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Unexplored Japanese Cities: Hidden Gems (Beyond Tokyo and Kyoto)

Hildur Photo
Hilda Jonsdottir
Jul 13, 2023
A bustling scene at Senso-ji Temple in Tokyo, Japan, with a large crowd of visitors walking through the temple grounds. The main hall, with its traditional architecture, stands prominently in the background, partially obscured by smoke from incense burning.

As the sun peeks over the horizon, bathing the land in a soft, golden hue, another day dawns in Japan, the 'Land of the Rising Sun.' Here, tradition entwines with modernity, creating an intricate tapestry of cultures that is both charmingly old-fashioned and starkly futuristic. While the bustling metropolis of Tokyo and the historic beauty of Kyoto often claim the spotlight, the true spirit of Japan lies tucked away in its lesser-known locales, waiting to be discovered.

From the northernmost region of Hokkaido, with its stunning landscapes and fresh seafood, to the southernmost islands of Okinawa, a paradise of white sandy beaches and turquoise waters, Japan’s diversity stretches far and wide. Beyond the cherry-blossom-lined avenues of Kyoto and the neon-lit skyscrapers of Tokyo, a world brimming with undisturbed beauty, culinary delights, and cultural immersion exists.‍

This is an invitation to step off the beaten track and venture into the heart of Japan’s hidden gems. Ready your suitcase, charge your camera, and let your wanderlust guide you as we unearth the treasures that lie beneath the surface of this fascinating country. The journey begins now!

Hakodate, Hokkaido: The Harbor City

Hakodate, the jewel of Hokkaido's southern region, is a city where the romance of the past meets the vibrancy of the present. An intricate blend of east meets west, Hakodate boasts a cultural tapestry that's as diverse as its breathtaking natural beauty.

A wide, gently sloping street lined with trees and buildings leads down to a bay. Boats and ships are docked at the waterfront, and hills with a layer of fog can be seen in the background. The autumn trees add vibrant colors to the scene.
Hakodate

Night View from Mount Hakodate

As the sun dips below the horizon, painting the sky with shades of orange and purple, one of Hakodate's most mesmerizing sights prepares to reveal itself. Mount Hakodate, a 334-meter-high mountain located at the southern end of the city, offers what is often lauded as one of the world's most spectacular night views. The journey to the top via the ropeway is an experience in itself. As you ascend, the city's panorama slowly unfolds, revealing a vista that leaves even the most seasoned travelers awestruck.

From the peak, the view is nothing short of magical. As day turns to night, the city below comes alive with myriad lights, stretching towards the horizon in a spectacular display. The cityscape, flanked by the sea on both sides, is a sight to behold, the twinkling lights resembling a galaxy of stars on the ground.

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View of Hakodate
Half-Day Hakodate Exploration - Guided Tour by Private Taxi

See the city's vista from the peak.

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Morning Markets and Seafood Delights

With the break of dawn, Hakodate stirs to life, its rhythm dictated by the city's vibrant morning markets. The Hakodate Morning Market, or 'Asaichi,' is a buzzing microcosm of the city's culture. Over 250 stalls come alive each morning, their wares ranging from a colorful array of fruits and vegetables to a vast variety of seafood.

A bustling outdoor market with numerous stalls selling various goods, including seafood and produce. Shoppers browse and interact with vendors under a canopy extending from the building. Signage with Asian characters and bright colors is visible above the stalls.
Hakodate Morning Market

Image Credit: Wikimedia

Your culinary adventure begins here, amidst the lively chatter of vendors and the tantalizing aroma of fresh produce. Seafood lovers are in for a treat - feast on sumptuous seafood donburi, a rice bowl topped with the day's freshest catch. Whether it's the rich creaminess of uni (sea urchin) or the salty pop of ikura (salmon roe), your taste buds are in for a gastronomic delight that defines the essence of Hakodate.

Goryokaku Fort: A Star on Earth

History buffs will find their haven at the Goryokaku Fort. The star-shaped citadel is not just an architectural marvel, but also a significant symbol of Japan's journey through history. Built in the late Edo Period, the fort has seen battles that changed the course of Japanese history.

Today, the fort is transformed into a public park that comes alive in a riot of colors during the cherry blossom season. Walking around the fort, with petals gently floating down, you can almost hear the echoes of the past, making history come alive in the most enchanting way.

