Feng Junyan started his football career playing for Guangzhou F.C.'s youth academy before being promoted to the club's satellite team Xiangxue Pharmaceutical who were allowed to play during the 2002-03 season in the Hong Kong First Division League. Upon his return, the club's manager Mai Chao was impressed by him and on 5 July 2003 Feng was given his league debut against Xiamen Hongshi in a 1-0 defeat. As the season progressed, Feng would start to establish himself as the team's first-choice right winger and on 1 November 2003, he scored his first goal in a 6-1 win against Harbin Lange. The following seasons would see Feng further establish himself within the team until Shen Xiangfu came in as manager in 2007 and preferred Yang Pengfeng on the right wing after Feng lost his place due to injury. He would watch as Guangzhou went on to win the division title and promotion to the Chinese Super League; however, in the following season Shen converted him into a defensive midfielder and Feng enjoyed a productive season that saw Guangzhou quickly adapt to league and finish in a respectable seventh at the end of the 2008 season. At the end of the 2009 season, Feng would go on to establish himself as the club's most capped player when he made 160 league appearances. Unfortunately for Feng, he was not allowed to continue his consistent form within the top tier when it was discovered that the club's general managerYang Xu had fixed a league game on 19 August 2006 against Shanxi Luhu and the club were subsequently punished with relegation for their knowledge of his crimes. Despite this, Feng decided to stay loyal towards the club and played a vital part in the club's revival by immediately winning the second division title at the end of the 2010 season. With the club gaining new owners after the match-fixing scandal, they decided to pump significant investment into the squad and brought in established internationals in Gao Lin, Yang Hao, and Cho Won-hee which saw Feng earn limited playing time as the club went on to win its first top tier league title in 2011 season. On 18 February 2015, Feng announced that he had decided to retire from football.