School of Mathematics and Computer Science,Yunnan Minzu University,Department of Mathematics and statistics,Zhengzhou Normal University,College of Computer Science, Sichuan University,School of Mathematics and Computer Science,Yunnan University of Nationalities
This work was supported by grants from The National Natural Science Foundation of China (31360277, 31460297, 11461083), Yunnan Province Education Department Scientific Research Fund Project (2013Z042), The Natural Science Foundation of Henan Education Department (14A110020) and The Natural Science Foundation of Yunnan University(2012CG016)
A lot of researches suggest that there are transcriptional regulatory elements in the first introns of genes. However, the ways about introns participating in transcriptional regulation are not still understood. In this paper, we extracted combinatorial transcriptional regulatory motifs in regions from upstream sequences to the first introns in human housekeeping (HK) genes by statistical methods, analyzed the characteristics of distances and locations of motifs, and discussed the potential and ways of introns involving in transcriptional regulation. 960 potential transcriptional regulatory motif pairs are extracted in HK genes, and 57% of them are in accordance with 12 known interacting transcription factor pairs. The location preferences of the over-represented motif pairs have been studied. The results show that about 80% and 90% of the motif pairs in HK genes occur in upstream-upstream and upstream-intron regions, respectively. This results further support the conjecture of the introns could participate in transcriptional regulation of genes, and it was speculated that there are transcriptional synergism between introns and upstream promoter. Extracting motifs are mainly focus on vicinity of transcriptional start sites (TSSs), and the space distance between two motifs in one motif pairs is short. The preference analyses on distance of the motif pairs show that 60% of the motif pairs in HK genes are shorter than 200 bp, and 65% of characteristic distances are within 100 bp. This is conductive for synergism of transcription factors. These results will be helpful for understanding the mechanisms of the transcriptional regulation for HK genes in human.
LI Hui-Min, SHI Yu, YANG Zhi-Gang, JIANG Shao-Ping. Analysis of Combinatorial Transcriptional Regulatory Elements in Promoters of Human Housekeeping Genes[J]. Progress in Biochemistry and Biophysics,2015,42(1):73-81
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