REDfly is a curated collection of known insect transcriptional cis-regulatory modules (CRMs), cis-regulatory module segments (CRMsegs), predicted cis-regulatory modules (pCRMs), and transcription factor binding sites (TFBSs). Our mission is to extract, accumulate, organize, annotate, and link the growing body of information on insect transcriptional cis-regulatory sequences, with an emphasis on empirically validated CRMs curated from the published literature. The majority of the data are for Drosophila melanogaster, but we also annotate an increasing number of other insects. Despite more than 20 years of experimental determination of these elements, the data have never been collected into a single searchable database. REDfly seeks to include all experimentally verified fly regulatory elements along with their DNA sequence, their associated genes, and the expression patterns they direct. Expression patterns are annotated using a defined anatomy ontology to enable high interoperability with FlyBase, FlyExpress, the BDGP in situ hybridization database, and other model organism resources.

If you know of experimentally verified cis-regulatory elements that are not included in the REDfly database, or have corrections to the archived data, please contact us.

REDfly has 58156 CRMs (17199 from in vivo reporter genes, 40593 from cell-culture assays, and 365 from other evidence) associated with 2053 genes, 48 CRMsegs associated with 28 genes, 14318 pCRMs, and 2857 TFBSs bound by 217 transcription factors acting on 333 target genes. These data are based on 1534 curated publications.

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