Collection, Mapping, and Annotation of Over 28,000 cDNA Clones from <i>japonica</i> Rice
Shoshi Kikuchi, Kouji Satoh, Toshifumi Nagata, Nobuyuki Kawagashira, Koji Doi, Naoki Kishimoto, Junshi Yazaki, Masahiro Ishikawa, Hitomi Yamada, Hisako Ooka, Isamu Hotta, Keiichi Kojima, Takahiro Namiki, Eisuke Ohneda, Wataru Yahagi, Kohji Suzuki, Chao Jie Li, Kenji Ohtsuki, Toru Shishiki, Yasuhiro Otomo, Kazuo Murakami, Yoshiharu IIDA, Sumio Sugano, Tatsuto Fujimura, Yutaka Suzuki, Yuki Tsunoda, Takashi Kurosaki, Takeko Kodama, Hiromi Masuda, Michie Kobayashi, Quihong Xie, Min Lu, Ryuya Narikawa, Akio Sugiyama, Kouichi Mizuno, Satoko Yokomizo, Junko Niikura, Rieko Ikeda, Junya Ishibiki, Midori Kawamata, Akemi Yoshimura, Junichirou Miura, Takahiro Kusumegi, Mitsuru Oka, Risa Ryu, Mariko Ueda, Kenichi Matsubara, Jun Kawai(Foundation for Advancement of International Science), Piero Carninci(Foundation for Advancement of International Science), Jun Adachi(Foundation for Advancement of International Science), Katsunori Aizawa(Foundation for Advancement of International Science), Takahiro Arakawa(Foundation for Advancement of International Science), Shiro Fukuda(Foundation for Advancement of International Science), Ayako Hara(Foundation for Advancement of International Science), Wataru Hashidume(Foundation for Advancement of International Science), Norihito Hayatsu(Foundation for Advancement of International Science), Koichi Imotani(Foundation for Advancement of International Science), Yoshiki Ishii(Foundation for Advancement of International Science), Masayoshi Itoh(Foundation for Advancement of International Science), Ikuko Kagawa(Foundation for Advancement of International Science), Shinji Kondo(Foundation for Advancement of International Science), Hedeaki Konno(Foundation for Advancement of International Science), Ai Miyazaki(Foundation for Advancement of International Science), Naoki Osato(Foundation for Advancement of International Science), Yoshimi Ota(Foundation for Advancement of International Science), Rintaro Saito(Foundation for Advancement of International Science), Daisuke Sasaki(Foundation for Advancement of International Science), Kenjiro Sato(Foundation for Advancement of International Science), Kazuhiro Shibata(Foundation for Advancement of International Science), Akira Shinagawa(Foundation for Advancement of International Science), Toshiyuki Shiraki(Foundation for Advancement of International Science), Masayasu Yoshino(Foundation for Advancement of International Science), Yoshihide Hayashizaki(Foundation for Advancement of International Science)
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Abstract
We collected and completely sequenced 28,469 full-length complementary DNA clones from Oryza sativa L. ssp. japonica cv. Nipponbare. Through homology searches of publicly available sequence data, we assigned tentative protein functions to 21,596 clones (75.86%). Mapping of the cDNA clones to genomic DNA revealed that there are 19,000 to 20,500 transcription units in the rice genome. Protein informatics analysis against the InterPro database revealed the existence of proteins presented in rice but not in Arabidopsis. Sixty-four percent of our cDNAs are homologous to Arabidopsis proteins.
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