Primer design

[sps.bhu]

Hello every1
I know how to use the BLAST, ORF FINDER and various other bioinfo softwares like MEGA, BIOEDIT, FAST PCR, DAMBE, DnaSP etc. but I have one query.....while designing a primer, what all needs to be done (not kept in mind). I know that everyone would tell about the hairpins, dimers etc....the difference b/w the Tm etc....
but .....
how can we know that the sequence we are taking is correct or not...how gud is the NCBI Primer design tool....do we need to consider the ORF's while designing a primer...or just taking any sequence can help.

[arros123]

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