Team:UCSF/Parts

From 2008.igem.org

(Difference between revisions)
(→Note)
 
(30 intermediate revisions not shown)
Line 1: Line 1:
-
<!-- *** What falls between these lines is the Alert Box!  You can remove it from your pages once you have read and understood the alert *** -->
+
'''UCSF iGEM 2008 Parts'''
 +
 
 +
For complete details and sequence, see the Registry: http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2008&group=UCSF&Done=1
 +
 
 +
 
 +
'''AarI Shuttle Vector'''
 +
''The bulk of our parts were generated using the AarI cloning technique. If that is not your thing, we have created a shuttle vector to facilitate conversion of our parts into biobricks.''
 +
 
 +
*AarI--Biobrick Shuttle AB
 +
 
 +
*AarI--Biobrick Shuttle BD
 +
 
 +
more details: [[Everything_you_ever_wanted_to_know_about_AarI]]
 +
 
 +
 
 +
'''Project-relevant AarI Parts'''
 +
''digestion of these plasmids with AarI will release a fragment for AarI cloning.''
 +
 
 +
*LexA (1-87 a.a) AB
 +
 
 +
*Sir2 BD
 +
 
 +
*GFP AD
 +
 
 +
*Ssn8 AD
 +
 
 +
*Sir3 A!D
 +
 
 +
*Sir4 AD
 +
 
 +
 
 +
'''Project-relevant Composite Parts'''
 +
''AarI combinatorial cloning, combined with an occasional subclone, produced these composite parts.''
 +
 
 +
EFFECTORS
 +
 
 +
*LexA-Sir2 under a galactose-inducible promoter (Gal1P-LexA(1-87)-Sir2-Adh1t)
 +
 
 +
*LexA-Sir2 under a strong constitutive promoter (Adh1P-LexA(1-87)-Sir2-Adh1t)
 +
 
 +
*LexA-Sir2 under a medium constitutive promoter (Cyc1P-LexA(1-87)-Sir2-Adh1t)
 +
 
 +
*Ssn8, under a strong constitutive promoter (Adh1P-Ssn8-Adh1t)
 +
 
 +
*Sir3, under a strong constitutive promoter (Adh1P!-Sir3-Adh1t)
 +
 
 +
REPORTERS
 +
 
 +
*GFP under medium constitutive promoter, 5' LexA Operators (8X LexA Ops-Cyc1P-GFP-Adh1t)
 +
 
 +
*GFP under medium constitutive promoter, 3' LexA Operators (Cyc1P-GFP-Adh1t-8X LexA Ops)
 +
 
 +
*GFP under pheromone-inducible promoter, 5' LexA Operators (8X LexA Ops-Fig1P-GFP-Adh1t)
 +
 
 +
*Regional Silencing test construct (Cyc1P-mCherry-Adh1t-8X LexA Ops-Cyc1P-GFP-Adh1t)
 +
 
 +
*250 bp spacer construct (Cyc1P-GFP-Adh1t-250 bp-8X LexA Ops)
 +
 
 +
*500 bp spacer construct (Cyc1P-GFP-Adh1t-500 bp-8X LexA Ops)
 +
 
 +
*1000 bp spacer construct (Cyc1P-GFP-Adh1t-1000 bp-8X LexA Ops)
 +
 
 +
*2000 bp spacer construct (Cyc1P-GFP-Adh1t-2000 bp-8X LexA Ops)
 +
 
 +
*3000 bp spacer construct (Cyc1P-GFP-Adh1t-3000 bp-8X LexA Ops)
 +
 
 +
 
 +
 
 +
'''AarI acceptor vectors (empty)'''
 +
''These pRS3series vectors accept AarI digested parts between a promoter/terminator. The promoter is flanked by PspOMI/XhoI sites, and the terminator by Not1/SacI sites, in case you want to change them out.''
 +
 
 +
*AarI AD Acceptor (pRS305, Gal1P, Adh1t)
 +
 
 +
*AarI AD Acceptor (pRS315, Adh1P, Adh1t)
 +
 
 +
*AarI AD Acceptor (pRS315, Cyc1P, Adh1t)
 +
 
 +
*AarI AD Acceptor (pRS315, 8X LexA Ops-Cyc1P, Adh1t)
 +
 
 +
*AarI AD acceptor (pRS315, Cyc1P, Adh1t-8XLexA Ops)
 +
 
 +
*AarI AD Acceptor (pRS315, 8X LexA Ops-Fig1P, Adh1t)
 +
 
 +
 
 +
'''Bonus AarI Parts'''
 +
''These are provided to the registry to facilitate getting started with AarI cloning. Some we had planned to use, but didn't get around to, and others are selected from the lab database of AarI parts.''
 +
 
