Difference between revisions of "Team:UIUC Illinois/Parts"

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<h2> Part Documentation</h2>
 
<h2> Part Documentation</h2>
  
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<p>Each team will make new parts during iGEM and will submit them to the Registry of Standard Biological Parts. The iGEM software provides an easy way to present the parts your team has created. The <code>&lt;groupparts&gt;</code> tag (see below) will generate a table with all of the parts that your team adds to your team sandbox.</p>
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<hr />
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<p>Remember that the goal of proper part documentation is to describe and define a part, so that it can be used without needing to refer to the primary literature. Registry users in future years should be able to read your documentation and be able to use the part successfully. Also, you should provide proper references to acknowledge previous authors and to provide for users who wish to know more.</p>
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<ul>
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<img src="https://static.igem.org/mediawiki/2015/thumb/0/00/UIUC_Illinois_PartB_Updated.png/797px-UIUC_Illinois_PartB_Updated.png">
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<li>Part: K1681000</li>
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<li>Part Name: PL lac O-1 SCRIBE(kanR)ON</li>
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<li>Part Type: n/a</li>
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<li>Creator: UIUC_Illinois_2015</li>
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<li>Short Description: IPTG-inducible kanamycin resistance SCRIBE cassette</li>
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<li>Long Description:
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SCRIBE(kanR)ON is a cassette coding for the RNA and proteins needed to restore kanamycin resistance by synthesizing multicopy single-stranded DNA (msDNA) for site-specific recombination.  The part consists of the IPTG-inducible promoter PL lac O-1, a retron coding for an untranslated RNA molecule and the open reading frame for reverse transcriptase, a RBS, the open reading frame for beta recombinase, and a terminator. The reverse transcriptase uses the msDNA (msd) region of the RNA molecule as a template and the msd RNA (msr) region of the RNA molecule as a primer to synthesize the msDNA. The beta recombinase inserts the kanamycin resistance segment of the msDNA into the host’s genome during DNA replication as an Okazaki fragment.</li>
  
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<div class="highlightBox">
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<li>Design Considerations:
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<h4>Note</h4>
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This part was designed to be used as a positive control for testing SCRIBE cassettes with different promoters and/ or custom DNA segments for site-specific recombination.</li>
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<p>Note that parts must be documented on the <a href="http://parts.igem.org/Main_Page"> Registry</a>. This page serves to <i>showcase</i> the parts you have made. Future teams and other users and are much more likely to find parts by looking in the Registry than by looking at your team wiki.</p>
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</ul>
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</div>
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<hr />
  
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<ul>
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<img src="https://static.igem.org/mediawiki/2015/thumb/f/f3/UIUC_Illinois_PartA_Updated.png/800px-UIUC_Illinois_PartA_Updated.png">
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<li>Part: K1681001</li>
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<li>Part Name: SCRIBE(BsaI)</li>
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<li>Part Type: n/a</li>
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<li>Creator: UIUC_Illinois_2015</li>
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<li>Short Description: SCRIBE cassette with BsaI sites for Golden Gate assembly</li>
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<li>Long Description:
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SCRIBE(BsaI) is a SCRIBE cassette including two restriction sites of the Type-II restriction enzyme BsaI in the msd region of the retron. This part is compatible with Golden Gate assembly.</li>
  
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<h4>Adding parts to the registry</h4>
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<li>Design Considerations:
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<p>You can add parts to the Registry at our <a href="http://parts.igem.org/Add_a_Part_to_the_Registry">Add a Part to the Registry</a> link.</p>
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This part was designed as a modular assembly part for future users to add custom DNA segments into the msd region for site-specific recombination via Golden Gate assembly and to add promoters of their choice via Standard or 3A assembly.
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<p>We encourage teams to start completing documentation for their parts on the Registry as soon as you have it available. The sooner you put up your parts, the better you will remember all the details about your parts. Remember, you don't need to send us the DNA sample before you create an entry for a part on the Registry. (However, you <b>do</b> need to send us the DNA sample before the Jamboree. If you don't send us a DNA sample of a part, that part will not be eligible for awards and medal criteria.)</p>
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See Bba_K1681000 for a more detailed description as to how such custom DNA segments would be inserted into the host’s genome.</li>
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</ul>
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<hr />
  
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<h4>What information do I need to start putting my parts on the Registry?</h4>
 
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<p>The information needed to initially create a part on the Registry is:</p>
 
