Position embeddings, encoding the positional relationships among tokens in text sequences, make great contributions to modeling local context features in Transformer-based pre-trained language models. However, in Extractive Question Answering, position embeddings trained with instances of varied context lengths may not perform well as we expect. Since the embeddings of rear positions are updated fewer times than the front position embeddings, the rear ones may not be properly trained. In this paper, we propose a simple but effective strategy, Random Padding, without any modifications to architectures of existing pre-trained language models. We adjust the token order of input sequences when fine-tuning, to balance the number of updating times of every position embedding. Experiments show that Random Padding can significantly improve model performance on the instances whose answers are located at rear positions, especially when models are trained on short contexts but evaluated on long contexts. Our code and data will be released for future research.