Spliced -tRNA detection in genome sequence

Welcome to SPLITS web-site. Here we present SPLITS and SPLITSX, expansion programs for tRNAscan-SE to detect spliced-tRNA genes, such as split-tRNA genes (Figure A) and intron-containing tRNA genes (Figure B) in archaea. Both programs were written in PERL programming language version 5.8, and run on Unix/Linux operating systems. The length of the query sequence should be limited within 5 mega base pairs (nucleotide). If your sequence is longer than this, please divide the sequence and submit separately. Finally these programs are under active development. If you use these programs, please help me out by e-mailing me with suggestions, comments, and bug reports.

SPLITS -a program for predicting split and permuted tRNA genes-

• Source code distribution
  
• SPLITS-1.1
• References
• Sugahara J, Yachie N, Sekine Y, Soma A, Matsui M, Tomita M, Kanai A. (2006). SPLITS: a new program for predicting split and intron-containing tRNA genes at the genome level. In Silico Biology. 6, 0039.

SPLITSX -a program for predicting tRNA genes having multiple introns-

• Source code distribution
• SPLITSX
• Supplementary Informations
  
  • RNA_SupplMat.pdf
• References
  • Sugahara J., Yachie N., Arakawa K., Tomita M. (2007) In Silico Screening of Archaeal tRNA-encoding Genes Having Multiple Introns with Bulge-Helix-Bulge Splicing Motifs, RNA; 13: 671-681

First Rerease

2006.04.29

Leatest Update

2007.10.21

Links

• SPLITSdb
• G-language
• E-cell
• E-cell 3D
• Institute for Advanced Biosciences
• SFC BIO Project, Keio University
• Keio University
• NCBI

    Copyright 2007 SPLITS Project, Keio University