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iCREPCP is a deep learning-based web server which has learned the cis-regulatory code of plant core promoters from three plant species of Arabidopsis, maize and sorghum. As an application, it can accurately identify which cis-regulatory elements (CREs) a given plant core promoter contains, as well as locate the exact position of each CRE (at base resolution) and its contribution to the plant core promoter's activity.
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Citation: Kaixuan Deng#, Qizhe Zhang#, Yuxin Hong, Jianbin Yan*, Xuehai Hu*. iCREPCP: a deep learning-based web server for identifying base-resolution cis-regulatory elements within plant core promoters. Plant Commun. 2022 Sep 27:100455. doi: 10.1016/j.xplc.2022.100455.
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You can download the training and testing datasets of six different transient systems, as well as a motif counts file containing all the 14 seqlets counts appearing in all the core plants promoters of the model of tobacco leaves without enahncer in light from the following links :
If you are going to use the training and testing data above, please cite: Jores T, Tonnies J, Wrightsman T, Buckler ES, Cuperus JT, Fields S, Queitsch C. Synthetic promoter designs enabled by a comprehensive analysis of plant core promoters. Nat Plants. 2021 Jun;7(6):842-855.