Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
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.
Department of Molecular Biology, National Institute of Agrobiological Sciences, 2-1-2 Kannon-dai, Tsukuba, Ibaraki 305-8602, Japan. skikuchi@nias.affrc.go.jp
Kikuchi
Shoshi
S
Satoh
Kouji
K
Nagata
Toshifumi
T
Kawagashira
Nobuyuki
N
Doi
Koji
K
Kishimoto
Naoki
N
Yazaki
Junshi
J
Ishikawa
Masahiro
M
Yamada
Hitomi
H
Ooka
Hisako
H
Hotta
Isamu
I
Kojima
Keiichi
K
Namiki
Takahiro
T
Ohneda
Eisuke
E
Yahagi
Wataru
W
Suzuki
Kohji
K
Li
Chao Jie
CJ
Ohtsuki
Kenji
K
Shishiki
Toru
T
Otomo
Yasuhiro
Y
Murakami
Kazuo
K
Iida
Yoshiharu
Y
Sugano
Sumio
S
Fujimura
Tatsuto
T
Suzuki
Yutaka
Y
Tsunoda
Yuki
Y
Kurosaki
Takashi
T
Kodama
Takeko
T
Masuda
Hiromi
H
Kobayashi
Michie
M
Xie
Quihong
Q
Lu
Min
M
Narikawa
Ryuya
R
Sugiyama
Akio
A
Mizuno
Kouichi
K
Yokomizo
Satoko
S
Niikura
Junko
J
Ikeda
Rieko
R
Ishibiki
Junya
J
Kawamata
Midori
M
Yoshimura
Akemi
A
Miura
Junichirou
J
Kusumegi
Takahiro
T
Oka
Mitsuru
M
Ryu
Risa
R
Ueda
Mariko
M
Matsubara
Kenichi
K
Kawai
Jun
J
Carninci
Piero
P
Adachi
Jun
J
Aizawa
Katsunori
K
Arakawa
Takahiro
T
Fukuda
Shiro
S
Hara
Ayako
A
Hashizume
Wataru
W
Hayatsu
Norihito
N
Imotani
Koichi
K
Ishii
Yoshiyuki
Y
Itoh
Masayoshi
M
Kagawa
Ikuko
I
Kondo
Shinji
S
Konno
Hideaki
H
Miyazaki
Ai
A
Osato
Naoki
N
Ota
Yoshimi
Y
Saito
Rintaro
R
Sasaki
Daisuke
D
Sato
Kenjiro
K
Shibata
Kazuhiro
K
Shinagawa
Akira
A
Shiraki
Toshiyuki
T
Yoshino
Masayasu
M
Hayashizaki
Yoshihide
Y
Yasunishi
Ayako
A
D017398:Alternative Splicing; D000595:Amino Acid Sequence; D003001:Cloning, Molecular; D019295:Computational Biology; D018076:DNA, Complementary; D030561:Databases, Nucleic Acid; D030562:Databases, Protein; D017343:Genes, Plant; D018745:Genome, Plant; D008969:Molecular Sequence Data; D016366:Open Reading Frames; D012275:Oryza / Q000235:genetics*; D010940:Plant Proteins / Q000737:chemistry / Q000235:genetics / Q000502:physiology; D017434:Protein Structure, Tertiary; D016372:RNA, Antisense / Q000235:genetics; D017422:Sequence Analysis, DNA; D017386:Sequence Homology, Amino Acid; D012689:Sequence Homology, Nucleic Acid; D014157:Transcription Factors / Q000737:chemistry / Q000235:genetics; D014158:Transcription, Genetic
D018076:DNA, Complementary; D010940:Plant Proteins; D016372:RNA, Antisense; D014157:Transcription Factors