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Goryokaku Tower
Hakodate Day Tour: Explore with a Local via Public Transport

Walk around the fort with this tour.

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Motomachi: A Cultural Fusion

Motomachi, a district in Hakodate, tells a tale of times when the city was one of the first in Japan to open its doors to foreign influences. A leisurely walk down the streets of Motomachi is like flipping through a beautifully illustrated history book. From the Russian Orthodox Church's onion-shaped domes to the elegant lines of the Old British Consulate, the area offers an intriguing blend of architectural styles. 

A scenic view of a well-maintained park with neatly trimmed hedges and pathways, leading to an ornate yellow building in the background. The building is nestled at the base of a forested hill, under a clear sky.
Motomachi Park Hakodate, Hokkaido

Every corner here whispers stories of a bygone era, a testament to Hakodate's unique history as a port city. Each experience in Hakodate, be it the breathtaking night view from Mount Hakodate, the culinary extravaganza at the morning market, the historic charm of Goryokaku Fort, or the cultural fusion in Motomachi, is a thread in the city's vibrant tapestry, waiting to be explored.

Kanazawa, Ishikawa: The 'Little Kyoto'

Often referred to as 'Little Kyoto,' Kanazawa is a city that still echoes the footsteps of samurai, the whispers of geishas, and the tranquility of some of the most beautiful gardens in Japan. A city where tradition reigns supreme, Kanazawa invites you to step back in time and discover its rich cultural tapestry.

Kenrokuen: The Garden of Six Sublimities

Arguably the heart of Kanazawa's natural beauty is Kenrokuen, one of the Three Great Gardens of Japan. This sprawling landscape garden is a masterpiece that perfectly encapsulates the 'six sublimities' of spaciousness, seclusion, artifice, antiquity, water courses, and panoramas - qualities considered crucial for an ideal garden.

A serene scene featuring a traditional Japanese building on stilts nestled among lush greenery and overhanging trees, with its reflection visible in the calm waters of a pond. A few people are visible in the background, walking along a path that circles the water.
Kenrokuen

From the plum blossom trees that announce the arrival of spring to the snow-draped landscapes of winter, Kenrokuen transforms with every season, each offering a distinct spectacle. As you meander through its tranquil pathways, witness the grace of Kotojitoro Lantern standing by the mirror-like surface of Kasumiga-ike Pond, or find solace under the Karasaki Pine, its branches spreading like poetic calligraphy in the air.

Nagamachi: Reliving the Samurai Era

From the serene embrace of Kenrokuen, step into Nagamachi, where the spirit of the samurai era still lingers. Here, narrow lanes flanked by earthen walls, a labyrinth of water canals, and atmospheric samurai houses transport you back to a bygone era.

Visit the Nomura-ke, a samurai residence that offers a tangible link to Japan's feudal past. This carefully restored residence provides a rare opportunity to glimpse the samurai lifestyle, from their devotion to martial arts to their refined appreciation of culture and aesthetics. Wander through the house, take in the stunning garden views, and imagine the sound of a samurai's footsteps on the nightingale floors.

Higashi Chaya District: Dancing with Geishas

As the day fades into twilight, Kanazawa's geisha district, Higashi Chaya, begins to hum with anticipation. Here, historic teahouses line the streets, their wooden façades exuding an aura of timeless elegance. This is the heart of Kanazawa's traditional entertainment, where geishas have captivated audiences with their refined performances for centuries.

A traditional Japanese street at dusk, lined with wooden buildings with glowing signs. People are walking in the middle of the street, creating a lively yet serene atmosphere. Trees are visible in the background under a twilight sky.
Higashi Chaya

Image Credit: Benh LIEU SONG

At Shima Teahouse, now a museum, you can explore the world of the geishas. As you traverse its tatami rooms, imagine the clink of sake cups, the melodic tunes of the shamisen, and the graceful dance of the geishas. In the soft glow of lantern light, past and present blend, encapsulating the enduring charm of Kanazawa.

Matsue, Shimane: The City of Water

Matsue, often referred to as the 'City of Water,' is a city where waterways are as integral as the streets. Situated between Lake Shinji, Nakaumi lagoon, and the Japan Sea, Matsue is a tranquil city that boasts a rich cultural heritage, historical landmarks, and spiritual sanctuaries.

