PSMD: Pan-Species Microsatellite Database

Microsatellites (simple repeat sequences, SSRs or short tandem repeats, STRs), are tandem repeats of short DNA motifs with length of 1-6 bp which have extensively been exploited as powerful genetic markers for diversity applications, and are involved in gene regulation as well as implicated in numerous genetic diseases even in cancers. PSMD was developed as a web-based comprehensive database comprising 678,106,741 perfect microsatellites and 43,848,943 compound microsatellites from 18,408 organisms covered almost all species with available genomic data. PSMD enables scientists to easily browse, filter, compare, download SSRs with relevant information.

Statistics

Perfect Microsatellites (SSRs)Compound Microsatellites (CMs)Genic SSRsGenic CMsCoding SSRsCoding CMs
678,106,68143,848,941175,311,6959,765,01887,329,5114,210,890
EukaryotaArchaeaBacteriaVirusesTotal
AnimalsPlantsFungiProtistsOther
1,0743711,5132932163212,0442,46018,408

Related Database

Release

  • Current Version 1.2
  • Last Updated May 16, 2019

News

Version 1.2
May 16, 2019

We have added documentation, added support for exporting plot data and improved download speed.

Version 1.1
May 10, 2019

Download function was added to overview page for exporting statistics; plot display error when no compound microsatellite found was fixed.

Version 1.0
Apr 12, 2019

The first version of PSMD was released and is online now

Contact

  • Lianming Du Chengdu University dulianming@cdu.edu.cn
  • Zhenxin Fan Sichuan University zxfan@scu.edu.cn
  • Bisong Yue Sichuan University bsyue@scu.edu.cn