Is income tax over and above the short term gains?

Is income tax also paid separately on the left income after deducting the short term capital gains & other charges like SST, etc. Or is it that we only have to pay the STCG, STT, etc & show it during the ITR filing.

Taxation for traders in India is not a simple deal.
Read this Varsity Module on Taxation fully to prepare to file taxes on your own
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In a nutshell Yes you have to pay income tax on left over gains after paying LTCG. There are ways to reduce that liability. Talk to a CA or Tax consultant and he should be able to help.