RGP physicalmap
About This Database
Database Description
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Database name
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RGP physicalmap
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Alternative name
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Rice Genome Mapping and Sequencing Data from RGP, STAFF/NIAR, Japan |
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DOI
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10.18908/lsdba.nbdc00318-06-000 |
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Creator
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Creator Name
Yosuke Umehara
Creator Affiliation
National Institute of Agrobiological Sciences
Creator Name
Nori Kurata
Creator Affiliation
National Institute of Agrobiological Sciences
Creator Name
Takuji Sasaki*
Creator Affiliation
National Institute of Agrobiological Sciences
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Contact address
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2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602, Japan National Institute of Agrobiological Sciences Takashi Matsumoto E-mail :  Yuichi Katayose E-mail : 
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Database classification
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Plant databases - Rice |
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Database classification
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Sequence
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Organism
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Database description
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This site contains a physical map information of rice using yeast artificial chromosome (YAC) clones selected with the Rice Genome Research Program (RGP) DNA markers from 1994 through 1997 version. A rice YAC library of RGP was constructed from cultured cells of Oryza sativa L. cv. Nipponbare and contains 6934 clones with 350 kb average insert length. |
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Features and manner of utilization of database
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You can see the data files of yeast artificial chromosome (YAC) clones by figures and tables, which clones were selected with DNA markers in the Rice Genome Research Program (RGP) for each chromosome. In the tables, YAC clones selected with RGP DNA markers for each chromosome are shown along with the markers and the genetic distances. In the figures, the YAC physical maps of each divided region on the chromosomes are shown.
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License
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CC BY-SA Detail |
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Background and funding
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Name
Phase 1 of Rice Genome Research Project (1991-1997)
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Reference(s)
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Article title
Construction and characterization of a rice YAC library for physical mapping
Author name(s)
Yosuke Umehara, Akiko Inagaki, Hiroshi Tanoue, Yuji Yasukochi, Yoshiaki Nagamura, Shoko Saji, Yoshiaki Otsuki, Tatsuhito Fujimura, Nori Kurata, Yuzo Minobe
Journal
Molecular Breeding (1995) 1(1): 79-89.
External Links
Article title
A 300 kilobase interval genetic map of rice including 883 expressed sequences
Author name(s)
N. Kurata, Y. Nagamura, K. Yamamoto, Y. Harushima, N. Sue, J. Wu, B.A. Antonio, A. Shomura, T. Shimizu, S-Y. Lin, T. Inoue, A. Fukuda, T. Shimano, Y. Kuboki, T. Toyama, Y. Miyamoto, T. Kirihara, K. Hayasaka, A. Miyao, L. Monna, H.S. Zhong, Y. Tamura, Z-X, Wang, T. Momma, Y. Umehara, M. Yano, T. Sasaki and Y. Minobe
Journal
Nature Genetics (1994) 8: 365-372.
External Links
Article title
Physical Mapping of Rice Chromosome 1 with Yeast Artificial Chromosomes (YACs)
Author name(s)
Zi-Xuan Wang, Atsuko Idonuma, Yosuke Umehara, Wim Van Houten, Ikuo Ashikawa, Yuzo Minobe, Nori Kurata and Takuji Sasaki
Journal
DNA Research (1996) 3(5): 291-296.
External Links
Article title
Yeast Artificial Chromosome Clones of Rice Chromosome 2 Ordered Using DNA Markers
Author name(s)
Yosuke Umehara, Nori Kurata, Ikuo Ashikawa and Takuji Sasaki
Journal
DNA Research (1997) 4(2): 127-131.
External Links
Article title
Ordered YAC Clone Contigs Assigned to Rice Chromosomes 3 and 11
Author name(s)
Hiroshi Tanoue, Takanori Shimokawa, Jianzhong Wu, Norio Sue, Yosuke Umehara, Ikuo Ashikawa, Nori Kurata and Takuji Sasaki
Journal
DNA Research (1997) 4(2): 133-140.
External Links
Article title
Physical Mapping of Rice Chromosomes 4 and 7 Using YAC Clones
Author name(s)
Kazuhiro Koike, Katsuhiko Yoshino, Norio Sue, Yosuke Umehara, Ikuo Ashikawa, Nori Kurata and Takuji Sasaki
Journal
DNA Research (1997) 4(1): 27-33.
External Links
Article title
Construction of YAC Contigs on Rice Chromosome 5
Author name(s)
Shoko Saji, Yosuke Umehara, Nori Kurata, Ikuo Ashikawa and Takuji Sasaki
Journal
DNA Research (1996) 3(5): 297-302.
External Links
Article title
An ordered yeast artificial chromosome library covering over half of rice chromosome 6
Author name(s)
Y Umehara, H Tanoue, N Kurata, I Ashikawa, Y Minobe, and T Sasaki
Journal
Genome Research (1996) 6(10): 935-942.
External Links
Article title
Physical mapping of rice chromosomes 8 and 9 with YAC clones
Author name(s)
Baltazar A. Antonio, Makiko Emoto, Jianzhong Wu, Ikuo Ashikawa, Yosuke Umehara, Nori Kurata and Takuji Sasaki
Journal
DNA Research (1996) 3(6): 393-400.
External Links
Article title
Assignment of YAC Clones Spanning Rice Chromosomes 10 and 12
Author name(s)
Takanori Shimokawa, Nori Kurata, Jianzhong Wu, Yosuke Umehara, Ikuo Ashikawa and Takuji Sasaki
Journal
DNA Research (1996) 3(6): 401-406.
External Links
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| Original website information | |
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Database maintenance site
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URL of the original website
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(Suspended)http://rgp.dna.affrc.go.jp/E/publicdata/physicalmap/physicalmap.html |
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Operation start date
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1997/07/09 |
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Last update date
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1998/08/24 |
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URL of the portal site
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http://rgp.dna.affrc.go.jp/E/ |
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Whole data download
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Referenced database
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DDBJ |
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Entry list
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Not available |
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Query search
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Not available |
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Web services
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Not available |
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URL of Web services
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- |
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Need for user registration
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Not available |