title: DNA signals at isoform promoters.
abstract: Transcriptional heterogeneity is extensive in the genome, and most genes express variable transcript isoforms. However, whether variable transcript isoforms of one gene are regulated by common promoter elements remain to be elucidated. Here, we investigated whether isoform promoters of one gene have separated DNA signals for transcription and translation initiation. We found that TATA box and nucleosome-disfavored DNA sequences are prevalent in distinct transcript isoform promoters of one gene. These DNA signals are conserved among species. Transcript isoform has a RNA-determined unstructured region around its start site. We found that these DNA/RNA features facilitate isoform transcription and translation. These results suggest a DNA-encoded mechanism by which transcript isoform is generated.
authors.affiliation: School of Data and Computer Science, Sun Yat-Sen University, Guangzhou 510006, China.|Guangdong Province Key Laboratory of Big Data Analysis and Processing, Sun Yat-Sen University, Guangzhou 510006, China.
authors.forename: Zhiming
authors.initials: Z
authors.lastname: Dai
authors.affiliation: Key Laboratory of Gene Engineering of the Ministry of Education and State Key Laboratory of Biocontrol, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510006, China.|SYSU-CMU Shunde International Joint Research Institute, Shunde, China.
authors.forename: Yuanyan
authors.initials: Y
authors.lastname: Xiong
authors.affiliation: School of Electronics and Information Technology, Sun Yat-Sen University, Guangzhou 510006, China.
authors.forename: Xianhua
authors.initials: X
authors.lastname: Dai
mesh_terms: D001483:Base Sequence; D016681:Genome, Fungal; D010442:Peptide Chain Initiation, Translational; D011401:Promoter Regions, Genetic; D059368:RNA Isoforms / Q000737:chemistry / Q000235:genetics*; D016385:TATA Box; D014158:Transcription, Genetic; D015003:Yeasts / Q000235:genetics*
chemical_list: D059368:RNA Isoforms