The present study was undertaken to evaluate lowland rice genetic variability associated with agro-morphological traits under drought condition. A set of 250 recombinant inbred lines (RILs) from the cross between rice parental cultivarIR64 (sensitive to drought) and ITA112 (tolerant to drought) were used. The experiment was performed at Banfora in Burkina Faso using randomized complete block design with 2 replications. High genetic variability was observed for all studied traits. Moderate to high heritability in broad sense were observed for almost studied traits. Grain yield recorded positive correlation with all traits except day to 80% maturity and number of tillers. Using inclusive composite interval mapping software (ICIM), a total of 7 QTLs were identified for this study distributed on 5 chromosomes (2; 3; 4; 5; 6) and associated with day to 50% heading (QTL50DH), day to 80%maturity (QTL80DM), Biomass (QTLBiom), flag leaf width (QTLFLW), plant height (QTLPH), panicle length (QTLPL) and percentage of fertile spikelet (QTLPFS). The percentage of phenotypic variance (PVE) explained by QTLs ranged from 5.45 to 14.58%. QTL50DH, QTL80DM and QTLBiom were overlapped in same region on chromosome 3, which was in accordance with correlation results among the traits.