Rice Gaga Element Forecast And Analysis

The transcription factors control gene expression patterns by binding specific sequence elements in regulatory regions of plant and animal genomes. The GAGA factor is a specific DNA binding factor, which plays a role for recognising the specific DNA sequence, called GAGA element. After GAGA factors bind to GAGA elements, this special binding event can remodel the chromatin structure and regulate the expression of genes. But few plant GAGA factors proteins have been investigated functionally. Recent completion of whole genome sequencing of rice (Oryza sativa) allows genome-wide analysis and comparison of the GAGA element in plants. We have identified the (A)GAGA(G)/(T)CTCT(C) repeat elements which frequently occurs in both upstream and coding region of predicted genes along the rice genomes,. The selectively investigated context genes containing GAGA elements were regulated by DNA modeling. In addition, sequence analyses of potential GAGA regulated genes demonstrated that GAGA element in rice genome was purer than that of Drosophila genome. The conservation of gene patterns and the GAGA element context-dependent genes further supported that the genes responsible for environmental adaptation were highly distributed along the chromosomes. Moreover, we use Gene Onotology System to annotate the genes'functions which have been regulated by potential GAGA element. In addition, gene expression patterns comparisons suggest that functional conservation appeared in rice and Drosphila genomes. The EST expression levels showed negative correlation with distribution of GAGA Element. In conclusion, the present comparative investigation on GAGA element provided evidence that the chromatin remodeling played an important role for functional genome evolution of higher plants.