Putative Simple Sequence Repeats (SSRs) in the Rice Genome Pseudomolecules
The Rice Genome Annotation Project pseudomolecules (Release 7) were scanned with the Simple Sequence Repeat Identification Tool* to identify putative perfect mono-, di-, tri-, tetra-, penta-, and hexanucleotide simple sequence repeats. The minimum sizes for the putative SSRs are: 20 repeats for mononucleotides, 9 repeats for dinucleotides, 6 repeats for trinucleotides, 5 repeats for tetranucleotides, 4 repeats for pentanucleotides, and 3 repeats for hexanucleotides.
This page allows the display of the putative SSRs filtered by type and/or chromosome. If you are interested in finding the locations where a repeated motif is found, the bottom form can be used to conduct a search by motif.
*Temnykh S, DeClerck G, Lukashova A, Lipovich L, Cartinhour S, McCouch S. (2001) Computational and experimental analysis of microsatellites in rice (Oryza sativa L. ): frequency, length variation, transposon associations, and genetic marker potential. Genome Research, 2001, 11, pp.1441-1452
|This work is supported by grants (DBI-0321538/DBI-0834043) from the National Science Foundation.|