 +
*Sir2 AB
 +
 
 +
*Esa1 AB (Histone Acetyltransferase)
 +
 
 +
*Sas2 AB (Histone Acetylatransferase)
 +
 
 +
*Sas2 BD
 +
 
 +
*mCherry AB
 +
 
 +
*mCherry BD
 +
 
 +
*GFP AB
 +
 
 +
*GFP BD
 +
 
 +
*LexA (1-87) BD
 +
 
 +
*TetR AB (Tet Repressor DNA Binding Domain)
 +
 
 +
*TetR BD
 +
 
 +
*LacI AB (Lac Repressor DNA Binding Domain)
 +
 
 +
*Pif3 AB (Light-inducible dimerization partner)
 +
 
 +
*PhyB AB (Light-inducible dimerization partner)
-
<html>
 
-
<div id="box" style="width: 700px; margin-left: 137px; padding: 5px; border: 3px solid #000; background-color: #fe2b33;">
 
-
<div id="template" style="text-align: center; font-weight: bold; font-size: large; color: #f6f6f6; padding: 5px;">
 
-
This is a template page. READ THESE INSTRUCTIONS.
 
-
</div>
 
-
<div id="instructions" style="text-align: center; font-weight: normal; font-size: small; color: #f6f6f6; padding: 5px;">
 
-
You are provided with this team page template with which to start the iGEM season.  You may choose to personalize it to fit your team but keep the same "look." Or you may choose to take your team wiki to a different level and design your own wiki.  You can find some examples <a href="https://2008.igem.org/Help:Template/Examples">HERE</a>.
 
-
</div>
 
-
<div id="warning" style="text-align: center; font-weight: bold; font-size: small; color: #f6f6f6; padding: 5px;">
 
-
You <strong>MUST</strong> have a team description page, a project abstract, a complete project description, and a lab notebook.  PLEASE keep all of your pages within your Team:Example namespace. 
 
-
</div>
 
-
</div>
 
-
</html>
 
-
<!-- *** End of the alert box *** -->
 
-
{|align="justify"
 
-
|You can write a background of your team here.  Give us a background of your team, the members, etc.  Or tell us more about something of your choosing.
 
-
|[[Image:Example_logo.png|200px|right|frame]]
 
-
|-
 
-
|
 
-
''Tell us more about your project.  Give us background.  Use this is the abstract of your project.  Be descriptive but concise (1-2 paragraphs)''
 
-
|[[Image:Team.png|right|frame|Your team picture]]
 
-
|-
 
-
|
 
-
|align="center"|[[Team:UCSF | Team Example 2]]
 
-
|}
 
<!--- The Mission, Experiments --->
<!--- The Mission, Experiments --->
-
{| style="color:#1b2c8a;background-color:#0c6;" cellpadding="3" cellspacing="1" border="1" bordercolor="#fff" width="62%" align="center"
+
{| style="color:#333333;background-color:#cccccc;" cellpadding="3" cellspacing="3" border="0" bordercolor="#231f26" width="99%" align="center"  
!align="center"|[[Team:UCSF|Home]]
!align="center"|[[Team:UCSF|Home]]
!align="center"|[[Team:UCSF/Team|The Team]]
!align="center"|[[Team:UCSF/Team|The Team]]
Line 39: Line 127:
!align="center"|[[Team:UCSF/Parts|Parts Submitted to the Registry]]
!align="center"|[[Team:UCSF/Parts|Parts Submitted to the Registry]]
!align="center"|[[Team:UCSF/Modeling|Modeling]]
!align="center"|[[Team:UCSF/Modeling|Modeling]]
-
!align="center"|[[Team:UCSF/Notebook|Notebook]]
+
!align="center"|[[Team:UCSF/Human Practices|Human Practices]]
 +
!align="center"|[[Team:UCSF/Notebook|Notebooks]]
|}
|}
-
(''Or you can choose different headings.  But you must have a team page, a project page, and a notebook page.'')
 
-
 
-
 
-
===Note===
 
-
 
-
If you choose to include a '''Parts Submitted to the Registry''' page, please list your parts here.  This is not necessary but it may be a nice list to keep track of.
 
-
 
-
 
-
'''AarI TOPO clones''' (digestion of these plasmids with AarI will release a fragment for AarI cloning).
 
