The present invention discloses a method for processing uplink signal. In this method, when a random access channel of a cell where a user equipment (UE) locates is within an uplink pilot timeslot, the UE determining whether there is a conflict between the random access channel and time-frequency position of an uplink channel quality sounding pilot of the UE; and if there is a conflict, the uplink channel quality sounding pilot will not be transmitted by the UE within the uplink pilot timeslot. The present invention also discloses a system and apparatus for processing uplink signal. By applying the method, system and apparatus of the present invention, the interference to detection performance of the random access channel caused by the uplink channel quality sounding pilot will be avoided, thereby increasing the detection performance of the random access channel.