Pantoprazole Injection is used as a short term treatment to treat gastro esophageal reflux disease in people who have had damage to their esophagus. It helps heal acid damage to the stomach and esophagus; helps prevent ulcers, and may help prevent cancer of the esophagus. This medication belongs to a class of drugs known as proton pump inhibitors. Pantoprazole Injection, the injection form of this drug is used for a short time when you cannot take the medication by mouth. This is used to treat certain stomach and esophagus problems.