

Funded in part by the NSF and the NIGMS

Copyright © University at Buffalo—State University of New York. REDfly is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License. See License.
The copyrights of all curated content belong to their respective owners.