Bioinformatics Unit, ICRISAT, Patancheru, Andhra Pradesh 502324, India, GTL-Biotechnology, ICRISAT, Patancheru, Andhra Pradesh 502324, India.
Mol Ecol Resour. 2008 May;8(3):575-7. doi: 10.1111/j.1471-8286.2007.02035.x.
The availability of complete, annotated genomic sequence information in model organisms is a rich resource that can be extended to understudied orphan crops through comparative genomic approaches. We report here a software tool (cisprimertool) for the identification of conserved intron scanning regions using expressed sequence tag alignments to a completely sequenced model crop genome. The method used is based on earlier studies reporting the assessment of conserved intron scanning primers (called CISP) within relatively conserved exons located near exon-intron boundaries from onion, banana, sorghum and pearl millet alignments with rice. The tool is freely available to academic users at http://www.icrisat.org/gt-bt/CISPTool.htm.
完整的、注释的基因组序列信息在模式生物中的可用性是一个丰富的资源，可以通过比较基因组学方法扩展到研究较少的孤儿作物。我们在这里报告了一个软件工具（cisprimertool），用于使用表达序列标签比对到一个完全测序的模式作物基因组来识别保守的内含子扫描区。所使用的方法是基于早期的研究报告，即在洋葱、香蕉、高粱和珍珠粟与水稻的比对中，评估相对保守的外显子附近的内含子扫描引物（称为 CISP）的保守性。该工具可供学术用户免费使用，网址为 http://www.icrisat.org/gt-bt/CISPTool.htm。
