Identification and analysis of DNA binding specific transcription factor' binding sites in sucrose synthase promoter

Sucrose synthase (SUS) is one of the abundantly expressed genes in plants. In this study, the promoter sequence of SUS gene was identified, analyzed and retrieved from high throughput genomic sequence (HTGS) database. The transcription factor binding sites (TFBs) of subject promoter were identified through different bioinformatics tools. The analysis revealed several crucial motifs and TFBs within the entire promoter region. The most common site found within promoter region was AGL3, which binded with DNA-region specific binding site and involved in process of transcriptional regulation. AGL3 is also a key factor for studying protein dimerization activity. Furthermore, AGL3 encodes a protein, which encodes a conserved domain, MADS protein domain. The analysis of AGL3 through (Plant PAN 2.0) showed three associated TF: AT5G23260, AT2G03710, U81369, which were used for further analysis of conserved protein domains through Pfam and InterPro. We found that these TF could help in developmental regulation and validation of candidate genes. Moreover, the binding of AGL3 with serum response factor (SRF), a nuclear protein also indicates the transcriptional regulations of several growth factors. This core domain belongs to MADS protein family, which interacts with certain accessory factors and varies up to 90 amino acids. Analysis of such promoter sequences and their predicted TF can be useful to understand the transcriptional regulatory networks in plant genetic engineering. (author)