Just to illustrate the concept, you say your target is at knee height and 25 feet away. Let's assume you got that distance using a range finder from a standing shooting position. And also assume the distance from your knees to your eyes when standing is 4 feet. A target 25 feet from you (measured by line of sight) and 4 feet below you is at a -9.2 deg. angle (that's -.1607 radians) -- in real life you likely would just measure this angle directly.
So, if your line of sight distance is 25 feet and your angle is -9.2 deg. then what is the horizontal distance to target? It is 25 ft. * cosine(-9.2 deg.), or 25 * 0.98712 = 24.678 feet. The height of the target relative to your line of sight is 25 ft. * sine(-9.2 deg.), or 25 * -.1600 = -4 feet, which we already knew.
So, while your line of sight tells you that you are shooting at a target 25 feet away, the proper horizontal distance to use for calculating bullet drop during flight is 24.678 feet -- or just about 4 inches less. Clearly, the impact of gravity on bullet flight over 4 inches is trivial and can be ignored. And if it did matter we would need to know the length of your firearm and holding position in order to fine tune the proper answer.
In short, as EC noted, at the distance you are shooting it does not matter.
Even at 250 yards (as opposed to 25 feet), a down angle of 9.2 deg. only results in a distance adjustment down to 246.78 yards. Change that angle to 40 deg. (up or down, it doesn't matter) and then 250 yards line of sight is only 192 yards of horizontal travel.