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how to know my primer's sense ???


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#1 nightingale

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Posted 18 April 2011 - 10:04 AM

Dear All,

if you have the sequence of both your primers, but you don't know which is the reverse & which is the forward.
how can you know ???
i heard that you can BLAST it ... But the question is : How ???

looking forward to hearing your kind inputs.

thanx in advance.

nightingale

" The more you learn, the more you realize how little you know ... "

#2 Ameya P

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Posted 18 April 2011 - 09:38 PM

You can use Primer Blast

http://www.ncbi.nlm....s/primer-blast/

In primer parameter's, paste the sequences you know, scroll down and hit 'Get Primers'.
This should give you the sequence of the gene it binds.

If it does not, interchange forward and reverse primer sequences and then that should give you a product.

One of these would give you the answer you are looking for.

You can also use, UCSC's In-silico PCR
http://genome.ucsc.e...hgPcr?org=Human

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#3 nightingale

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Posted 19 April 2011 - 10:47 AM

You can use Primer Blast

http://www.ncbi.nlm....s/primer-blast/

In primer parameter's, paste the sequences you know, scroll down and hit 'Get Primers'.
This should give you the sequence of the gene it binds.

If it does not, interchange forward and reverse primer sequences and then that should give you a product.

One of these would give you the answer you are looking for.

You can also use, UCSC's In-silico PCR
http://genome.ucsc.e...hgPcr?org=Human


first : thanks alot for ur reply.

second to that : i tried, but in vain ! the reason behind is that i kept receiving a message telling me that what am looking for is not in the database selected, tried to change it ... but i surrendered !!! :wacko: ...

exploring the net, i found a paper telling me which is the forward and the reverse :D

thanks alot ... :)
" The more you learn, the more you realize how little you know ... "




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