We found that in pancreatic cancer, ZEB2-AS1 (P = 0.035, r = -0.160) expression levels were negatively associated with MSI scores, and ZEB2-AS1 (P = 0.013, r = -0.19) and FNDC1-AS1 (P = 0.002, r = -0.24) were also negatively correlated with MATH scores in PaCa, which implied that ZEB2-AS1 might have a role in predicting pancreatic cancer heterogeneity. This evidence concerns the gene FNDC1 and pancreatic neoplasm.