We thank all who construct and maintain following databases, softwares and web sites. We are also grateful to all members in AGI sequencing teams and Arabidopsis thaliana database. This work was supported by the Kazusa DNA Research Institute Fundataion.
Benson, D. A., Boguski, M. S., Lipman, D. J., Ostell, J. and Ouellette, B. F. 1998, GenBank, Nucl. Acids Res., 26, 1-7. [Medline]
Altschul, S. F., Gish, W., Miller, W., Myers, E. W. and Lipman, D. J., 1990, Basic local alignment search tool, J. Mol. Biol., 215, 403-410. [Medline]
Gish, W. and States, D. J., 1993, Identification of protein coding regions by database similarity search, Nature Genet., 3, 266-272. [Medline]
Burge, C. and Karlin, S., 1997, Prediction of complete gene structures in human genomic DNA, J. Mol. Biol., 268, 78-94. [Medline]
Uberbacher, E. C. and Mural, R. J., 1991, Locating protein-coding regions in human DNA sequences by a multiple sensor-neural network approach, Proc. Natl. Acad. Sci. USA, 88, 11261-11265. [Medline]
Brunak, S., Engelbrecht, J., and Knudsen, S. 1991, Prediction of Human mRNA Donor and Acceptor Sites from the DNA Sequence, J. Mol. Biol., 220, 49-65. [Medline]
Hebsgaard, S. M., Korning, P. G., Tolstrup, N., Engelbrecht, J., Rouze, P. and Brunak, S., 1996, Splice site prediction in Arabidopsis thaliana DNA by combining local and global sequence information, Nucl. Acids Res., 24, 3439-3452. [Medline]
Kleffe, J., Hermann, K., Vahrson, W., Wittig, B. and Brendel, V., 1996, Logitlinear models for the prediction of splice sites in plant pre-mRNA sequences, Nucl. Acids Res., 24, 4718-4728. [Medline]
Brendel, V., Kleffe, J., Carle-Urioste, J. C. and Walbot, V., 1998, Prediction of splice sites in plant pre-mRNA from sequence properties, J. Mol. Biol., 276, 85-104. [Medline]
Brendel, V. and Kleffe, J., 1998, Prediction of locally optimal splice sites in plant pre-mRNA with applications to gene identification in Arabidopsis thaliana genomic DNA, Nucl. Acids Res., 26, 4748-4757. [Medline]
SplicePredictor web site at Stanford
Lowe, T. and Eddy, S. R., 1997, tRNAscan-SE: a Program For Improved Detection of Transfer RNA genes in Genomic Sequence, Nucl. Acids Res., 25 955-964. [Medline]
tRNAscan-SE web site at Washington Univ. in St. Louis
AtDB's AGI general information
AtDB: Arabidopsis thaliana Database
The Really Quite Useful MolBio Page
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