Dylan Rich, 17, was taken to hospital after collapsing during the match between West Bridgford Colts and Boston United in Nottinghamshire.
The game on Thursday evening at the Regatta Way ground was abandoned and Dylan died on Saturday.
West Bridgford Colts said his death had "left everyone involved with our club devastated and heartbroken".
The club previously confirmed their player was treated with a defibrillator at the ground before paramedics arrived.
A spokesman added: "It is with great sadness that, following the events of Thursday evening, we have to announce the tragic passing of Dylan Rich.
"Our thoughts and prayers go out to his parents Mike and Anna, his sister Lucy and Dylan's family, friends and teammates."
The club also thanked the "wider football community" for their messages over the last few days.
It said it would be supporting players and staff affected by Dylan's death.
Boston United also paid tribute saying it was a "tragic conclusion".
The FA released a statement saying everyone at the organisation was "deeply saddened by the tragic news" of Dylan's death.
"We send our deepest condolences to his family, friends and everybody at the club at this very difficult time.
"We would like to recognise the courageous response of all those who reacted quickly to the situation at the FA Youth Club fixture on Thursday evening and we thank the emergency services for their efforts.
"We ask that the privacy of both his family and the club is respected at this time."
Dozens of football clubs have also been paying tribute to the teenager on Twitter, including Nottingham Forest and Notts County.