Table 1 Details of databases and web tools developed by Indian rice scientists
From: Rice Improvement Through Genome-Based Functional Analysis and Molecular Breeding in India
Sl. no. | Name of database/ tool | URL | Information generated | Reference |
|---|---|---|---|---|
1 | Rice blast infection prediction | Predicts chances of rice blast infection by using weather conditions as an input. | Kaundal et al. 2006 | |
2 | RetroPred | A downloadable tool which detects repeat regions in genomic sequences and classifies them as LINEs and SINEs. | Naik et al. 2008 | |
3 | pTAREF | A downloadable tool to predict miRNA targets in transcriptome data. | Jha and Shankar 2011 | |
4 | QlicRice | A database of 974 abiotic stress-related QTLs connected with 460 locus IDs, with their physical and genetic data, which can be easily queried. | Smita et al. 2011 | |
5 | MirtronPred | Uses intronic sequences as an input to predict mirtrons. | Joshi et al. 2012 | |
6 | STIFDB2 | Encompasses over 5000 stress responsive genes from Arabidopsis and both indica and japonica rice, with a list of putative TF binding sites in their promoters. | Naika et al. 2013 | |
7 | RiceSRTFDB | Salt and drought stress-responsive TFs from 99 Affymetrix chips can be queried. | Priya and Jain 2013 | |
8 | MCDRP | Manually curated data from all published rice genes, including ontology, functions, pathways and interactions. | Gour et al. 2014 |