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With the genome-wide determination of TSSs, we identified principal elements of gene expression, such as promoters and SD sequences, regulatory RNA elements, and unannotated transcripts.
Moreover it can in principle incorporate other elements of gene regulation different from TF like post-transcriptional regulation by means of differential mRNA stability [14], [15].
Most recently, a New RNA World has been recognized in current organisms, in which the RNA is an integral component of chromosomes and the different types of RNA are key regulatory elements of gene expression (e.g. [16]).
Regulatory elements of gene expression also showed evidence of positive selection along the human lineage.
MicroRNAs (miRNAs) are among the most important regulatory elements of gene expression in animals and plants.
Untangling the elements of gene order embedded in a genome represents a critical problem for comparative genomics [ 42].
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At the same time, we found that regulatory elements of genes critical for photoreceptor development and function, especially for rod photoreceptors, were highly-methylated.
Taken together, these data show that SCL mediates H3K27 acetylation specifically at SCL-bound cis-regulatory elements of genes it normally activates.
Presumably these variants fall within cis-acting regulatory elements of genes residing nearby.
However, gene regulation is carried out by binding of protein products of transcription factors to cis-regulatory elements of genes.
Functions of transcription factors require formation of specific complexes at particular sites in cis-regulatory elements of genes.
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