Index: lib/Frontend/DependencyFile.cpp
===================================================================
--- lib/Frontend/DependencyFile.cpp
+++ lib/Frontend/DependencyFile.cpp
@@ -163,6 +163,7 @@
   bool SeenMissingHeader;
   bool IncludeModuleFiles;
   DependencyOutputFormat OutputFormat;
+  unsigned InputFileIndex;
 
 private:
   bool FileMatchesDepCriteria(const char *Filename,
@@ -177,9 +178,11 @@
       AddMissingHeaderDeps(Opts.AddMissingHeaderDeps),
       SeenMissingHeader(false),
       IncludeModuleFiles(Opts.IncludeModuleFiles),
-      OutputFormat(Opts.OutputFormat) {
+      OutputFormat(Opts.OutputFormat),
+      InputFileIndex(0) {
     for (const auto &ExtraDep : Opts.ExtraDeps) {
-      AddFilename(ExtraDep);
+      if (AddFilename(ExtraDep))
+        ++InputFileIndex;
     }
   }
 
@@ -201,7 +204,7 @@
     OutputDependencyFile();
   }
 
-  void AddFilename(StringRef Filename);
+  bool AddFilename(StringRef Filename);
   bool includeSystemHeaders() const { return IncludeSystemHeaders; }
   bool includeModuleFiles() const { return IncludeModuleFiles; }
 };
@@ -325,9 +328,12 @@
   }
 }
 
-void DFGImpl::AddFilename(StringRef Filename) {
-  if (FilesSet.insert(Filename).second)
+bool DFGImpl::AddFilename(StringRef Filename) {
+  if (FilesSet.insert(Filename).second) {
     Files.push_back(Filename);
+    return true;
+  }
+  return false;
 }
 
 /// Print the filename, with escaping or quoting that accommodates the three
@@ -463,8 +469,10 @@
 
   // Create phony targets if requested.
   if (PhonyTarget && !Files.empty()) {
-    // Skip the first entry, this is always the input file itself.
-    for (auto I = Files.begin() + 1, E = Files.end(); I != E; ++I) {
+    unsigned Index = 0;
+    for (auto I = Files.begin(), E = Files.end(); I != E; ++I) {
+      if (Index++ == InputFileIndex)
+        continue;
       OS << '\n';
       PrintFilename(OS, *I, OutputFormat);
       OS << ":\n";
Index: test/Frontend/dependency-gen-extradeps-phony.c
===================================================================
--- test/Frontend/dependency-gen-extradeps-phony.c
+++ test/Frontend/dependency-gen-extradeps-phony.c
@@ -0,0 +1,10 @@
+// RUN: %clang -MM -MP -Xclang -fdepfile-entry=1.extra -Xclang -fdepfile-entry=2.extra -Xclang -fdepfile-entry=2.extra %s | \
+// RUN: FileCheck %s --implicit-check-not=.c:
+//
+// Verify that phony targets are only created for the extra dependency files,
+// and not the input file.
+
+// CHECK: dependency-gen-extradeps-phony.o: 1.extra 2.extra \
+// CHECK-NEXT: dependency-gen-extradeps-phony.c
+// CHECK: 1.extra:
+// CHECK: 2.extra: