Re: Oligos

Martin Pentony (mpento@cmgm.stanford.edu)
Fri, 24 Apr 1998 18:23:15 -0700

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Previous message: Young Moo Lee: "Re: Extraction of a phosphopeptide"
In reply to: Kenneth Williams: "Oligos"

Try these sites. I like the second one but I have no idea how accurate
the calculations are for any of these sites (something I should check
in my free time).

http://paris.chem.yale.edu/extinct.html

http://www.williamstone.com/primers/calculator/

http://www.science.adelaide.edu.au/microb/learn/oligcalc.htm

http://www.user.globalnet.co.uk/~cyk/oligos.html

I also have a molecular weight calculation field in Filemaker Pro as
follows

<fontfamily><param>Geneva</param><bigger><bigger>(PatternCount(Sequence;
"A")* 313.2106) + (PatternCount(Sequence; "G") * 329.21) +
(PatternCount(Sequence; "C") * 289.1854) + (PatternCount(Sequence; "T")
* 304.1972) - 61.965

</bigger></bigger></fontfamily>"Sequence" in this calculation is the
reference field where the oligo sequence is entered.

Hope this is what you wanted

Martin Pentony

P.A.N. Facility

Stanford University

http://cmgm.Stanford.EDU/pan/

>Does someone know of a nice resource (book/reviews or preferably Web
site)

>that has some/all of the following very basic information for common
and

>modified nucleotides found in RNA/DNA:

>1. Extinction coefficients - at both 280 and 260 nm - in RNA/DNA

>2. Mono and avg MWs

>3. Simple programs for calculating above for oligos