ERISdb: A database of plant splice sites and splicing signals
Authors:
- Michał Szcześniak,
- Michal Kabza,
- Rafal Pokrzywa,
- Adam Gudyś,
- Izabela Makałowska
Abstract
Splicing is one of the major contributors to observed spatiotemporal diversification of transcripts and proteins in metazoans. There are numerous factors that affect the process, but splice sites themselves along with the adjacent splicing signals are critical here. Unfortunately, there is still little known about splicing in plants and, consequently, further research in some fields of plant molecular biology will encounter difficulties. Keeping this in mind, we performed a large-scale analysis of splice sites in eight plant species, using novel algorithms and tools developed by us. The analyses included identification of orthologous splice sites, polypyrimidine tracts and branch sites. Additionally we identified putative intronic and exonic cis-regulatory motifs, U12 introns as well as splice sites in 45 microRNA genes in five plant species. We also provide experimental evidence for plant splice sites in the form of expressed sequence tag and RNA-Seq data. All the data are stored in a novel database called ERISdb and are freely available at http://lemur.amu.edu. pl/share/ERISdb/. © The Author 2013. Published by Oxford University Press on behalf of Japanese Society of Plant Physiologists. All rights reserved.
- Record ID
- UAM6ae659cd02bd4829a3caa287203bf84b
- Author
- Journal series
- Plant and Cell Physiology, ISSN 0032-0781
- Issue year
- 2013
- Vol
- 54
- No
- 2
- Pages
- 1-8
- ASJC Classification
- ; ; ;
- DOI
- DOI:10.1093/pcp/pct001 Opening in a new tab
- Language
- (en) English
- Score (nominal)
- 40
- Score source
- journalList
- Score
- Publication indicators
- = 19; = 26; = 41; : 2013 = 1.476; : 2013 (2 years) = 4.978 - 2013 (5 years) =4.972
- Citation count
- 44
- Uniform Resource Identifier
- https://researchportal.amu.edu.pl/info/article/UAM6ae659cd02bd4829a3caa287203bf84b/
- URN
urn:amu-prod:UAM6ae659cd02bd4829a3caa287203bf84b
* presented citation count is obtained through Internet information analysis and it is close to the number calculated by the Publish or PerishOpening in a new tab system.