Difference between revisions of "Part:BBa K1926022"
 
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<partinfo>BBa_K1926022 short</partinfo>
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<span class='h3bb'>Sequence and Features</span>
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<partinfo>BBa_K1926022 SequenceAndFeatures</partinfo>
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This part is the SNAP-mCHERRY UNIT of cyclebow including a SNAP UNIT and a mCHERRY UNIT. The SNAP UNIT, which can be cut off by CRE, includes an sv40 nuclear location sequence (NLS), a covalent labeling of fusion proteins named SNAP-tag® and an sv40 terminator flanked by homodromous recognition site of recombinase CRE named loxP. The mCHERRY UNIT, which can be cut off by VIKA, includes a degradation tag named DBOX, a fluorescent gene mCherry and an sv40 terminator flanked by homodromous recognition site of recombinase VIKA named Vox.  
 
This part is the SNAP-mCHERRY UNIT of cyclebow including a SNAP UNIT and a mCHERRY UNIT. The SNAP UNIT, which can be cut off by CRE, includes an sv40 nuclear location sequence (NLS), a covalent labeling of fusion proteins named SNAP-tag® and an sv40 terminator flanked by homodromous recognition site of recombinase CRE named loxP. The mCHERRY UNIT, which can be cut off by VIKA, includes a degradation tag named DBOX, a fluorescent gene mCherry and an sv40 terminator flanked by homodromous recognition site of recombinase VIKA named Vox.  
  
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[[File:8-SmC UNIT.png|600px|thumb|left|'''Figure 1:''' The map of the SNAP-mCHERRY UNIT.]]
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===Usage===
  
 
You may use this part to:  
 
You may use this part to:  
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4) When there is no CRE, you can use this part as the SNAP UNIT, which can help localize proteins in vivo with BLOCK and dye from NEB company.
 
4) When there is no CRE, you can use this part as the SNAP UNIT, which can help localize proteins in vivo with BLOCK and dye from NEB company.
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===Source===
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The SNAP-tag® was brought from NEB company. NLS and sv40 terminator were got from commercial plasmid: pentry nls GFP/pcdna3.1. The sequence of Vox and DBOX was retrieved from Addgene and got through denovo synthesis. mCHERRY was got from commercial plasmid: pentry dcas9 mcherry bira.
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===Construction Design===
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The SNAP-tag® and mCherry with tags and RTSs are constructed using PCR and oligonucleotide ligation by the following procedure. Our UNITs all contain XbaI and SpeI enzyme sites, so we can easily line up the UNITs using 3A assembly. 
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[[File:5-连接过程改.png|600px|thumb|left|'''Figure 2:''' Three steps to construct our UNITs using PCR and oligonucleotide ligation.]]
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<br style="clear: both" />
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===Gel analysis after EcoR1 digestion===
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The length of our biobricks are confirmed by gel analysis after EcoR1 digestion. The biobrick BBa_R0040, which is the negative control in 2016’s interlab, was used as a control because it only have a 54 bp part.
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[[File: 2016--SYSU-CHINA--biobrick2.png|400px|thumb|left|'''Figure 3:''' AGE image of biobricks BBa_K1926001-BBa_K1926003. The samples were pre dyed with gelred]]
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<!-- Uncomment this to enable Functional Parameter display
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===Functional Parameters===
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<partinfo>BBa_K1926011 parameters</partinfo>
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Latest revision as of 07:34, 19 October 2016

The SNAP-mCHERRY UNIT

Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal NgoMIV site found at 419
  • 1000
    COMPATIBLE WITH RFC[1000]

This part is the SNAP-mCHERRY UNIT of cyclebow including a SNAP UNIT and a mCHERRY UNIT. The SNAP UNIT, which can be cut off by CRE, includes an sv40 nuclear location sequence (NLS), a covalent labeling of fusion proteins named SNAP-tag® and an sv40 terminator flanked by homodromous recognition site of recombinase CRE named loxP. The mCHERRY UNIT, which can be cut off by VIKA, includes a degradation tag named DBOX, a fluorescent gene mCherry and an sv40 terminator flanked by homodromous recognition site of recombinase VIKA named Vox.

Figure 1: The map of the SNAP-mCHERRY UNIT.



Usage

You may use this part to:

1) Test the cut-off efficiency of recombinase CRE and VIKA;

2) Estimate the time needed for genome repair because mCherry can only be expressed after the cut off of SNAP UNIT and genome repair;

3) Fast cut off this part by transient transfecting recombinase gene into nucleus;

4) When there is no CRE, you can use this part as the SNAP UNIT, which can help localize proteins in vivo with BLOCK and dye from NEB company.


Source

The SNAP-tag® was brought from NEB company. NLS and sv40 terminator were got from commercial plasmid: pentry nls GFP/pcdna3.1. The sequence of Vox and DBOX was retrieved from Addgene and got through denovo synthesis. mCHERRY was got from commercial plasmid: pentry dcas9 mcherry bira.


Construction Design

The SNAP-tag® and mCherry with tags and RTSs are constructed using PCR and oligonucleotide ligation by the following procedure. Our UNITs all contain XbaI and SpeI enzyme sites, so we can easily line up the UNITs using 3A assembly.

Figure 2: Three steps to construct our UNITs using PCR and oligonucleotide ligation.



Gel analysis after EcoR1 digestion

The length of our biobricks are confirmed by gel analysis after EcoR1 digestion. The biobrick BBa_R0040, which is the negative control in 2016’s interlab, was used as a control because it only have a 54 bp part.

Figure 3: AGE image of biobricks BBa_K1926001-BBa_K1926003. The samples were pre dyed with gelred