Skip to main content
. 2001 Aug;11(8):1441–1452. doi: 10.1101/gr.184001

Table 2.

Characteristics of Rice Microsatellites and Efficiency of SSR Marker Development

Class of microsatellite markers No. primer pairs ordereda Mean no.repeats in SSRb Mean GC% in flanking regionsc Rate of successful amplification Percent of polymorphic SSRs No. mapped markers







GA 130 15.0 44 83.8% 80.7 88
CA 32 12.1 38 71.8% 73.9 17
AT 63 22.3 39 31.7% 80.0 16
GC-rich TNRs 45 7.8 54 64.4% 65.5 18
ATT 23 17.6 36 78.3% 72.2 13
GAA 23 12.7 47 87.0% 80.0 16
CAT and CAA 12 8.8 50 83.3% 70.0 7
Tetranucleotides 42 6.1 41 71.4% 60.0 18
(TA)n(CA)n 12 39.8 39 58.3% 100 7
TOTAL 382 200
a

The number includes 362 primer pairs ordered for BAC-end derived SSRs and 20 markers selected from the fully-sequenced BACs and PACs. 

b

The mean number of repeats was calculated for the sequences selected for the primer design. 

c

The mean GC content in flanking regions was estimated based on a total number of sequences in this class analyzed in this study. 

HHS Vulnerability Disclosure