Relations between the Football Association and world football’s governing body have hit a new low after Sepp Blatter took aim at David Gill over his resignation as a Fifa vice-president.

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Blatter’s barbed comments came as Gill boycotted Saturday’s executive committee meeting and promised to quit in protest at Blatter’s re-election.

“You can’t take responsibility when you are elected and don’t come to the first meeting. This is no responsibility,” said Blatter of Gill’s decision. “If you are elected you have to come, whoever is the president.”

Following the first executive committee meeting of his fifth term in office, Blatter also condemned a “hate” campaign by Uefa, which had opposed his re-election and backed his rival, Prince Ali bin al-Hussein.

Blatter, who triumphed despite the corruption scandal engulfing Fifa, had hinted he may try to punish Uefa by forcing the removal of one of its World Cup places. But he backed down from that and confirmed the current arrangements would remain in place for 2018 and 2022, disappointing confederations that had hoped for more in return for backing him.

However, Blatter did call on Uefa to play a bigger part in governing the sport, playing a familiar game by blaming the European confederation for the slow pace of reform. He also hinted that European club football would suffer if Uefa broke away from Fifa, pointing to the one-way traffic in player transfers from other confederations. “Uefa is the biggest one, Uefa is the richest one, you have the best competition, you have the best players,” he said. “But when you come to clubs, if you don’t have players from the other continent, then they will not be so rich or so good.”

Uefa will now convene in Berlin before the Champions League final to decide its next move. While the nuclear option of boycotting the World Cup appears unlikely – not least because Russia, Spain and France backed Blatter – it could choose to remove cooperation from Fifa.

Another intriguing possibility is an alliance with Conmebol, the South American confederation, which provided opposition to Blatter at Friday’s vote. Argentina, Chile and Uruguay are believed to have voted for Ali, along with at least 45 European member associations.

Gill, the former Manchester United chief executive who sits on the Uefa executive committee, refused to turn up for the first meeting of Blatter’s fifth term and will resign as soon as is practicable.

“This action is not something I take lightly but the terribly damaging events of the last three days have convinced me it is not appropriate to be a member of the Fifa executive committee under the current leadership,” said Gill, who sits on the FA board. “My professional reputation is critical to me and I simply do not see how there will be change for the good of world football while Mr Blatter remains in post.”

Gill was previously persuaded by Uefa’s president, Michel Platini, and the FA chairman, Greg Dyke, to take up the Fifa vice-presidency, which was left vacant when Northern Ireland’s Jim Boyce stepped down following a four-year term. Uefa will decide how to fill the seat vacated by Gill, with the Welsh FA president, Trefor Lloyd Hughes, one option having missed out to Gill in a vote in March. Longer term, Blatter may try to use Gill’s insurrection to strip the home nations of their place on the Fifa executive committee. The guaranteed spot had already been converted into a Uefa position, with Platini promising to honour the convention that it would remain among the home nations. The selection of Gill provoked a bitter row, with the Welsh believing it was their turn.

Dyke said he did not believe this week’s events could harm the FA’s relations with Fifa much further, given their already low stock. Instead, it will concentrate on playing an active part in Uefa and pushing for change.“We were disappointed he won, but it wasn’t surprising. What was surprising was that a third of the delegates voted against him, including most of the delegates from Europe and almost all the delegates from Latin America,” said Dyke. “The two big footballing continents voted against Blatter and I’d put money today that he won’t be there in four years time.”

Dyke has been vocal in his criticism of Blatter throughout his tenure and has vowed never to bid for Fifa competitions while he remains in charge.

“The events of this week have changed the whole game. I don’t think he’ll be there in four years time, I don’t think his position is sustainable,” he said.

“A third of the delegates were prepared to stand up and say ‘we don’t want you’. Given the patronage he has, that’s a big deal.”

Blatter secured 133 votes to Prince Ali’s 73 in Friday’s vote, which came in the wake of a tumultuous week in which seven senior Fifa executives were arrested in dawn raids and at total of 18 officials charged in the US with offences including racketeering, money laundering and tax evasion.

Gill’s absence took the total number of spare seats around Fifa’s boardroom table to four. The Concacaf president, Jeffrey Webb, and the Costa Rican Eduardo Li remained in custody having been seized on Wednesday. The Brazilian FA chief, Marco Polo Del Nero, fled Zurich on Thursday following the arrest of his predecessor, José Maria Marin.