diff --git a/.teamcity/src/test/kotlin/CIConfigIntegrationTests.kt b/.teamcity/src/test/kotlin/CIConfigIntegrationTests.kt
index f021ec233343..759009df6c62 100644
--- a/.teamcity/src/test/kotlin/CIConfigIntegrationTests.kt
+++ b/.teamcity/src/test/kotlin/CIConfigIntegrationTests.kt
@@ -3,6 +3,7 @@ import common.JvmVersion
 import common.Os
 import common.VersionedSettingsBranch
 import configurations.BaseGradleBuildType
+import configurations.GitHubMergeQueueCheckPass
 import jetbrains.buildServer.configs.kotlin.DslContext
 import jetbrains.buildServer.configs.kotlin.buildSteps.GradleBuildStep
 import jetbrains.buildServer.configs.kotlin.failureConditions.BuildFailureOnText
@@ -41,12 +42,12 @@ class CIConfigIntegrationTests {
     @Test
     fun configurationTreeCanBeGenerated() {
         assertEquals(rootProject.subProjects.size, model.stages.size)
-        assertEquals(rootProject.buildTypes.size, model.stages.size)
+        assertEquals(rootProject.buildTypes.size, model.stages.size + 1) // +1 for the GitHubMergeQueueCheckPass
     }
 
     @Test
     fun configurationsHaveDependencies() {
-        val stagePassConfigs = rootProject.buildTypes
+        val stagePassConfigs = rootProject.buildTypes.filter { it !is GitHubMergeQueueCheckPass }
         assertEquals(model.stages.size, stagePassConfigs.size)
         stagePassConfigs.forEach {
             val stageNumber = stagePassConfigs.indexOf(it) + 1