【Objective】The objectives of this study were to deeply dissect the genetic basis of soybean flowering and maturity time and identify important genomic regions that can be used for molecular marker-assisted selection (MAS) and novel gene cloning. 【Method】224 soybeans with dominant E1 allele were planted in four environments to investigate phenotypic data. Six multi-locus association analysis models from the R-mrMLM software package were employed for genome-wide association analysis (GWAS) on soybean flowering and maturity time. 【Result】 A total of 91 flowering and 83 maturity time QTNs (quantitative trait nucleotides) were detected by combining six multi-loci GWAS methods. Among them,6 flowering and 10 maturity time QTNs can be detected in various environments. These stable QTNs were distributed in 15 haplotype blocks (genomic regions) with an interval size of 90-490 Kb. Six out of 15 important genomic regions were newly detected in this study. 【Conclusion】The results indicate that the QTN composition of soybean flowering and maturation time under the dominant E1 gene background is complex. The 15 genomic regionss, such as 39.52~40.01 Mb on chromosome 5, were the important loci controlling soybean flowering or maturation time in this population.