Team:SUSTC-Shenzhen-B/introduction

From 2012.igem.org

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<h3 class="STYLE10">Transcription:</h3>
<h3 class="STYLE10">Transcription:</h3>
<img src="http://2012.igem.org/wiki/images/e/e9/Transcription.jpg" alt="" class="img_fl img_border  alignright" />
<img src="http://2012.igem.org/wiki/images/e/e9/Transcription.jpg" alt="" class="img_fl img_border  alignright" />
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<p>The transcription stage, the reading of genetic information from DNA, is composed of promoter binding and the activation of RNA polymerase, RNA transcript initiation and promoter escape, RNA transcript elongation, and transcript termination, and release. </p>  
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<p>The transcription stage is composed of four steps: promoter binding and the activation of RNA polymerase, RNA transcript initiation and promoter escape, RNA transcript elongation, and transcript termination, and release. In this stage, genetic information is read from DNA.  </p>  
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                 <h3 class="STYLE10">What is terminator?</h3>
                 <h3 class="STYLE10">What is terminator?</h3>
<img src="http://2012.igem.org/wiki/images/1/15/Second_structure.JPG " alt="" class="img_fl img_border alignright" />
<img src="http://2012.igem.org/wiki/images/1/15/Second_structure.JPG " alt="" class="img_fl img_border alignright" />
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<p>Terminators are genetic parts that usually occur at the end of a gene or operon and cause transcription to stop. In prokaryotes, terminators usually fall into two categories (1) rho-independent terminators and (2) rho-dependent terminators.</p>
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<p>Terminators are genetic parts that cause transcription to stop, which usually occur at the end of a gene or operon. In prokaryotes, terminators usually fall into two categories (1) rho-independent terminators and (2) rho-dependent terminators.</p>
<p>Rho-independent terminators are generally composed of palindromic sequence that forms a stem loop rich in G-C base pairs followed by several T bases. The conventional model of transcriptional termination is that the stem loop causes RNA polymerase to pause and transcription of the poly-A tail causes the RNA:DNA duplex to unwind and dissociate from RNA polymerase.
<p>Rho-independent terminators are generally composed of palindromic sequence that forms a stem loop rich in G-C base pairs followed by several T bases. The conventional model of transcriptional termination is that the stem loop causes RNA polymerase to pause and transcription of the poly-A tail causes the RNA:DNA duplex to unwind and dissociate from RNA polymerase.
</p>   
</p>   
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               <h3 class="STYLE10">Terminator Efficiency:</h3>
               <h3 class="STYLE10">Terminator Efficiency:</h3>
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<p>Although terminators are positioned at the ends of genes, they also play irreplaceable roles. It is important that transcription is imperfectly terminated at some terminator so that the ratio of the amount of the mRNA transcribed from upstream and that from downstream of the terminator is controlled. This regulation is qualified by the termination efficiency.</p>
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<p>Although terminators are positioned at the ends of genes, they also play irreplaceable roles. The imperfect termination is very important in control of the ratio of mRNA transcribed from upstream and downstream. This regulation is qualified by the termination efficiency.</p>
<br>  
<br>  
               <h3 class="STYLE10">Software:</h3>
               <h3 class="STYLE10">Software:</h3>
<p> We also developed a <a href="http://2012.igem.org/Team:SUSTC-Shenzhen-B/Download">software</a> and a <a href="http://www.terminatorefficiency.com/"> web server</a> for people to calculate their terminators and built a
<p> We also developed a <a href="http://2012.igem.org/Team:SUSTC-Shenzhen-B/Download">software</a> and a <a href="http://www.terminatorefficiency.com/"> web server</a> for people to calculate their terminators and built a
<a href="http://www.terminatorefficiency.com/Database.html">database</a>
<a href="http://www.terminatorefficiency.com/Database.html">database</a>
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  of terminator efficiency which we believe to be the largest database of such kind.</p>
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  of terminator efficiency which we believe is the largest database of such kind.</p>

Revision as of 16:14, 26 October 2012

Title

Introduction

Transcription:

The transcription stage is composed of four steps: promoter binding and the activation of RNA polymerase, RNA transcript initiation and promoter escape, RNA transcript elongation, and transcript termination, and release. In this stage, genetic information is read from DNA.


What is terminator?

Terminators are genetic parts that cause transcription to stop, which usually occur at the end of a gene or operon. In prokaryotes, terminators usually fall into two categories (1) rho-independent terminators and (2) rho-dependent terminators.

Rho-independent terminators are generally composed of palindromic sequence that forms a stem loop rich in G-C base pairs followed by several T bases. The conventional model of transcriptional termination is that the stem loop causes RNA polymerase to pause and transcription of the poly-A tail causes the RNA:DNA duplex to unwind and dissociate from RNA polymerase.


Terminator Efficiency:

Although terminators are positioned at the ends of genes, they also play irreplaceable roles. The imperfect termination is very important in control of the ratio of mRNA transcribed from upstream and downstream. This regulation is qualified by the termination efficiency.


Software:

We also developed a software and a web server for people to calculate their terminators and built a database of terminator efficiency which we believe is the largest database of such kind.


Algorithm:

Now, our algorithm is mainly based on a algorithm put forward by d'Aubenton Carafa. Also, we had a look at other terminator-finding algorithms.


Tutorial:

Our software is easy to use. If you need any help, click here.

South University of Science and Technology of China