"That comment does not affect me but in reality, it was very disrespectful for many people", he said.
"I was never disrespectful to my colleague. I did it because he scored two goals more against Huddersfield and he got more with the national team", he added.
Pochettino, who has played for and later managed Barcelona's city rivals Espanyol, said on Friday that Guardiola struggles to "be a gentleman" after a victory.
Kane was indeed in stellar form during September, scoring 13 goals for club and country to scoop the Premier League player of the month award.
However, following the worldwide break Tottenham boss Pochettino has returned to the former Catalonia and Spain international's remarks, stating they were disrespectful towards the third-placed Lilywhites.
"It is a team problem and I back Jermain to score a lot of goals for us in the future".
However, they were no match for Kane as the Spurs super-star scored six goals in his four Premier League appearances last month to take his tally to 11 in just 9 games in all competitions.
"It's about Txiki but I think we'd like him to stay", he said.
Plus a little video from the press conference.
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"So I am really disappointed if he said that".
"I'm disrespectful?" he responded, before looking down at his desk and shaking his head.
But despite his frustration with Guardiola's comment, Pochettino admitted it was unlikely to motivate his team throughout the rest of the season.
'Maybe I can answer when someone attacks my team or my club, but never would I be disrespectful about Mauricio or Tottenham.
"What he said was disrespectful to many", the Argentine told a news conference. Never in my career have I not been respectful.
"But it's okay. I spoke many times with Mauricio".
Could there be a budding rivalry between Premier League managers?