Forgot to add CDS prefix for non-trans-spliced cases...

modules/Bio/EnsEMBL/Utils/IO/GFFSerializer.pm

@@ -210,6 +210,8 @@ sub print_feature {
                     my $trans_spliced = $feature->transcript->get_all_Attributes('trans_spliced');
                     if (scalar(@$trans_spliced)) {
                       $value = $so_term . ':' . join('_', $value, $feature->seq_region_name, $feature->seq_region_strand);
+                    } else {
+                      $value = $so_term . ':' . $value;
                     }
                   } else {
                     $value = $so_term . ':' . $value;