In this paper, we investigate the effects of noncommutative phase-space on the quintom cosmological model. In that case, we discuss about some cosmological parameters and show that they depend on the deformation parameters.We find that the noncommutative parameter plays important role which helps to re-arrange the divergency of cosmological constant. We draw time-dependent scale factor and investigate the effect of noncommutative parameters. Finally, we take advantage from noncommutative phase-space and obtain the deformed Lagrangian for the quintom model. In order to discuss some cosmological phenomena as dark energy and inflation, we employ Noether symmetry.