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DNA Research 2000 7(3):217-221; doi:10.1093/dnares/7.3.217
© 2000 by Kazusa DNA Research Institute
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Structural Analysis of Arabidopsis thaliana Chromosome 3. II. Sequence Features of the 4,251,695 bp Regions Covered by 90 P1, TAC and BAC Clones

Takakazu Kaneko, Tomohiko Katoh, Shusei Sato, Yasukazu Nakamura, Erika Asamizu and Satoshi Tabata*

Kazusa DNA Research Institute 1532-3 Yana, Kisarazu, Chiba 292-0812, Japan

* To whom correspondence should be addressed. Tel. +81-438-52-3933, Fax. +81-438-52-3934, E-mail: tabata{at}kazusa.or.jp

To deduce the entire sequence of the top arm of the Arabidopsis thaliana chromosome 3, the sequence determination was performed on a total of 90 P1, TAC and BAC clones chosen according to our sequencing strategy. Sequence features of the resulting 4,251,695 bp regions were analyzed with various computer programs for similarity search and gene modeling. As a result, a total of 941 potential protein-coding genes were identified. The average density of the genes identified was 1 gene per 4210 bp. Introns were observed in 73% of the genes, and the average number per gene and the average length of the introns were 3.6 and 159 bp, respectively. These sequence features are essentially identical to those of chromosomes 3and 5 in our previous reports. The regions also contained 14 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 through the World Wide Web database KAOS (Kazusa Arabidopsis data Opening Site) at http://www.kazusa.or.jp/kaos/.

Key words: Arabidopsis thaliana chromosome 3; genomic sequence; P1 genomic library; TAC genomic library; gene prediction


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