Matsue Castle: A Standing Legacy

Dominating the cityscape is Matsue Castle, one of the only twelve original castles in Japan that have survived the ravages of time. Completed in 1611, the castle's striking black exterior has earned it the name 'Black Castle' or 'Plover Castle.' The towering keep, flanked by defensive walls and moats, stands as a remarkable testament to the architectural prowess of the Edo period.

A traditional Japanese castle with dark wooden exterior and stone foundation. The multi-tiered structure features several gabled roofs and intricate architectural details. The surrounding area is lush and green with well-manicured bushes and trees.
Matsue Castle

Inside the castle, each floor offers a glimpse into different aspects of samurai life, featuring armor, weapons, and historical documents. Climbing the steep, wooden staircases to the top floor reveals panoramic views of Matsue, a landscape of red-tiled rooftops surrounded by the calm waters of the city's many waterways.

Canal Cruises: A Tranquil Journey

Matsue's canals, once vital trade routes, now offer tranquil journeys through the city's picturesque landscapes. On a traditional Horikawa boat tour, you can glide under low bridges, past historic samurai houses, and around Matsue Castle.‍

As you float along, the guide's narratives fill the air, highlighting local legends and historical anecdotes, making the city's past come alive. This slow-paced cruise gives you a chance to appreciate the city from a unique perspective, framed by the calm waters and punctuated by the rhythmic sound of oars gently breaking the surface.

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Statue of Yoshitsune Minamoto, Dannoura Battlefield
2-day Private Bus Tour: Summary route to Hiroshima via Yamaguchi from Fukuoka

Visit the historic Matsue castle.

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Meimei-an: The Art of Tea

Amidst the city's hustle, you'll find Meimei-an, a traditional teahouse built in 1779 by Lord Fumai, a renowned tea master and the 7th feudal lord of Matsue. Tucked away in a picturesque garden, Meimei-an is a sanctuary of tranquility, embodying the principles of wabi-sabi, a philosophy that embraces the beauty in imperfection and transience.

A traditional Japanese tea house features a thatched roof and an open entrance, surrounded by lush green bushes and trees. The garden path, made of stone, leads to the entrance, adding to the serene and rustic atmosphere. Sunlight filters through the foliage.
Meimei-an

Image Credit: Wikimedia

Participating in a tea ceremony at Meimei-an offers a profound experience of Japanese culture. As you watch the meticulous preparation of matcha and partake in its consumption, you're not merely savoring tea, but also partaking in a ritual that has been preserved across centuries.

Izumo Taisha: Embrace the Spiritual

A short journey from Matsue will bring you to the spiritual heart of the region, Izumo Taisha, one of the oldest and most significant Shinto shrines in Japan. It is believed that every October, according to the lunar calendar, gods from across Japan gather here, making it a hub of spiritual energy.

The shrine's grand torii gate marks the entrance to a realm where divinity and nature intertwine. With the majestic shimenawa (sacred rope) hanging across the front of the main hall, the tallest in Japan, Izumo Taisha resonates with spiritual energy. Exploring the shrine grounds, surrounded by towering old trees, offers a sense of peace and introspection.

Naoshima, Kagawa: The Art Island

Nestled in the Seto Inland Sea, Naoshima is more than just an island. It's a world where nature and modern art harmoniously coexist, where every corner you turn takes you to an artistic discovery. With its innovative museums, eclectic sculptures, and architectural marvels, Naoshima stands as a beacon of creativity, beckoning art enthusiasts from around the globe.

A man and woman sit on a wooden deck overlooking a serene body of water with distant islands. Pine tree branches extend overhead, framing the scene, while a clear blue sky with some clouds adds to the tranquil atmosphere.
Naoshima

A Paradise for Art Lovers

As soon as you step foot on Naoshima, you step into a living art exhibit. The island is home to a plethora of museums and installations, each showcasing a distinct expression of creativity. One such masterpiece is the Benesse House, a combination of a museum and a hotel, where you can immerse yourself in art day and night.

Nearby, the Chichu Art Museum, built mostly underground to preserve the island's natural beauty, features artworks that interact with nature's ever-changing display. Its architecture, artwork, and the surrounding landscape form a harmonious blend, engaging you in a profound aesthetic experience.

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Yellow Pumpkin, Yayoi Kusama, Naoshima
Unlock Naoshima's Secrets: A Guided Art Island Tour

Explore the art galleries of Naoshima.

