The unique thermal properties of carbon nanotubes (CNT) are utilized to increase the use of functionally graded material (FGM) at higher temperatures which resulted in introduction of a new type of material called as functionally graded carbon nanotube-reinforced composites (FG-CNTRCs). To use the FG-CNTRCs at elevated temperatures, their thermal analysis is very important. In this context, this article presents the thermal analysis of a CNT based FG Timoshenko beam. Material properties distribution is assumed to vary along the thickness direction according to power law distribution and linear distributions. Finite difference method is implemented to find out the temperature distribution. Using first order shear deformation theory (FSDT), expressions for strains and stresses are obtained. The results are compared with temperature distribution according to power law. The effect of CNT distribution on strains and stresses is also observed. Based on these results important conclusions have been drawn.