Abstract
As a base for human transcriptome and functional genomics, we created the “full-length long Japan” (FLJ) collection of sequenced human cDNAs. We determined the entire sequence of 21,243 selected clones and found that 14,490 cDNAs (10,897 clusters) were unique to the FLJ collection. About half of them (5,416) seemed to be protein-coding. Of those, 1,999 clusters had not been predicted by computational methods. The distribution of GC content of nonpredicted cDNAs had a peak at ∼58% compared with a peak at ∼42%for predicted cDNAs. Thus, there seems to be a slight bias against GC-rich transcripts in current gene prediction procedures. The rest of the cDNAs unique to the FLJ collection (5,481) contained no obvious open reading frames (ORFs) and thus are candidate noncoding RNAs. About one-fourth of them (1,378) showed a clear pattern of splicing. The distribution of GC content of noncoding cDNAs was narrow and had a peak at ∼42%, relatively low compared with that of protein-coding cDNAs.
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Acknowledgements
We thank A. Kishimoto, H. Ezoe and T. Matsuo for supporting the project and E. Nakajima for critically reading the manuscript. This project was supported by the Ministry of Economy Trade and Industry of Japan and also in part by Special Coordination Funds for Promoting Science and Technology from the Ministry of Education, Culture, Sports, Science and Technology of Japan. Requests for materials should be addressed to S. Sugano. Requests for physical cDNA clones should be addressed to S.Sugano (flcdna@ims.u-tokyo.ac.jp) or T. Isogai (isogai-t@reprori.jp). For more information on each cDNA clone, visit FLJ-DB. For general information on the FLJ project, please refer to NEDO website.
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Ota, T., Suzuki, Y., Nishikawa, T. et al. Complete sequencing and characterization of 21,243 full-length human cDNAs. Nat Genet 36, 40–45 (2004). https://doi.org/10.1038/ng1285
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DOI: https://doi.org/10.1038/ng1285
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