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Yayoi Kusama and Tadao Ando: A Touch of Genius

The creative genius of world-renowned artist Yayoi Kusama and architect Tadao Ando has left a transformative imprint on Naoshima. Kusama's iconic yellow pumpkin, playfully juxtaposed against the quietude of the Seto Inland Sea, has become a symbol of the island, an unmistakable emblem of Naoshima's artistic spirit.

A group of people stand on a pier beside a large, yellow pumpkin sculpture adorned with black dots. The pier extends into a calm sea, with mountain ranges visible in the distance under a cloudy sky.
Naoshima Island

Ando's influence permeates the island's architecture. His style, which emphasizes the symbiosis between concrete structures and the interplay of light and shadow, resonates throughout Naoshima. His designs, including the Chichu Art Museum, Lee Ufan Museum, and the Ando Museum, subtly blend with the landscape, embodying a philosophy of harmony between nature and built environments.

Nature and Art: An Unconventional Fusion

Naoshima's ethos lies in its integration of art with its natural surroundings. Here, art isn't confined to galleries but freely breathes in the island's forests, beaches, and settlements. This unconventional fusion results in an open-air museum, a place where nature's tranquil beauty serves as a backdrop for human creativity.

The Art House Project takes this concept a step further by transforming abandoned houses and workshops into dynamic art installations. This fusion of traditional architecture, local community, and contemporary art reflects Naoshima's commitment to revitalizing the island through art. It's a remarkable symbiosis that positions art as a focal point of community life and engagement.

Takayama, Gifu: A Stroll Down the Edo Era

If you yearn to experience the serenity of the Edo era, look no further than Takayama. Tucked away in the mountainous region of Gifu Prefecture, this enchanting city effortlessly preserves the charm of a bygone era. From the time-honored architecture of its streets to its vibrant festivals and delectable cuisine, Takayama offers a vivid taste of traditional Japan.

A narrow, empty street in a traditional Japanese town is flanked by old wooden buildings. Snow lightly dusts the rooftops and trees, with mountains visible in the background under a cloudy sky. Decorations and signs hang outside the closed shops lining the street.
Takayama

The Takayama Festival: An Explosion of Culture

The Takayama Festival, renowned as one of Japan's three most beautiful festivals, is an exquisite cultural extravaganza. Held in the spring (Sanno Festival) and fall (Hachiman Festival), this grand event offers a vivid spectacle of Takayama's rich cultural heritage.

The festival's centerpiece is the ornate yatai (floats), each representing different neighborhoods of Takayama. Their elaborate artistry, intricate craftsmanship, and delicate carvings are a testament to the city's long-standing tradition of woodwork. The nighttime parade, known as Yomatsuri, is particularly enchanting, with the floats lit by hundreds of lanterns, casting a magical glow that dances on the old town's streets.

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Nakabashi Bridge
Takayama Old Town Walking Tour with Local Guide

Recommended for Takayama tourists.

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Hida Beef: A Culinary Treat

Foodies will find themselves in paradise in Takayama, thanks to the city's pride: Hida beef. This high-quality wagyu, renowned for its intense marbling, exudes a rich, savory aroma and offers a melt-in-your-mouth texture. It's not just the taste but also the preparation methods passed down generations, that make Hida beef a gastronomic experience to remember.

A plate of assorted raw sliced beef arranged in a circular pattern with a garnish of vegetables in the center, including lettuce, bell peppers, onions, and mushrooms. The plate and its contents are set on a dark wooden table.
Hida Beef

Image Credit: Catherine Mak

Whether it's grilled as a steak, slow-cooked in a succulent stew, or served raw as sushi, Hida beef is celebrated in countless culinary forms. Pairing it with locally brewed sake further enhances the sensory delight, creating a harmonious balance of flavors that reflects Takayama's culinary artistry.

Shirakawa-go: Traditional Living

A short journey from Takayama brings you to the serene village of Shirakawa-go, a UNESCO World Heritage site. This hamlet, with its unique gassho-zukuri farmhouses, is a living museum of rural Japanese life, as it has been preserved for hundreds of years.

These traditional farmhouses, with their steeply pitched thatched roofs designed to withstand heavy snowfall, paint a picturesque scene against the backdrop of surrounding mountains and rivers. Inside, visitors can explore the multi-level structure, used for silk farming in the past, and learn about the communal lifestyle that defined this region.

