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. 2008 Jan;36(Database issue):D1028-33.
doi: 10.1093/nar/gkm978. Epub 2007 Dec 17.

The Rice Annotation Project Database (RAP-DB): 2008 update

Rice Annotation Project  1 ; Tsuyoshi Tanaka, Baltazar A Antonio, Shoshi Kikuchi, Takashi Matsumoto, Yoshiaki Nagamura, Hisataka Numa, Hiroaki Sakai, Jianzhong Wu, Takeshi Itoh, Takuji Sasaki, Ryo Aono, Yasuyuki Fujii, Takuya Habara, Erimi Harada, Masako Kanno, Yoshihiro Kawahara, Hiroaki Kawashima, Hiromi Kubooka, Akihiro Matsuya, Hajime Nakaoka, Naomi Saichi, Ryoko Sanbonmatsu, Yoshiharu Sato, Yuji Shinso, Mami Suzuki, Jun-ichi Takeda, Motohiko Tanino, Fusano Todokoro, Kaori Yamaguchi, Naoyuki Yamamoto, Chisato Yamasaki, Tadashi Imanishi, Toshihisa Okido, Masahito Tada, Kazuho Ikeo, Yoshio Tateno, Takashi Gojobori, Yao-Cheng Lin, Fu-Jin Wei, Yue-ie Hsing, Qiang Zhao, Bin Han, Melissa R Kramer, Richard W McCombie, David Lonsdale, Claire C O'Donovan, Eleanor J Whitfield, Rolf Apweiler, Kanako O Koyanagi, Jitendra P Khurana, Saurabh Raghuvanshi, Nagendra K Singh, Akhilesh K Tyagi, Georg Haberer, Masaki Fujisawa, Satomi Hosokawa, Yukiyo Ito, Hiroshi Ikawa, Michie Shibata, Mayu Yamamoto, Richard M Bruskiewich, Douglas R Hoen, Thomas E Bureau, Nobukazu Namiki, Hajime Ohyanagi, Yasumichi Sakai, Satoshi Nobushima, Katsumi Sakata, Roberto A Barrero, Yutaka Sato, Alexandre Souvorov, Brian Smith-White, Tatiana Tatusova, Suyoung An, Gynheung An, Satoshi OOta, Galina Fuks, Galina Fuks, Joachim Messing, Karen R Christie, Damien Lieberherr, HyeRan Kim, Andrea Zuccolo, Rod A Wing, Kan Nobuta, Pamela J Green, Cheng Lu, Blake C Meyers, Cristian Chaparro, Benoit Piegu, Olivier Panaud, Manuel Echeverria
Affiliations

The Rice Annotation Project Database (RAP-DB): 2008 update

Rice Annotation Project et al. Nucleic Acids Res. 2008 Jan.

Abstract

The Rice Annotation Project Database (RAP-DB) was created to provide the genome sequence assembly of the International Rice Genome Sequencing Project (IRGSP), manually curated annotation of the sequence, and other genomics information that could be useful for comprehensive understanding of the rice biology. Since the last publication of the RAP-DB, the IRGSP genome has been revised and reassembled. In addition, a large number of rice-expressed sequence tags have been released, and functional genomics resources have been produced worldwide. Thus, we have thoroughly updated our genome annotation by manual curation of all the functional descriptions of rice genes. The latest version of the RAP-DB contains a variety of annotation data as follows: clone positions, structures and functions of 31 439 genes validated by cDNAs, RNA genes detected by massively parallel signature sequencing (MPSS) technology and sequence similarity, flanking sequences of mutant lines, transposable elements, etc. Other annotation data such as Gnomon can be displayed along with those of RAP for comparison. We have also developed a new keyword search system to allow the user to access useful information. The RAP-DB is available at: http://rapdb.dna.affrc.go.jp/ and http://rapdb.lab.nig.ac.jp/.

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Figures

Figure 1.
Figure 1.
Schematic view of the annotation browser and items that can be selected.
See this image and copyright information in PMC

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