Fission yeast gene structure and recognition - PubMed (original) (raw)

Fission yeast gene structure and recognition

M Q Zhang et al. Nucleic Acids Res. 1994.

Free PMC article

Abstract

A database of 210 Schizosaccharomyces pombe DNA sequences (524,794 bp) was extracted from GenBank (release number 81.0) and examined by a number of methods in order to characterize statistical features of these sequences that might serve as signals or constraints for messenger RNA splicing. The statistical information compiled includes splicing signal (donor, acceptor and branch site) profiles, translational initiation start profile, exon/intron length distributions, ORF distribution, CDS size distribution, codon usage table, and 6-tuple distribution. The information content of the various signals are also presented. A rule-based interactive computer program for finding introns called INTRON.PLOT has been developed and was used to successfully analyze 7 newly sequenced genes.

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References

1. 1. Proc Natl Acad Sci U S A. 1977 Aug;74(8):3171-5 - PubMed
2. 1. Methods Enzymol. 1990;183:211-21 - PubMed
3. 1. Nucleic Acids Res. 1982 Jan 22;10(2):459-72 - PubMed
4. 1. Cell. 1983 Jun;33(2):509-18 - PubMed
5. 1. Nucleic Acids Res. 1984 Nov 26;12(22):8295-312 - PubMed

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