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Plant microRNAs (miRNAs) are often regulated by transcription factors (TFs) binding to specific cis-regulatory sequences in their promoter regions. This protocol provides a user-friendly method for finding TF binding sites in miRNA promoters using MEME Suite and TOMTOM, accessible also to those with minimal programming skills. It offers both manual and automated approaches for sequence retrieval and analysis. MEME Suite helps motif discovery, while TOMTOM compares these motifs to TF binding site databases. This protocol enables efficient analysis of miRNA promoter regions, enhancing understanding of gene regulation.

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Identifying Cis-Regulatory Binding Sites in Promoter Regions of miRNA Genes: A Step-by-Step Protocol

  • 实验方案

  • 发表日期：

    2025年

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  • Judith Jazmin Bernal-Gallardo,
  • Stefan de Folter

摘要

Plant microRNAs (miRNAs) are often regulated by transcription factors (TFs) binding to specific cis-regulatory sequences in their promoter regions. This protocol provides a user-friendly method for finding TF binding sites in miRNA promoters using MEME Suite and TOMTOM, accessible also to those with minimal programming skills. It offers both manual and automated approaches for sequence retrieval and analysis. MEME Suite helps motif discovery, while TOMTOM compares these motifs to TF binding site databases. This protocol enables efficient analysis of miRNA promoter regions, enhancing understanding of gene regulation.