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Transposons, a type of mobile genetic elements, are widespread across almost all eukaryotes and typically constitute a substantial fraction of the genome. They account for nearly 40% of the rice genome and contribute greatly to genetic diversity and genome evolution as an important source of variants. In addition, transposons have been exploited widely as gene tagging and molecular marker for genetic studies. By analyzing the resequencing data from the 3,000 rice genomes project using our developed pipeline, we obtained a comprehensive mobilome profile of 60,743 TE loci genotyped in 3,000 diverse accessions from 89 countries across five varietal groups. These loci showed abundant insertion polymorphisms among accessions and 19,160 of them was inserted within or nearby genes. This profile will potentially serve as valuable resources for transposons characterization, rice breeding as well as genetic studies.
