Aim. Our aim is to analyse the variance of the Inter-Galactic Medium transmission (IGM) by studying this parameter in the rest-frame UV spectra of a large sample of high redshift galaxies. Method. We make use of the VIMOS Ultra Deep Survey and the VANDELS public survey to have an insight into the far UV spectrum of $2.7<z<6$ galaxies. Using the SPARTAN fitting software, we estimate the IGM towards individual galaxies and then divide them in two sub-samples characterized by a transmission above or below the theoretical prescription. We create average spectra of combined VUDS and VANDELS data for each set of galaxies in seven redshift bins. Results. The resulting spectra clearly exhibit the variance of the IGM transmission that can be seen directly from high redshift galaxy observations. Computing the optical depth based on the IGM transmission, we find an excellent agreement with QSOs results. In addition, our measurements seem to suggest that there is a large dispersion of redshift where complete Gunn-Peterson Trough happens, depending on the line of sight.