diff --git a/be/src/common/config.cpp b/be/src/common/config.cpp
index bc8b13b8a5a9ae..eb6450539fe743 100644
--- a/be/src/common/config.cpp
+++ b/be/src/common/config.cpp
@@ -1455,6 +1455,8 @@ DEFINE_mBool(enable_prune_delete_sign_when_base_compaction, "true");
 
 DEFINE_mBool(enable_mow_verbose_log, "false");
 
+DEFINE_mBool(skip_version_col_when_calc_check_sum, "false");
+
 // clang-format off
 #ifdef BE_TEST
 // test s3
diff --git a/be/src/common/config.h b/be/src/common/config.h
index 8105e9fc48c7d6..6b1690d7f9f3af 100644
--- a/be/src/common/config.h
+++ b/be/src/common/config.h
@@ -1530,6 +1530,8 @@ DECLARE_mBool(enable_prune_delete_sign_when_base_compaction);
 
 DECLARE_mBool(enable_mow_verbose_log);
 
+DECLARE_mBool(skip_version_col_when_calc_check_sum);
+
 #ifdef BE_TEST
 // test s3
 DECLARE_String(test_s3_resource);
diff --git a/be/src/olap/merger.cpp b/be/src/olap/merger.cpp
index 8c20d542c962d0..5dd869cea3da28 100644
--- a/be/src/olap/merger.cpp
+++ b/be/src/olap/merger.cpp
@@ -52,6 +52,7 @@
 #include "olap/tablet_reader.h"
 #include "olap/utils.h"
 #include "util/slice.h"
+#include "vec/columns/columns_number.h"
 #include "vec/core/block.h"
 #include "vec/olap/block_reader.h"
 #include "vec/olap/vertical_block_reader.h"
@@ -120,6 +121,25 @@ Status Merger::vmerge_rowsets(BaseTabletSPtr tablet, ReaderType reader_type,
         RETURN_NOT_OK_STATUS_WITH_WARN(reader.next_block_with_aggregation(&block, &eof),
                                        "failed to read next block when merging rowsets of tablet " +
                                                std::to_string(tablet->tablet_id()));
+#ifndef NDEBUG
+        if (auto* version_col = block.try_get_by_name(VERSION_COL); version_col != nullptr) {
+            auto* col = assert_cast<vectorized::ColumnInt64*>(
+                    version_col->column->assume_mutable().get());
+            int64_t max_version = tablet->max_version_unlocked();
+            for (auto val : col->get_data()) {
+                if (val > max_version) {
+                    auto msg = fmt::format(
+                            "[Merger::vmerge_rowsets] tablet={}, tablet's max_version={}, but "
+                            "found value={} in __DORIS_VERSION_COL__ when merge rowsets for "
+                            "version={}, reader_type={}",
+                            tablet->tablet_id(), max_version, val,
+                            reader_params.version.to_string(), reader_type);
+                    LOG_WARNING(msg);
+                    DCHECK(false) << msg;
+                }
+            }
+        }
+#endif
         RETURN_NOT_OK_STATUS_WITH_WARN(dst_rowset_writer->add_block(&block),
                                        "failed to write block when merging rowsets of tablet " +
                                                std::to_string(tablet->tablet_id()));
@@ -295,6 +315,25 @@ Status Merger::vertical_compact_one_group(
         RETURN_NOT_OK_STATUS_WITH_WARN(reader.next_block_with_aggregation(&block, &eof),
                                        "failed to read next block when merging rowsets of tablet " +
                                                std::to_string(tablet->tablet_id()));
+#ifndef NDEBUG
+        if (auto* version_col = block.try_get_by_name(VERSION_COL); version_col != nullptr) {
+            auto* col = assert_cast<vectorized::ColumnInt64*>(
+                    version_col->column->assume_mutable().get());
+            int64_t max_version = tablet->max_version_unlocked();
+            for (auto val : col->get_data()) {
+                if (val > max_version) {
+                    auto msg = fmt::format(
+                            "[Merger::vertical_compact_one_group] tablet={}, tablet's "
+                            "max_version={}, but found value={} in __DORIS_VERSION_COL__ when "
+                            "merge rowsets for version={}, reader_type={}",
+                            tablet->tablet_id(), max_version, val,
+                            reader_params.version.to_string(), reader_type);
+                    LOG_WARNING(msg);
+                    DCHECK(false) << msg;
+                }
+            }
+        }
+#endif
         RETURN_NOT_OK_STATUS_WITH_WARN(
                 dst_rowset_writer->add_columns(&block, column_group, is_key, max_rows_per_segment,
                                                has_cluster_key),
diff --git a/be/src/vec/core/block.cpp b/be/src/vec/core/block.cpp
index 94e4ee75f36761..28534b8b4184a0 100644
--- a/be/src/vec/core/block.cpp
+++ b/be/src/vec/core/block.cpp
@@ -822,8 +822,12 @@ void Block::shuffle_columns(const std::vector<int>& result_column_ids) {
 }
 
 void Block::update_hash(SipHash& hash) const {
+    bool skip_version_col = config::skip_version_col_when_calc_check_sum;
     for (size_t row_no = 0, num_rows = rows(); row_no < num_rows; ++row_no) {
         for (const auto& col : data) {
+            if (skip_version_col && col.name == VERSION_COL) {
+                continue;
+            }
             col.column->update_hash_with_value(row_no, hash);
         }
     }