diff --git a/gst/mpegtsmux/gstbasetsmux.c b/gst/mpegtsmux/gstbasetsmux.c
index f96959f99d..e85ac27bd3 100644
--- a/gst/mpegtsmux/gstbasetsmux.c
+++ b/gst/mpegtsmux/gstbasetsmux.c
@@ -685,13 +685,6 @@ gst_base_ts_mux_create_streams (GstBaseTsMux * mux)
       tsmux_set_pmt_interval (ts_pad->prog, mux->pmt_interval);
       g_hash_table_insert (mux->programs,
           GINT_TO_POINTER (ts_pad->prog_id), ts_pad->prog);
-
-      /* Take the first stream of the program for the PCR */
-      GST_DEBUG_OBJECT (ts_pad,
-          "Use stream (pid=%d) from pad as PCR for program (prog_id = %d)",
-          ts_pad->pid, ts_pad->prog_id);
-
-      tsmux_program_set_pcr_stream (ts_pad->prog, ts_pad->stream);
     }
 
     if (ts_pad->stream == NULL) {
@@ -700,6 +693,15 @@ gst_base_ts_mux_create_streams (GstBaseTsMux * mux)
         goto no_stream;
     }
 
+    if (ts_pad->prog->pcr_stream == NULL) {
+      /* Take the first stream of the program for the PCR */
+      GST_DEBUG_OBJECT (ts_pad,
+          "Use stream (pid=%d) from pad as PCR for program (prog_id = %d)",
+          ts_pad->pid, ts_pad->prog_id);
+
+      tsmux_program_set_pcr_stream (ts_pad->prog, ts_pad->stream);
+    }
+
     /* Check for user-specified PCR PID */
     pcr_name = g_strdup_printf ("PCR_%d", ts_pad->prog->pgm_number);
     if (mux->prog_map && gst_structure_has_field (mux->prog_map, pcr_name)) {