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tRNAs in Blueberry Genome

Puneet Lakhmani. tRNAs in Blueberry Genome. Outline. Methods Results Where to go next. Methods: tRNA scanning. tRNA scan-SE ARAGORN tRNA finder. Methods: What I Did. tRNADB -CE BLAST Count using word. Results. Comparisions.

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tRNAs in Blueberry Genome

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  1. PuneetLakhmani tRNAs in Blueberry Genome

  2. Outline • Methods • Results • Where to go next

  3. Methods: tRNA scanning • tRNA scan-SE • ARAGORN • tRNA finder

  4. Methods: What I Did • tRNADB-CE • BLAST • Count using word

  5. Results

  6. Comparisions • 569 tRNAs in the strawberry genome; tRNA scan-SE scores • 600 tRNAs in the grape genome (median size 73; 43% GC content) based on thei

  7. Conclusion • 454 and Illumina data overlap • tRNA scan-SE • VaccinumtRNA

  8. References • Laslett, D. & Canback, B. (2004) ARAGORN, a program to detect tRNA genes and tmRNA genes in nucleotide sequences. Nucleic Acids Res.32;11-16.  • Lowe, T.M. and Eddy, S.R. (1997) Nucleic Acids Res, 25: 955-964. • Takashi Abe, ToshimichiIkemura, Junichi Sugahara, Akio Kanai, YasuoOhara, Hiroshi Uehara, Makoto Kinouchi, ShigehikoKanaya, Yuko Yamada, Akira Muto and HachiroInokuchi"tRNADB-CE 2011: tRNA gene database curated manually by experts“ Nucleic Acids Research, 39(Database isuue), D210-D213, 2011. • http://trna.nagahama-i-bio.ac.jp/cgi-bin/trnadb/index.cgi • http://lowelab.ucsc.edu/tRNAscan-SE/ • http://www.wiley.com/college/boyer/0470003790/structure/tRNA/trna_intro.htm

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