Team:Heidelberg/Modeling/miBSdesigner

From 2010.igem.org

(Difference between revisions)

Revision as of 18:52, 25 October 2010

BS designer for miRNA

Sequence name

microRNA Sequence ( 5' -> 3')

Spacer (inert sequence)

Perfect Binding Site
Imperfect Binding Site with 4 nt bulge (9-12)
Personalized Binding Site

Seed sequence (1-8)

Customized MISMATCH position

Supplementary region

Customized MATCH positions (input numbers from 9 to 22)

Modify AU content

A in position -1

A in position 0

A in position 1

A in position 8

A in position 9

A in position 10

Sticky ends for integration in plasmid:

Customized: 5' 3'

Construction of microRNA binding sites

Name of primer 1

Sequence of primer 1

Name of primer 2

Sequence of primer 2

@@ Line 15: / Line 15: @@
 div.suboption {text-indent:80px;}
 div.clear {clear: both;}
-div.reswrap2 {padding:5px; width: 260px; margin:auto; text-align:left; display:none; font-size:12pt;}
+div.reswrap2 {padding:5px; width: 240px; margin:auto; text-align:left; display:none; font-size:12pt;}
 .variaresult {font-size: 12pt; color: #11526f; font-weight: bold;}
 </style>
@@ Line 49: / Line 49: @@
 			Seed sequence (1-8) </span></div>
 		<div class="option"><SELECT name="seed" onchange="chMd1()" disabled="disabled">
+                <OPTION value="0">
 		<OPTION value="6mer">6mer                (2-7 paired)
 		<OPTION value="7merA1">7merA1           (1-7 paired)
@@ Line 67: / Line 68: @@
 			Supplementary region </span></div>
 		<div class="option"><SELECT name="comp" onchange="chMd2()" disabled="disabled">
+                <OPTION value="0">
 		<OPTION value="3">3                   (14-16 paired)
 		<OPTION value="4">4                   (13-16 paired)