The present investigation was carried out during 2015 and 2016 seasons on three Egyptian mango cultivars (Mangifera indica L.) named Ewais (normal & nubbin), Sedeq and Zebda grown at a private orchard in Idko region under Beheira governorate conditions. The trees were selected to study normal and nubbin fruits of some mango trees productivity and quantification of expressed gene levels as well as trying to make better understanding of embryo abortion phenomenon in mango. Real-time qPCR was used to detect the relative amounts of mRNA of four different genes. Fruit physical characteristics of  Ewais (nubbin) cultivar, i e fruit length, width and pulp, stone and peel weights, as well as yield were lower significantly than normal fruits, while its pulp/ stone ratio gave the highest values, in both seasons. The chemical characteristics of Ewais (nubbin), i e TSS, TSS/ acidity, reducing sugars, total sugars and pectin methyl esterase were significantly higher than normal fruits, while acidity, vitamin C and peroxidase were the lowest values. Results showed that the four selected ESTs were differentially expressed in the tissues of normal, aborted embryos and leaves, however, the 4 ESTs (MaAGA, MaAP2, MaERF, and MaMADS) were upregulated in normal embryo tissues compared to aborted embryos of "Ewais". Also the expression levels in the leaves tissues were upregulated in Sedeq and Zebda varieties compared to Ewais leaves. The results of total protein (SDS-PAGE) explained that Zebda and Sedeq cultivars, which had normal fruits gave the highest several bands in both embryos and leaves tissues than Ewais cultivar which had nubbin fruits.