The study was conducted to assess the chilling effect on germination, hypocotyl and root length of two cotton cultivars. Hundred seeds of each Gossypium arboreum A2 genome (G1) and Gossypium hirsutum AD-1 (G2) were chilled at 0 °C for 0, 24, 48, 72 and 96 h and then placed in incubator at 32°C. Germination percentage significantly decreased with the increasing chilling period. However, the effect was pronounced on G1 than G2. The highest hypocotyl length after 96 h of chilling treatment was 64 mm for G1 and 91 mm for G2, under 48 h of chilling treatment. Root lengths of both varieties were maximum under the treatment of 24 h of chilling after 96 h. On the basis of germination percentage, hypocotyl and root length, it may be inferred that G2 was more cold tolerant variety than G1.