UPDATE
Multiple SCMs Plugin is now deprecated so users should migrate to Pipeline plugin.
Old answer
Yes, Jenkins can handle this. Just use Multiple SCMs
under Source Code Management, add your repositories and then go to the Advanced section of each repository. Here you need to set Local subdirectory for repo (optional)
and Unique SCM name (optional)
.
Your repository will be pulled to the Local subdirectory which you have set so then you can build them in any order you want.
Updating per harish
s answer - you need to install Multiple SCMs Plugin in order to achieve this functionality.
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