Research Paper Volume 8, Issue 11 pp 2635—2654
Distinct patterns of simple sequence repeats and GC distribution in intragenic and intergenic regions of primate genomes
- 1 Key Laboratory of Bio-resources and Eco-environment (Ministry of Education), College of Life Sciences, Sichuan University, Chengdu 610064, China
- 2 College of Life Science and Engineering, Chongqing Three Gorges University, Chongqing 404100, China
- 3 College of Environmental and Chemistry Engineering, Chongqing Three Gorges University, Chongqing 404100, China
- 4 College of Sport and Health, Chongqing Three Gorges University, Chongqing 404100, China
Received: June 8, 2016 Accepted: August 22, 2016 Published: September 16, 2016
https://doi.org/10.18632/aging.101025How to Cite
Abstract
As the first systematic examination of simple sequence repeats (SSRs) and guanine-cytosine (GC) distribution in intragenic and intergenic regions of ten primates, our study showed that SSRs and GC displayed nonrandom distribution for both intragenic and intergenic regions, suggesting that they have potential roles in transcriptional or translational regulation. Our results suggest that the majority of SSRs are distributed in non-coding regions, such as the introns, TEs, and intergenic regions. In these primates, trinucleotide perfect (P) SSRs were the most abundant repeats type in the 5'UTRs and CDSs, whereas, mononucleotide P-SSRs were the most in the intron, 3'UTRs, TEs, and intergenic regions. The GC-contents varied greatly among different intragenic and intergenic regions: 5'UTRs > CDSs > 3'UTRs > TEs > introns > intergenic regions, and high GC-content was
Abbreviations
AT-content: adenine-thymine content; GC-content: guanine-cytosine content; MSDB: Microsatellite search and building database; SSRs: Simple sequence repeats; P-SSRs: Perfect SSRs; IP-SSRs: Interrupted perfect SSRs; C-SSRs: Compound SSRs; IC-SSRs: Interrupted compound SSRs; CX-SSRs: Complex SSRs; ICX-SSRs: Interrupted complex SSRs.