title: cisprimertool: software to implement a comparative genomics strategy for the development of conserved intron scanning (CIS) markers.
abstract: 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.
authors.affiliation: Bioinformatics Unit, ICRISAT, Patancheru, Andhra Pradesh 502324, India, GTL-Biotechnology, ICRISAT, Patancheru, Andhra Pradesh 502324, India.
authors.forename: B
authors.initials: B
authors.lastname: Jayashree
authors.forename: V T
authors.initials: VT
authors.lastname: Jagadeesh
authors.forename: D
authors.initials: D
authors.lastname: Hoisington