You will need to create a new predefined task in the Startup → Tasks menu in ConEmu settings.
Press the "+" button and name it whatever you want, in the screenshot below I named it VSCommandLine.
You will need to add the following commands in the command window:
* > cmd.exe /k ""%VS140COMNTOOLS%VsDevCmd.bat" & powershell" -new_console:d:C:\SourceCode\MyStartupDirectory

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