The Caribbean region is mostly lowland plains extending from the northern reaches of the Colombian Andes to the Caribbean Sea that are characterized by a variety of ecosystems including: humid forests, dry forests, savannas, wetlands and desert. The Sierra Nevada de Santa Marta rise from the plains to snow-capped peaks, separated from the Andes as an isolated area of high biodiversity and endemism. It contains one of the largest marshes in Colombia, the Ciénaga Grande de Santa Marta. The main river is the Magdalena which is fully navigable in the region and a major path for the flow of shipments to and from inland Colombia.

The Andean region, located in central Colombia, is the most populated natural region of Colombia. With many mountains, the Andes contain most of the country’s urban centers. They were also the location of the most significant pre-Columbian indigenous settlements. Beyond the Colombian Massif in the south-western departments of Cauca and Nariño, the Colombian Andes divide into three branches known as «cordilleras» (from the Spanish for mountain range): the West Andes run adjacent to the Pacific coast and is home to the city of Cali. The Central Andes run up the center of the country between the Cauca and Magdalena river valleys (to the west and east respectively) and includes the cities of Medellín, Manizales and Pereira. The East Andes extend northeast towards the Guajira Peninsula, and includes the cities of Bogotá, Bucaramanga and Cúcuta.

The Pacific/Chocó region is one of the five major natural regions of Colombia. Ecologically, this region belongs entirely to the Chocó Biogeographic Region and is considered a biodiversity hotspot. It also has areas with the highest rainfall in the world, with areas near Quibdo, Chocó reaching up to 13,000 mm (510 in) annually. This region has the distinction of being one of the most biodiverse areas on the planet.

The Orinoco region is one of the natural regions of Colombia that belongs to the Orinoco River watershed. It is also known colloquially as the Eastern Plains from the Spanish Llanos Orientales.

The ecosystems of the region are tropical savanna with gallery forests and wetlands along the rivers.

Amazonía region in southern Colombia comprises the departments of Amazonas, Caquetá, Guainía, Guaviare, Putumayo and Vaupés, and covers an area of 483,000 km², 35% of Colombia’s total territory. The region is mostly covered by tropical rainforest, or jungle, which is a part of the greater Amazon rainforest.

The tropical rainforest classified more specifically as a tropical moist broadleaf forest.