This is a list of football teams based in Merseyside sorted by which league they play in as of the 2023–24 season. The leagues are listed in order of their level in the English football league system.^[1]

Everton

Liverpool

Marine

Prescot Cables

Southport

Tranmere Rovers

A.F.C. Liverpool

Lower Breck F.C.

Bootle

Cammell Laird

City of Liverpool

Litherland REMYCA

St Helens Town

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Locations of all the football clubs in Merseyside from levels 1–10.

These Merseyside clubs play in fully professional leagues, comprising levels 1–4 of the English football league system: the Premier League and the Football League. Following the relegation of Tranmere in 2015, Everton and Liverpool became the only two remaining Merseyside teams in professional leagues. Matches between them are known as the Merseyside derby. However, Tranmere Rovers returned to the Football League after three seasons away, thanks to a 2-1 victory in the 2018 National League play-off final against Boreham Wood at Wembley. The 2018/19 season saw them advance through the League Two playoffs, and reach League One. The club were relegated to League Two in the 2019/20 season on a points per game basis due to the COVID-19 pandemic.

These Merseyside clubs play in semi-pro leagues which are at a level in the English football league system that grants eligibility to enter the FA Trophy, comprising levels 5–8 of the system: the National League and the Northern Premier League. Games between Southport, Marine and Bootle are known as Sefton Derby's as they represent the three biggest towns in Sefton; Southport, Bootle and Crosby.

These Merseyside clubs play in semi-pro and amateur leagues which grant eligibility to enter the FA Vase and are high enough in the English football league system to grant eligibility to enter the FA Cup, comprising levels 9–10 of the system. In Merseyside this consists solely of the North West Counties Football League.