Journal Article

Structural Analysis of <i>Arabidopsis thaliana</i> chromosome 5. IX. Sequence Features of the Regions of 1,011,550 bp Covered by Seventeen P1 and TAC Clones

Takakazu Kaneko, Tomohiko Katoh, Shusei Sato, Yasukazu Nakamura, Erika Asamizu, Hirokazu Kotani, Nobuyuki Miyajima and Satoshi Tabata

in DNA Research

Published on behalf of Kazusa DNA Research Institute

Volume 6, issue 3, pages 183-195
Published in print January 1999 | ISSN: 1340-2838
Published online January 1999 | e-ISSN: 1756-1663 | DOI: http://dx.doi.org/10.1093/dnares/6.3.183

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In this series of projects sequencing the entire genome of Arabidopsis thaliana chromosome 5, nonredundant P1 and TAC clones have been sequenced according to the fine physical map, and as of May 7, 1999, the sequences of 16.2 Mb representing approximately 60% of chromosome 5 have been accumulated and released at our web site. In parallel, structural features of the sequenced regions have been analyzed by applying a variety of computer programs, and to date we have predicted a total of 2380 potential proteincoding genes in the 10,154,580 bp regions, which are covered by 142 P1 and TAC clones. In this paper, we newly analyzed the structural features of the 1,011,550 bp regions covered by additional 17 P1 and TAC clones, and predicted 298 protein-coding genes. The average density of the genes identified was 1 gene per 3394 bp. Introns were observed in 67% of the genes, and the average number per gene and the average length of the introns were 3.2 and 159 bp, respectively. The gene density became higher than the value estimated in the previously analyzed regions (1 gene per 4,267 bp), as the data in this paper were compiled based on a new standard of gene assignment including the computer-predicted hypothetical genes. The regions also contained 8 tRNA genes when searched by similarity to reported tRNA genes and the tRNA scan-SE program. The sequence data and information on the potential genes are available on the database KAOS (Kazusa Arabidopsis data Opening Site) at .

Keywords: Arabidopsis thaliana chromosome 5; genomic sequence; P1 genomic library; TAC genomic library; gene prediction

Journal Article.  0 words. 

Subjects: Genetics and Genomics

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