Asian shares ended mostly lower on Thursday, with Japan leading losses as investors were disappointed with the lack of a Trans-Pacific Partnership (TPP) agreement during U.S. President Barack Obama's visit to Tokyo.

"The fact that we haven't got a TPP deal ultimately does impact economic data and new sources of economic growth. We care from a long-term strategic perspective. It's tough to draw conclusions for shorter-term investment decisions but the fact is that investment portfolios at the end of the day are long-term decisions and longer term issues like trade deals do play an impact in that," said Manpreet Gill, senior investment strategist at Standard Chartered Bank.