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SELECT 
  pfv.feature_id, 
  pfv.product_id, 
  pfv.variant_id, 
  gp.group_id 
FROM 
  cscart_product_features_values AS pfv 
  INNER JOIN cscart_product_variation_group_products AS gp ON pfv.product_id = gp.product_id 
  INNER JOIN cscart_product_variation_group_features AS gpf ON gpf.group_id = gp.group_id 
  AND gpf.feature_id = pfv.feature_id 
WHERE 
  pfv.lang_code = 'ja' 
  AND gp.group_id IN (
    54, 49, 25, 51, 19, 50, 55, 48, 35, 13, 32, 
    27
  )

Query time 0.00412

JSON explain

{
  "query_block": {
    "select_id": 1,
    "table": {
      "table_name": "gpf",
      "access_type": "index",
      "possible_keys": ["PRIMARY", "idx_group_id"],
      "key": "PRIMARY",
      "key_length": "6",
      "used_key_parts": ["feature_id", "group_id"],
      "rows": 46,
      "filtered": 100,
      "using_index": true
    },
    "table": {
      "table_name": "pfv",
      "access_type": "ref",
      "possible_keys": [
        "PRIMARY",
        "fl",
        "lang_code",
        "product_id",
        "fpl",
        "idx_product_feature_variant_id"
      ],
      "key": "PRIMARY",
      "key_length": "3",
      "used_key_parts": ["feature_id"],
      "ref": ["cscart_purchase_fl_com.gpf.feature_id"],
      "rows": 3,
      "filtered": 58.7939682,
      "attached_condition": "pfv.lang_code = 'ja'",
      "using_index": true
    },
    "table": {
      "table_name": "gp",
      "access_type": "eq_ref",
      "possible_keys": ["PRIMARY", "idx_group_id"],
      "key": "PRIMARY",
      "key_length": "6",
      "used_key_parts": ["product_id", "group_id"],
      "ref": [
        "cscart_purchase_fl_com.pfv.product_id",
        "cscart_purchase_fl_com.gpf.group_id"
      ],
      "rows": 1,
      "filtered": 100,
      "attached_condition": "gp.group_id in (54,49,25,51,19,50,55,48,35,13,32,27)",
      "using_index": true
    }
  }
}

Result

feature_id	product_id	variant_id	group_id
7	141	18	13
7	158	19	13
7	159	20	13
7	136	18	19
7	179	19	19
7	180	20	19
7	139	18	25
7	191	19	25
7	192	20	25
7	147	18	27
7	195	19	27
7	196	20	27
7	111	18	32
7	211	19	32
7	212	20	32
7	213	18	32
7	214	19	32
7	215	20	32
7	216	18	32
7	217	19	32
7	218	20	32
7	143	18	35
7	226	19	35
7	227	20	35
7	144	18	48
7	275	19	48
7	276	20	48
7	133	18	49
7	277	19	49
7	278	20	49
7	115	18	50
7	279	19	50
7	280	20	50
7	113	18	51
7	281	19	51
7	282	20	51
7	145	18	54
7	287	19	54
7	288	20	54
7	148	18	55
7	289	19	55
7	290	20	55
9	111	29	32
9	211	29	32
9	212	29	32
9	213	34	32
9	214	34	32
9	215	34	32
9	216	36	32
9	217	36	32
9	218	36	32
9	143	38	35
9	226	38	35
9	227	38	35
9	144	30	48
9	275	30	48
9	276	30	48
9	145	37	54
9	287	37	54
9	288	37	54
9	148	32	55
9	289	32	55
9	290	32	55

feature_id	product_id	variant_id	group_id
7	141	18	13
7	158	19	13
7	159	20	13
7	136	18	19
7	179	19	19
7	180	20	19
7	139	18	25
7	191	19	25
7	192	20	25
7	147	18	27
7	195	19	27
7	196	20	27
7	111	18	32
7	211	19	32
7	212	20	32
7	213	18	32
7	214	19	32
7	215	20	32
7	216	18	32
7	217	19	32
7	218	20	32
7	143	18	35
7	226	19	35
7	227	20	35
7	144	18	48
7	275	19	48
7	276	20	48
7	133	18	49
7	277	19	49
7	278	20	49
7	115	18	50
7	279	19	50
7	280	20	50
7	113	18	51
7	281	19	51
7	282	20	51
7	145	18	54
7	287	19	54
7	288	20	54
7	148	18	55
7	289	19	55
7	290	20	55
9	111	29	32
9	211	29	32
9	212	29	32
9	213	34	32
9	214	34	32
9	215	34	32
9	216	36	32
9	217	36	32
9	218	36	32
9	143	38	35
9	226	38	35
9	227	38	35
9	144	30	48
9	275	30	48
9	276	30	48
9	145	37	54
9	287	37	54
9	288	37	54
9	148	32	55
9	289	32	55
9	290	32	55

feature_id	product_id	variant_id	group_id
7	141	18	13
7	158	19	13
7	159	20	13
7	136	18	19
7	179	19	19
7	180	20	19
7	139	18	25
7	191	19	25
7	192	20	25
7	147	18	27
7	195	19	27
7	196	20	27
7	111	18	32
7	211	19	32
7	212	20	32
7	213	18	32
7	214	19	32
7	215	20	32
7	216	18	32
7	217	19	32
7	218	20	32
7	143	18	35
7	226	19	35
7	227	20	35
7	144	18	48
7	275	19	48
7	276	20	48
7	133	18	49
7	277	19	49
7	278	20	49
7	115	18	50
7	279	19	50
7	280	20	50
7	113	18	51
7	281	19	51
7	282	20	51
7	145	18	54
7	287	19	54
7	288	20	54
7	148	18	55
7	289	19	55
7	290	20	55
9	111	29	32
9	211	29	32
9	212	29	32
9	213	34	32
9	214	34	32
9	215	34	32
9	216	36	32
9	217	36	32
9	218	36	32
9	143	38	35
9	226	38	35
9	227	38	35
9	144	30	48
9	275	30	48
9	276	30	48
9	145	37	54
9	287	37	54
9	288	37	54
9	148	32	55
9	289	32	55
9	290	32	55

feature_id	product_id	variant_id	group_id
7	141	18	13
7	158	19	13
7	159	20	13
7	136	18	19
7	179	19	19
7	180	20	19
7	139	18	25
7	191	19	25
7	192	20	25
7	147	18	27
7	195	19	27
7	196	20	27
7	111	18	32
7	211	19	32
7	212	20	32
7	213	18	32
7	214	19	32
7	215	20	32
7	216	18	32
7	217	19	32
7	218	20	32
7	143	18	35
7	226	19	35
7	227	20	35
7	144	18	48
7	275	19	48
7	276	20	48
7	133	18	49
7	277	19	49
7	278	20	49
7	115	18	50
7	279	19	50
7	280	20	50
7	113	18	51
7	281	19	51
7	282	20	51
7	145	18	54
7	287	19	54
7	288	20	54
7	148	18	55
7	289	19	55
7	290	20	55
9	111	29	32
9	211	29	32
9	212	29	32
9	213	34	32
9	214	34	32
9	215	34	32
9	216	36	32
9	217	36	32
9	218	36	32
9	143	38	35
9	226	38	35
9	227	38	35
9	144	30	48
9	275	30	48
9	276	30	48
9	145	37	54
9	287	37	54
9	288	37	54
9	148	32	55
9	289	32	55
9	290	32	55