Team:Freiburg/Project/modeling/crRNA/js
From 2013.igem.org
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if (document.getElementById('form1').rad[Count].checked){ | if (document.getElementById('form1').rad[Count].checked){ | ||
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break;} | break;} | ||
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var k = 0; | var k = 0; | ||
- | + | while (m = pattern.exec(TestVar)){ | |
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oligo4.push(m); | oligo4.push(m); | ||
index1.push(m.index); | index1.push(m.index); | ||
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j = j+25; | j = j+25; | ||
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var pattern = /CC./g; | var pattern = /CC./g; | ||
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} | } | ||
} | } | ||
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+ | TestVar = TestVar.replace(/</g,"\n <"); | ||
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+ | var w = window.open("blank.html", "blank", "height=50,width=300"); | ||
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+ | alert('Working.'); | ||
+ | } | ||
+ | } ); | ||
+ | </script> | ||
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+ | <SCRIPT LANGUAGE="JavaScript"> | ||
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+ | function CrispR (form) { | ||
+ | |||
Revision as of 21:46, 26 September 2013
crRNA-Design
This tool helps you to design a crRNA-insert for pX334a. The oligos contain overhangs which fit to the BbsI-overhangs by pX334a.
For repression of gene transcription by targeting the coding sequence
it´s crucial to target the non template (= coding) DNA strand.
Therefore the oligos must be designed as
follows:
- Search at your desired target sequence for a CCN (reverse complement of the PAM sequence) at the coding strand.
- Extract the following (3') 30 nucleotides.
- Extract the reverse complement.
- Add AAAC at the 5' end and GT at the 3' end. This will be your fist oligo.
- Take the sequence from step 2 and add TAAAAC at the 5' end. This will be your second oligo.