Univariate and multivariate COX regression analysis indicated that the three ir-lncRNA pairs were associated with the prognosis of ESCC, and in the high-risk group ADAMTS9-AS2, LINC01121, MGC12916, and MIR124-2HG was up-regulated, FAM167A-AS1 was up-regulated. Here, ENSG00000266709 is linked to esophageal squamous cell carcinoma.