 
<ul>
 
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<li>Part Name</li>
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<img src="https://static.igem.org/mediawiki/2015/thumb/9/95/UIUC_Illinois_PartD_Updated.png/800px-UIUC_Illinois_PartD_Updated.png">
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<li>Part type</li>
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<li>K1681002</li>
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<li>Creator</li>
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<li>Part Name: PL lac O-1 SCRIBE(BsaI)</li>
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<li>Sequence</li>
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<li>Part Type: n/a</li>
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<li>Short Description (60 characters on what the DNA does)</li>
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<li>Creator: UIUC_Illinois_2015</li>
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<li>Long Description (Longer description of what the DNA does)</li>
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<li>Short Description: IPTG-inducible promoter and BsaI SCRIBE cassette</li>
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<li>Design considerations</li>
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<li>Long Description:
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</ul>
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This part is the IPTG-inducible promoter PL lac O-1 immediately upstream of SCRIBE(BsaI), with no scar site in between.</li>
  
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<p>
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<li>Design Considerations:
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We encourage you to put up <em>much more</em> information as you gather it over the summer. If you have images, plots, characterization data and other information, please also put it up on the part page. </p>
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This part was designed to be used as a positive control for testing SCRIBE cassettes with different promoters after using Golden Gate assembly to add custom DNA segments into the msd region for site-specific recombination.
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See Bba_K1681000 for a more detailed description as to how such custom DNA segments would be inserted into the host’s genome.</li>
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<h4>Inspiration</h4>
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<p>We have a created  a <a href="http://parts.igem.org/Well_Documented_Parts">collection of well documented parts</a> that can help you get started.</p>
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<p> You can also take a look at how other teams have documented their parts in their wiki:</p>
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<ul>
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<li><a href="https://2014.igem.org/Team:MIT/Parts"> 2014 MIT </a></li>
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<li><a href="https://2014.igem.org/Team:Heidelberg/Parts"> 2014 Heidelberg</a></li>
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<li><a href="https://2014.igem.org/Team:Tokyo_Tech/Parts">2014 Tokyo Tech</a></li>
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</ul>
 
</ul>
  
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<h4>Part Table </h4>
 
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</html>
 
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<groupparts>iGEM015 Example</groupparts>
 
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<html>
 
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</div>
 
 
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Latest revision as of 03:22, 19 September 2015

Part Documentation

  • Part: K1681000
  • Part Name: PL lac O-1 SCRIBE(kanR)ON
  • Part Type: n/a
  • Creator: UIUC_Illinois_2015
  • Short Description: IPTG-inducible kanamycin resistance SCRIBE cassette
  • Long Description: SCRIBE(kanR)ON is a cassette coding for the RNA and proteins needed to restore kanamycin resistance by synthesizing multicopy single-stranded DNA (msDNA) for site-specific recombination. The part consists of the IPTG-inducible promoter PL lac O-1, a retron coding for an untranslated RNA molecule and the open reading frame for reverse transcriptase, a RBS, the open reading frame for beta recombinase, and a terminator. The reverse transcriptase uses the msDNA (msd) region of the RNA molecule as a template and the msd RNA (msr) region of the RNA molecule as a primer to synthesize the msDNA. The beta recombinase inserts the kanamycin resistance segment of the msDNA into the host’s genome during DNA replication as an Okazaki fragment.
  • Design Considerations: This part was designed to be used as a positive control for testing SCRIBE cassettes with different promoters and/ or custom DNA segments for site-specific recombination.
  • Part: K1681001
  • Part Name: SCRIBE(BsaI)
  • Part Type: n/a
  • Creator: UIUC_Illinois_2015
  • Short Description: SCRIBE cassette with BsaI sites for Golden Gate assembly
  • Long Description: SCRIBE(BsaI) is a SCRIBE cassette including two restriction sites of the Type-II restriction enzyme BsaI in the msd region of the retron. This part is compatible with Golden Gate assembly.
  • Design Considerations: This part was designed as a modular assembly part for future users to add custom DNA segments into the msd region for site-specific recombination via Golden Gate assembly and to add promoters of their choice via Standard or 3A assembly. See Bba_K1681000 for a more detailed description as to how such custom DNA segments would be inserted into the host’s genome.
  • K1681002
  • Part Name: PL lac O-1 SCRIBE(BsaI)
  • Part Type: n/a
  • Creator: UIUC_Illinois_2015
  • Short Description: IPTG-inducible promoter and BsaI SCRIBE cassette
  • Long Description: This part is the IPTG-inducible promoter PL lac O-1 immediately upstream of SCRIBE(BsaI), with no scar site in between.
  • Design Considerations: This part was designed to be used as a positive control for testing SCRIBE cassettes with different promoters after using Golden Gate assembly to add custom DNA segments into the msd region for site-specific recombination. See Bba_K1681000 for a more detailed description as to how such custom DNA segments would be inserted into the host’s genome.