-
 
-
GFP BD
 
-
Sir2 AB
 
-
Sir2 BD
 
-
mCherry AB
 
-
mCherry BD
 

Latest revision as of 17:57, 29 October 2008

UCSF iGEM 2008 Parts

For complete details and sequence, see the Registry: http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2008&group=UCSF&Done=1


AarI Shuttle Vector The bulk of our parts were generated using the AarI cloning technique. If that is not your thing, we have created a shuttle vector to facilitate conversion of our parts into biobricks.

  • AarI--Biobrick Shuttle AB
  • AarI--Biobrick Shuttle BD

more details: Everything_you_ever_wanted_to_know_about_AarI


Project-relevant AarI Parts digestion of these plasmids with AarI will release a fragment for AarI cloning.

  • LexA (1-87 a.a) AB
  • Sir2 BD
  • GFP AD
  • Ssn8 AD
  • Sir3 A!D
  • Sir4 AD


Project-relevant Composite Parts AarI combinatorial cloning, combined with an occasional subclone, produced these composite parts.

EFFECTORS

  • LexA-Sir2 under a galactose-inducible promoter (Gal1P-LexA(1-87)-Sir2-Adh1t)
  • LexA-Sir2 under a strong constitutive promoter (Adh1P-LexA(1-87)-Sir2-Adh1t)
  • LexA-Sir2 under a medium constitutive promoter (Cyc1P-LexA(1-87)-Sir2-Adh1t)
  • Ssn8, under a strong constitutive promoter (Adh1P-Ssn8-Adh1t)
  • Sir3, under a strong constitutive promoter (Adh1P!-Sir3-Adh1t)

REPORTERS

  • GFP under medium constitutive promoter, 5' LexA Operators (8X LexA Ops-Cyc1P-GFP-Adh1t)
  • GFP under medium constitutive promoter, 3' LexA Operators (Cyc1P-GFP-Adh1t-8X LexA Ops)
  • GFP under pheromone-inducible promoter, 5' LexA Operators (8X LexA Ops-Fig1P-GFP-Adh1t)
  • Regional Silencing test construct (Cyc1P-mCherry-Adh1t-8X LexA Ops-Cyc1P-GFP-Adh1t)
  • 250 bp spacer construct (Cyc1P-GFP-Adh1t-250 bp-8X LexA Ops)
  • 500 bp spacer construct (Cyc1P-GFP-Adh1t-500 bp-8X LexA Ops)
  • 1000 bp spacer construct (Cyc1P-GFP-Adh1t-1000 bp-8X LexA Ops)
  • 2000 bp spacer construct (Cyc1P-GFP-Adh1t-2000 bp-8X LexA Ops)
  • 3000 bp spacer construct (Cyc1P-GFP-Adh1t-3000 bp-8X LexA Ops)


AarI acceptor vectors (empty) These pRS3series vectors accept AarI digested parts between a promoter/terminator. The promoter is flanked by PspOMI/XhoI sites, and the terminator by Not1/SacI sites, in case you want to change them out.

  • AarI AD Acceptor (pRS305, Gal1P, Adh1t)
  • AarI AD Acceptor (pRS315, Adh1P, Adh1t)
  • AarI AD Acceptor (pRS315, Cyc1P, Adh1t)
  • AarI AD Acceptor (pRS315, 8X LexA Ops-Cyc1P, Adh1t)
  • AarI AD acceptor (pRS315, Cyc1P, Adh1t-8XLexA Ops)
  • AarI AD Acceptor (pRS315, 8X LexA Ops-Fig1P, Adh1t)


Bonus AarI Parts These are provided to the registry to facilitate getting started with AarI cloning. Some we had planned to use, but didn't get around to, and others are selected from the lab database of AarI parts.

  • Sir2 AB
  • Esa1 AB (Histone Acetyltransferase)
  • Sas2 AB (Histone Acetylatransferase)
  • Sas2 BD
  • mCherry AB
  • mCherry BD
  • GFP AB
  • GFP BD
  • LexA (1-87) BD
  • TetR AB (Tet Repressor DNA Binding Domain)
  • TetR BD
  • LacI AB (Lac Repressor DNA Binding Domain)
  • Pif3 AB (Light-inducible dimerization partner)
  • PhyB AB (Light-inducible dimerization partner)




Home The Team The Project Parts Submitted to the Registry Modeling Human Practices Notebooks
Retrieved from "http://2008.igem.org/Team:UCSF/Parts"