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SELECT 
  a.variant_id, 
  a.option_id, 
  a.position, 
  a.modifier, 
  a.modifier_type, 
  a.weight_modifier, 
  a.weight_modifier_type, 
  a.point_modifier, 
  a.point_modifier_type, 
  b.variant_name, 
  IF(
    shared_option_variants.variant_id IS NOT NULL, 
    shared_option_variants.modifier, 
    a.modifier
  ) as modifier, 
  IF(
    shared_option_variants.variant_id IS NOT NULL, 
    shared_option_variants.modifier_type, 
    a.modifier_type
  ) as modifier_type 
FROM 
  cscart_product_option_variants as a 
  LEFT JOIN cscart_product_option_variants_descriptions as b ON a.variant_id = b.variant_id 
  AND b.lang_code = 'ja' 
  LEFT JOIN cscart_ult_product_option_variants shared_option_variants ON shared_option_variants.variant_id = a.variant_id 
  AND shared_option_variants.company_id = 1 
WHERE 
  a.option_id IN (
    1961, 1983, 2005, 2544, 2599, 2654, 2570, 
    2625, 2680, 1970, 1992, 2014, 1969, 
    1991, 2013, 2579, 2634, 2689, 330, 248, 
    334, 335, 2558, 2613, 2668, 1966, 1988, 
    2010, 209, 345, 403, 461, 208, 344, 402, 
    460, 2577, 2632, 2687
  ) 
  AND a.status = 'A' 
ORDER BY 
  a.position, 
  a.variant_id

Query time 0.00168

JSON explain

{
  "query_block": {
    "select_id": 1,
    "cost_info": {
      "query_cost": "176.81"
    },
    "ordering_operation": {
      "using_filesort": true,
      "cost_info": {
        "sort_cost": "53.00"
      },
      "nested_loop": [
        {
          "table": {
            "table_name": "shared_option_variants",
            "access_type": "system",
            "possible_keys": [
              "PRIMARY",
              "company_id"
            ],
            "rows_examined_per_scan": 0,
            "rows_produced_per_join": 1,
            "filtered": "0.00",
            "const_row_not_found": true,
            "cost_info": {
              "read_cost": "0.00",
              "eval_cost": "0.20",
              "prefix_cost": "0.00",
              "data_read_per_join": "24"
            },
            "used_columns": [
              "variant_id",
              "company_id",
              "modifier",
              "modifier_type"
            ]
          }
        },
        {
          "table": {
            "table_name": "a",
            "access_type": "range",
            "possible_keys": [
              "status",
              "option_id",
              "option_id_2"
            ],
            "key": "option_id",
            "used_key_parts": [
              "option_id",
              "status"
            ],
            "key_length": "6",
            "rows_examined_per_scan": 53,
            "rows_produced_per_join": 53,
            "filtered": "100.00",
            "index_condition": "((`eshopuga_upgr_4122`.`a`.`option_id` in (1961,1983,2005,2544,2599,2654,2570,2625,2680,1970,1992,2014,1969,1991,2013,2579,2634,2689,330,248,334,335,2558,2613,2668,1966,1988,2010,209,345,403,461,208,344,402,460,2577,2632,2687)) and (`eshopuga_upgr_4122`.`a`.`status` = 'A'))",
            "cost_info": {
              "read_cost": "102.61",
              "eval_cost": "10.60",
              "prefix_cost": "113.21",
              "data_read_per_join": "2K"
            },
            "used_columns": [
              "variant_id",
              "option_id",
              "position",
              "modifier",
              "modifier_type",
              "weight_modifier",
              "weight_modifier_type",
              "point_modifier",
              "point_modifier_type",
              "status"
            ]
          }
        },
        {
          "table": {
            "table_name": "b",
            "access_type": "eq_ref",
            "possible_keys": [
              "PRIMARY"
            ],
            "key": "PRIMARY",
            "used_key_parts": [
              "variant_id",
              "lang_code"
            ],
            "key_length": "9",
            "ref": [
              "eshopuga_upgr_4122.a.variant_id",
              "const"
            ],
            "rows_examined_per_scan": 1,
            "rows_produced_per_join": 53,
            "filtered": "100.00",
            "cost_info": {
              "read_cost": "0.00",
              "eval_cost": "10.60",
              "prefix_cost": "123.81",
              "data_read_per_join": "40K"
            },
            "used_columns": [
              "variant_id",
              "lang_code",
              "variant_name"
            ]
          }
        }
      ]
    }
  }
}

Result

variant_id	option_id	position	modifier	modifier_type	weight_modifier_type	point_modifier_type
744	330	0	0.000	A	A	A
750	334	0	0.000	A	A	A
766	344	0	0.000	A	A	A
768	345	0	0.000	A	A	A
882	402	0	0.000	A	A	A
884	403	0	0.000	A	A	A
1930	1983	0	0.000	A	A	A
1940	1988	0	0.000	A	A	A
1946	1991	0	0.000	A	A	A
1948	1992	0	0.000	A	A	A
2336	2599	0	0.000	A	A	A
2364	2613	0	0.000	A	A	A
2388	2625	0	0.000	A	A	A
2402	2632	0	0.000	A	A	A
2406	2634	0	0.000	A	A	A
743	330	1	9.000	A	A	A
749	334	1	2.000	A	A	A
765	344	1	9.000	A	A	A
767	345	1	9.000	A	A	A
881	402	1	2.000	A	A	A
883	403	1	2.000	A	A	A
1929	1983	1	2.000	A	A	A
1939	1988	1	2.000	A	A	A
1945	1991	1	2.000	A	A	A
1947	1992	1	2.000	A	A	A
2335	2599	1	2.000	A	A	A
2363	2613	1	2.000	A	A	A
2387	2625	1	2.000	A	A	A
2401	2632	1	2.000	A	A	A
2405	2634	1	2.000	A	A	A