In silico microRNA identification from paprika (Capsicum annuum) ESTs
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- Bioinformatics Centre, Indian Institute of Spices Research, Calicut - 12
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- Document Type:
- Manuscript
- Date:
- Received 24 September 2009 05:19 UTC; Posted 24 September 2009
- Subjects:
- Genetics & Genomics, Bioinformatics, Plant Biology
- Abstract:
A total of 33,311 Expressed Sequence Tags (EST) of paprika were mined from the GenBank EST database. The redundancy of the EST sequences was removed using CAP3 and it resulted 4,541 contigs 8,539 singletons as nonredundant data sets. The microRNAs were predicted using the program miRNAfinder. This program predicted a total of 85 miRNAs miRNAs. Another study was carried out to find the homologes miRNA using blast based tool named “miRseeK’ A total of 13 miRNAs with significant similarity with the plant miRNAs were obtained from paprika ESTs. The targets of the predicted miRNAs were found using the program miRU2. Findings suggest that most miRNAs play an important role in plant development, signal transduction, protein degradation and in response to environmental stress. The miRNAs were found to be perfectly or nearly complementary to its target mRNAs.
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- License:
- This document is licensed to the public under the Creative Commons Attribution 3.0 License
- How to cite this document:
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Manila, T. M., Riju, A., Lakshmi Priya Darshini, K., Chandrasekar, A., and Eapen, S. J.. In silico microRNA identification from paprika (Capsicum annuum) ESTs. Available from Nature Precedings <http://hdl.handle.net/10101/npre.2009.3737.1> (2009)
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