tRNAviz: explore and visualize tRNA sequence features
| Autor: | Patricia P. Chan, Todd M. Lowe, Brian Y. Lin |
|---|---|
| Rok vydání: | 2019 |
| Předmět: |
Comparative genomics
0303 health sciences Base Sequence Sequence Analysis RNA Sequence analysis 030302 biochemistry & molecular biology RNA Translation (biology) RNA Archaeal Computational biology Biology Genome RNA Bacterial 03 medical and health sciences RNA Transfer Consensus Sequence Web Server Issue Transfer RNA Computer Graphics Genetics Consensus sequence Software 030304 developmental biology Sequence (medicine) |
| Zdroj: | Nucleic Acids Research |
| ISSN: | 1362-4962 0305-1048 |
| DOI: | 10.1093/nar/gkz438 |
| Popis: | Transfer RNAs (tRNAs) are ubiquitous across the tree of life. Although tRNA structure is highly conserved, there is still significant variation in sequence features between clades, isotypes and even isodecoders. This variation not only impacts translation, but as shown by a variety of recent studies, nontranslation-associated functions are also sensitive to small changes in tRNA sequence. Despite the rapidly growing number of sequenced genomes, there is a lack of tools for both small- and large-scale comparative genomics analysis of tRNA sequence features. Here, we have integrated over 150 000 tRNAs spanning all domains of life into tRNAviz, a web application for exploring and visualizing tRNA sequence features. tRNAviz implements a framework for determining consensus sequence features and can generate sequence feature distributions by isotypes, clades and anticodons, among other tRNA properties such as score. All visualizations are interactive and exportable. The web server is publicly available at http://trna.ucsc.edu/tRNAviz/. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|