Any application server will have resources shared across multiple threads.

It could be a datasource, a transaction manager.. anything.

On this case this was a synchronization issue. A static resource taking more 
time than expected causing a synchronization issue.

Whenever you have this problem again, use a kill -3, and that will generate a 
thread dump. With the thread dump we can verify where is the contention. (it 
could be even your own contention).

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