IUBio

Restriction fragments

Pierre Lindenbaum lindenb at jouy.inra.fr
Wed Oct 28 09:31:29 EST 1998


Aidan Weatherill (Aweather at worf.molbiol.ox.ac.uk) wrote:
: Ok you answered with lightning speed last time, try this!
: I have 12 sequences that are fairly similar, I want to work out an enzyme
: digest that will differentiate between them without, and here is the trick,
: cutting anwhere in a number of unrelated sequences.
: ie I want to be able to find out the enzymes that cut in a number of
: sequences and use this information to design a digest that does NOT use any
: of these enzymes.


	try CloneIt

	http://locus.jouy.inra.fr/soft/cloneit/cloneit.html

it can compares two sequences from the Restriction Enzymes point of view..

                                       _______________________________
                                      |  IN  |  OUT  |  IN  |  OUT  |
                                       _______________________________
                                       |    SEQ1      |    SEQ2       |
           ___________________________________________________________
	(...)
             Van91I   [CCANNNN^NTGG  ] |    0 |    0  |    0 |    0  |
             VspI     [AT^TAAT       ] |    1 |    0  |    2 |    3  |
             XbaI     [T^CTAGA       ] |    0 |    0  |    1 |    0  |
             XcmI     [CCANNNNN^NNNNT] |    1 |    2  |    0 |    0  |
             XhoI     [C^TCGAG       ] |    0 |    0  |    0 |    0  |
             XhoII    [R^GATCY       ] |    0 |    0  |    2 |    6  |
             XmaI     [C^CCGGG       ] |    1 |    0  |    1 |    0  |
             XmnI     [GAANN^NNTTC   ] |    0 |    2  |    1 |    1  |*
           ___________________________________________________________
                                       |  IN  |  OUT  |  IN  |  OUT  |
                                       _______________________________
                                       |    SEQ1      |    SEQ2       |
                                       _______________________________

Hope this helps


--
098)o%:::%o(8609
.6o%:%o(86098)..........................................................
  (86098)o
6098)o%::%o9        Pierre LINDENBAUM
098)o%::::::%o9      Biologie Moleculaire des Rotavirus
 6o%::::::%o(860      Unite de Virologie et Immunologie Moleculaires
    6o%::%o(8609       Institut National de la Recherche Agronomique
      o(86098)          78352 JOUY-EN-JOSAS CEDEX
  (86098)o%:%o9          FRANCE
6098)o%:::%o(860    
098)o%:::%o(8609         
 6o%:%o(86098)             
  (86098)o
6098)o%::%o9............................................................
098)o%::::::%o9 
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   CloneIt WWW Home Page:http://locus.jouy.inra.fr/soft/cloneit/cloneit.html




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