A substrate for surface-enhanced Raman spectroscopy comprising: a polymer substrate of which protuberant structures having an upper protruded curved surface are formed by dry etching the surface of the polymer substrate to be spaced-apart on a first surface; metal-containing nanoparticles formed on the protuberant structures in a spherical or oval shape, wherein the metal-containing nanoparticles have an average particle size of 10 nm to 300 nm; and a metal-containing thin layer formed on a part or the entire part of the first surface of the polymer substrate where the protuberant structures are not formed, wherein the metal-containing nanoparticles and the metal-containing thin layer are formed by a vapor deposition with a metal-containing Raman active material on the first surface at the same time, wherein the metal-containing Raman active material is first deposited uniformly on the first surface and on the protuberant structures but intensively on the protuberant structures as the deposition is progressed, wherein the amount of the metal which reaches to the first surface is reduced compared to the amount of metal on the protuberant structures, wherein a horizontal maximum width W1 of the metal-containing nanoparticles which are formed vertically to the polymer substrate is equal to or greater than a horizontal maximum width W2 of the protuberant structures which are formed vertically to the polymer substrate, and less than the shortest distance W3 between centers of the protuberant structures, and wherein the metal-containing nanoparticles form nanogaps with adjacent metal-containing nanoparticles and an adjacent metal-containing thin layer, and the nanogaps are formed in a range of 1 to 10 nm. a polymer substrate of which protuberant structures having an upper protruded curved surface are formed by dry etching the surface of the polymer substrate to be spaced-apart on a first surface; metal-containing nanoparticles formed on the protuberant structures in a spherical or oval shape, wherein the metal-containing nanoparticles have an average particle size of 10 nm to 300 nm; and a metal-containing thin layer formed on a part or the entire part of the first surface of the polymer substrate where the protuberant structures are not formed, wherein the metal-containing nanoparticles and the metal-containing thin layer are formed by a vapor deposition with a metal-containing Raman active material on the first surface at the same time, wherein the metal-containing Raman active material is first deposited uniformly on the first surface and on the protuberant structures but intensively on the protuberant structures as the deposition is progressed, wherein the amount of the metal which reaches to the first surface is reduced compared to the amount of metal on the protuberant structures, wherein a horizontal maximum width W1 of the metal-containing nanoparticles which are formed vertically to the polymer substrate is equal to or greater than a horizontal maximum width W2 of the protuberant structures which are formed vertically to the polymer substrate, and less than the shortest distance W3 between centers of the protuberant structures, and wherein the metal-containing nanoparticles form nanogaps with adjacent metal-containing nanoparticles and an adjacent metal-containing thin layer, and the nanogaps are formed in a range of 1 to 10 nm.