This study was carried out on the genetic analysis of seed yield and its contributing characters in F2 population of soybean genotypes, Glycine max (l). Merrill genotypes using morphological and SNP markers. The aim of this study is to determine the extent of genetic variability for seed yield and its contributing characters among the F2 population of soybean genotypes and to determine quantitative trait loci (QTL) associated with seed yield in the soybean genotypes with a view of being utilized in soybean breeding programme. The field experiment was laid out in a randomized complete block design (RCBD) with three replications. Heritability in the broad sense ranged from 40.00% to 99.97% for number of seeds and number of pods respectively. The genetic advance mean ranged between 10.03 and 130.17 for days to maturity and seed yield respectively. Nine QTLs were identified (3 QTLs for days to flowering (DTF), 3 QTLs for days to maturity (DTM), 2 QTLs for total pod weight (TPW) and 1 QTL for seed yield (SYP)) and located on the linkage group A1 (chromosome 5). However, two stable QTLs for days to flowering (DTF) and days to maturity (DTM) and two novel QTLs for days to flowering (DTF) and total pod weight (TPW) were identified in the present study.