GenePainter¶
Description¶
The conservation of intron positions comprises information useful for de novo gene prediction as well as for analyzing the origin of introns. GenePainter maps gene structures onto protein multiple sequence alignments. Gene structures, as provided by e.g. WebScipio, are aligned with respect to the exact positions of the introns (down to nucleotide level) and intron phase. Because gene trees often do not correspond to species trees, intron conservation provides additional and independent information to reconstruct the history of the eukaryotes.
Environment Modules¶
Run module spider genepainter to find out what environment modules are available for this application.
Environment Variables¶
- HPC_GENEPAINTER_DIR - installation directory
- HPC_GENEPAINTER_BIN - executable directory
- HPC_GENEPAINTER_DOC - documentation directory
- HPC_GENEPAINTER_EXE - examples directory
Citation¶
If you publish research that uses GenePainter you have to cite it as follows:
Mühlhausen, S., Hellkamp, M., and Kollmar, M. 2015. GenePainter v. 2.0 resolves the taxonomic distribution of intron positions. Bioinformatics, 31 (8): 1302–1304. https://doi.org/10.1093/bioinformatics/btu798
Hammesfahr, B., Odronitz, F., Mühlhausen, S., Waack, S., and Kollmar, M. 2013. GenePainter: a fast tool for aligning gene structures of eukaryotic protein families, visualizing the alignments and mapping gene structures onto protein structures. BMC Bioinformatics 14: 77. https://doi.org/10.1186/1471-2105-14-77
Categories¶
biology, phylogenetics