diff --git a/spyder/plugins/updatemanager/widgets/update.py b/spyder/plugins/updatemanager/widgets/update.py
index dd60a762891..ffaca78de69 100644
--- a/spyder/plugins/updatemanager/widgets/update.py
+++ b/spyder/plugins/updatemanager/widgets/update.py
@@ -51,7 +51,10 @@
 
 SKIP_CHECK_UPDATE = (
     sys.executable.startswith(('/usr/bin/', '/usr/local/bin/'))
-    or osp.exists(osp.join(get_path('stdlib'), 'EXTERNALLY-MANAGED'))
+    or (
+        not is_anaconda()
+        and osp.exists(osp.join(get_path('stdlib'), 'EXTERNALLY-MANAGED'))
+    )
 )