Water soluble carbohydrates (WSC) in stems play an important role in buffering grain yield in wheat against biotic and abiotic stresses; however, knowledge of genes controlling WSC is very limited. During vegetative growth phase plant accumulate water soluble carbohydrate which plays important role in full filling the demand of the developing grains through mobilization of water soluble carbohydrate. A germplasm population of 191 bread wheat (Triticum aestivum L.) genotypes including advance breeding lines, local cultivars and land races were used. We conducted a genome-wide association study (GWAS) using a high-density 90K SNP array to better understand the genetic basis underlying plant traits especially WSC, and to explore marker-based breeding approaches. In our study the analysis of variance showed a significant variation among the wheat genotypes for assessed traits. We identified a total of 77 markers traits associations (MTAs) (P≤0.0005) for the following plant traits; days taken to 50% heading(DTH), days taken to 50% maturity (DTM), plant height cm (PH), flag leaf area cm2 (FLA), tillers number per plant (NT), peduncle length cm (PL), stem weight at 14 days post anthesis g (SW14DPA), stem weight at maturity g (SWm), stem water soluble carbohydrate  at 14 days post anthesis (SWC14DPA), stem water soluble carbohydrate at maturity (SWCm), apparent remobilization of WSC (ARWSC), thousand kernel weight g (TKW) and grain yield per plant g (GY). Most of the SNPs were identified in the A and B genome as compared to the D genome. The significant associated SNPs were mainly distributed on the chromosome 3A, 2B, 3B and 5B. For stem reserve mobilization the SNP BobWhite-c15582-253 was found on chromosome 3A, accounting for 26.7% of the phenotypic variance. Five SNPs on chromosome 2A, 3A and 5A were identified having pleiotropic effects. The loci and significant SNP markers identified in the present study can be used for pyramiding favorable alleles in developing high-yielding varieties.