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Shirakawa-go
Shirakawago (UNESCO world heritage) / Onsen / Hiking Waterfall / 1 day Tour

Visit the breathtaking Shirakawa-go, a UNESCO World Heritage Site.

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Kagoshima, Kyushu: The Naples of the Eastern World

Perched on the southern coast of Kyushu, Kagoshima bears an undeniable charm, reminiscent of Naples, Italy, with its balmy climate, vibrant cityscape, and the commanding presence of an active volcano. Unravel the beauty of this city that is a remarkable fusion of dynamic landscapes, rejuvenating wellness experiences, historical narratives, and a palate-pleasing culinary scene.

A serene landscape featuring a lush green rice field in the foreground, a bustling town with small buildings in the midground, and a range of verdant mountains in the background under a partly cloudy blue sky.
Kagoshima

Sakurajima Volcano: A Majestic Sight

An iconic landmark, Sakurajima Volcano, is an unmissable sight in Kagoshima. As one of the most active volcanoes in the world, Sakurajima's regular minor eruptions and smoking craters provide a thrilling spectacle for visitors. This mighty volcano is not just a symbol of nature's raw power but a part of Kagoshima's everyday life, with volcanic ash a common sight on the city's streets.‍

From the city, you can enjoy stunning views of the volcano across Kinko Bay, especially beautiful during sunset. To experience Sakurajima up close, take a short ferry ride to the volcano itself and explore the trails leading to observation points for a closer look at this marvel of nature. Witnessing Sakurajima in action is a humbling experience, reminding us of the magnificence of Mother Earth.

Ibusuki Sand Baths: A Unique Spa Experience

For a unique spa experience, venture to the Ibusuki district in the south of Kagoshima, famous for its natural sand baths. This traditional therapy, known as sunamushi, involves being covered in warm, volcanic sand heated by natural hot springs beneath.

A beach with colorful umbrellas and people partially buried in the sand, possibly enjoying a sand bath. There is a small water inlet, concrete barriers in the background, and mountains in the distance under a clear sky.
Ibusuki Sand Baths

Image Credit: Wikimedia

‍The sand baths at Ibusuki are more than just a relaxing experience; they offer potential health benefits, such as enhancing blood circulation, detoxification, and muscle relaxation. Whether you are at a beach or a designated sand bath facility like Saraku Sand Bath Hall, lying buried in the warm sand while listening to the gentle sound of waves is a soothing and rejuvenating experience, deeply rooted in the wellness traditions of Kagoshima.

Senganen Garden: A Historic Retreat

A visit to the historic Senganen Garden provides a tranquil retreat from the city's hustle and bustle. This traditional Japanese garden, designed by the influential Shimadzu clan, skillfully incorporates the surrounding landscape, including the backdrop of Sakurajima, into its layout.‍

A serene Japanese garden featuring a small pavilion with a traditional roof, situated among neatly pruned pine trees and green lawns. In the background, lush, forested hills rise under a clear sky. A small pond is partially visible in the foreground.
Senganen Garden

As you wander through the garden, you'll encounter beautiful elements of a classic Japanese garden, including tranquil ponds, elegant stone lanterns, charming tea houses, and an array of local plants. The Iso Residence, the former dwelling of the Shimadzu family, offers an insightful glimpse into Kagoshima's samurai heritage, further enriching your visit to Senganen.

Conclusion

In the journey through the lesser-known locales of Japan, we uncover a narrative that intricately weaves the threads of traditional heritage, natural splendor, cultural vibrancy, and gastronomical delights. Each city, from the harbor views of Hakodate to the artistry of Naoshima, from the samurai residences of Kanazawa to the intriguing Edo atmosphere of Takayama, and from the water city of Matsue to the volcanic backdrop of Kagoshima, offers a window into an aspect of Japan that's different from the mainstream image yet quintessentially Japanese.

Encapsulating these experiences invites a broader understanding of this fascinating country, beyond the lights of Tokyo and the historical allure of Kyoto. So, let your next journey in Japan be a path less trodden, an adventure through the heartlands, where the spirit of Nippon resides in its purest form. Ignite your wanderlust, for there is a Japan that waits beyond the familiar, eager to narrate tales untold, ready to offer unforgettable experiences. The journey of discovering Japan is endless, as every visit reveals a new facet and every path leads to a unique story.

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