It is possible for genes to have more than one cleavage and polyadenylation site. Alternative polyadenylation is a prevalent mechanism within eukaryotic cells that results in the generation of multiple mRNA isoforms that differ in the length of their 3’UTR. This can lead to changes in mRNA stability, translation efficiency and localisation without altering the coding region. The machinery involved in cleavage and polyadenylation is highly conserved from yeast to mammals yet the method of cleavage site selection is relatively unknown. Investigation into 3’ end processing factors in Saccharomyces cerevisiae indicates that defects in the Pcf11 subunit of cleavage factor IA causes a general increase in the use of the more distal cleavage site and thus the synthesis of mRNA isoforms with longer 3’UTRs. A similar shift in cleavage site usage is seen for yeast cells treated with the adenosine analogue cordycepin. Both Pcf11 mutants and cordycepin treatment were utilised to induce alternative polyadenylation and to observe any 3’UTR length biases by the translational machinery. Use of the sucrose density fractionation method to separate free mRNA from transcripts bound to monosomes and polysomes indicated that patterns of isoform preference by ribosomes vary under different conditions including yeast strain and temperature. Furthermore, ribosome bias was different between genes suggesting that patterns of translational control by 3’UTR isoforms are gene specific.