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Arabidopsis thaliana Arabidopsis thaliana
Brachypodium Brachypodium distachyon
populus Populus nigra
oryza Oryza sativa
lotus Lotus japonicus
lycopersicom Lycopersicon esculentum Mill
striga Striga hermonthica
nicotiana Nicotiana tabacum
(BY-2 cell)
brassica Brassica rapa
thellungiella Thellungiella halophila
physcomitrella Physcomitrella patens
manihot Manihot esculenta Crantz

RIKEN Arabidopsis full-length cDNA clones (RAFL clones)

This resource is called as RIKEN Arabidopsis full-length cDNA clones (RAFL clones) that has been developed by RIKEN Genomic Sciences Center (GSC) in Yokohama, Japan. The clones were deposited from Dr. Kazuo Shinozaki who is a director of RIKEN Plant Science Center (PSC) and a former group director of Plant Functional Genomics Research Group in RIKEN GSC. The RIKEN GSC, SSP (Salk/Stanford/PGEC) consortium and National Institute of Genetics (NIG) have characterized full-length sequence of approx. 18,000 RAFL clones with the supports from NSF 2010 Project and National BioResource Project. By the SSP consortium, the RAFL clones are called as ‘R clone’ and distinguished from ‘U clone’ that harbors ORF sequence of R clone in pUNI vector.

Resource number: pda00001- (with full-length sequence),
pdx00001-/pdy00001-/pdz00001- (with 5’-and/or 3’-end sequences)
Developer: Drs. Motoaki Seki and *Kazuo Shinozaki (RIKEN GSC, *RIKEN PSC).
Total number of clones: approx. 18,000 (pda), 220,000 (pdx/pdy/pdz)
Style of distribution: Approx. 100 ng of lyophilized plasmid DNA is provided.
Number of available clones: 16,915 clones (pda), 228,886 clones (pdx/pdy/pdz) (Mar. 2006)
Background ecotype: Columbia
Vector: modified pBluescript
Selection marker: ampicillin
Map and restriction site: Shown here
Specific feature: Full-length sequence and/or 5’-/3’-end sequences have been characterized.
Specific conditions for distribution:
(a)The RECIPIENT agrees to expressly describe that “the Arabidopsis full-length cDNA clone was developed by the plant genome project of RIKEN Genomic Sciences Center” in any publication reporting the use thereof.
(b)The manuscripts listed below should be referred in the publication on scientific journal.
  1. Seki M, Carninci P, Nishiyama Y, Hayashizaki Y and Shinozaki K (1998) High-efficiency cloning of Arabidopsis full-length cDNA by biotinylated CAP trapper. Plant Journal 15: 707-720.
  2. Seki M, Narusaka M, Kamiya A, Ishida J, Satou M, Sakurai T, Nakajima M, Enju A, Akiyama K, Oono Y, Muramatsu M, Hayashizaki Y, Kawai J, Carninci P, Itoh M, Ishii Y, Arakawa T, Shibata K, Shinagawa A and Shinozaki K (2002) Functional Annotation of a Full-Length Arabidopsis cDNA Collection. Science 296: 141-145.
  1. Seki, M., Carninci, P., Nishiyama, Y., Hayashizaki, Y. and Shinozaki, K. (1998) Plant Journal 15: 707-720. PMID: 9778851
  2. Seki, M., Narusaka, M., Kamiya, A., Ishida, J., Satou, M., Sakurai, T., Nakajima, M., Enju, A., Akiyama, K., Oono, Y., Muramatsu, M., Hayashizaki, Y., Kawai, J., Carninci, P., Itoh, M., Ishii, Y., Arakawa, T., Shibata, K., Shinagawa, A. and Shinozaki, K. (2002) Science 296: 141-145. PMID: 11910074
  3. Sakurai T, Satou M, Akiyama K, Iida K, Seki M, Kuromori T, Ito T, Konagaya A, Toyoda T, and Shinozaki K. (2005) Nucleic Acids Res. 33(Database issue): D647-50. PMID: 15608280
 (1)Detailed information including full-length sequence of the individual RAFL clone is available from the following websites:

(2)Before making an order, please examine the sequence of clones that you have.