title: Tri-nucleotide repeats and their association with genes in rice genome.
abstract: Tri-nucleotide repeats (TNRs) are extremely abundant in rice genome, of which CCG/CGG repeats have an advantage over other repeats, with approximate half of all the TNRs in the genome. Our results show that rice genome has relatively abundant TNRs with high GC content, and containing only purines or pyrimidines under the same GC content. The AAT/ATT repeats that occur predominantly in intergenic and intronic regions have a considerably higher average length than that of other repeats. The highest frequency of TNRs occurs in 5'-UTR regions, followed by in coding and 5'-flanking regions. Purines-rich TNRs prefer to the coding regions, but pyrimidines-rich TNRs exhibit a stronger bias to upstream regions, suggesting that they might be considered as the regulatory elements in gene expression. As if TNRs located predominantly near the start of coding regions do not significantly influence on the protein function.
authors.affiliation: James D. Watson Institute of Genome Science, Zhejiang University, Hangzhou 310008, China.
authors.forename: Zhonghua
authors.initials: Z
authors.lastname: Zhang
authors.forename: Qingzhong
authors.initials: Q
authors.lastname: Xue
mesh_terms: D020121:5' Untranslated Regions; D000409:Alanine / Q000737:chemistry; D003062:Codon; D018076:DNA, Complementary / Q000378:metabolism; D017343:Genes, Plant; D016678:Genome; D018745:Genome, Plant; D005998:Glycine / Q000737:chemistry; D007438:Introns; D016366:Open Reading Frames; D012275:Oryza / Q000235:genetics*; D011687:Purines / Q000737:chemistry; D011743:Pyrimidines / Q000737:chemistry; D012091:Repetitive Sequences, Nucleic Acid; D018911:Trinucleotide Repeats
chemical_list: D020121:5' Untranslated Regions; D003062:Codon; D018076:DNA, Complementary; D011687:Purines; D011743:Pyrimidines; D000409:Alanine; D005998:Glycine