Is it possible to use VPN for only one Program?

You could install a virtual machine and run the cisco vpn together with your program of choice on the virtual machine while keeping you normal working environment connected normally.

Usually the only thing you can do is configuring a split tunnel based on a policy (e.g. target IP range/mask, see the examples at Cisco). If your program is only communicating with that IP, that would have the same effect for your purpose. However, this must be configured on the VPN-server side by the administrator.

On Windows®, it is possible to use VPN to communicate only with one or few hosts by specifying needed route entries (see "route /?"), but this works on per remote host basis. On linux/freebsd it is possible to start program with non-default routing table, so it does the trick: all applications use default routing table and traffic goes to local network and one specific program uses other routing table and traffic goes throw VPN.