UgMicroSatdb -- database for mining microsatellites from unigenes
What you can do:
A web-based relational database of microsatellites present in unigene sequences covering 80 genomes.
Highlights:
- Microsatellites, also known as simple sequence repeats (SSRs) or simple tandem repeats (STRs), have extensively been exploited as molecular markers for diverse applications including genome characterization and mapping.
- UgMicroSatdb allows microsatellite search using multiple parameters like microsatellite type simple (perfect) and compound (perfect and imperfect), repeat unit length (mono- to hexa-nucleotide), repeat number, microsatellite length and repeat sequence class.
- Microsatellites can also be retrieved by specifying EST, cDNA, CDS identity or by using Gene Index, GenBank, UniGene IDs.
- The database also provides information about trinucleotide repeats encoding various amino acids.
- Such codon repeats can be searched by specifying characteristics of coded amino acids like charge (basic, acidic or neutral), polarity (polar or non-polar) and their hydrophobic or hydrophilic nature.
- The nucleotide sequences of the target UniGenes are also provided to facilitate primer designing for PCR amplification of any desired microsatellite.
Keywords:
- microsatellites
- simple sequence repeats
- short tandem repeats
- unigenes
- primer design
- PCR amplification
Literature & Tutorials:
This record last updated: 02-18-2008