Difference between revisions of "Part:BBa K3407004:Design"
Line 7: | Line 7: | ||
===Design Notes=== | ===Design Notes=== | ||
− | Fox-1 amino acid sequence retrieved from NCBI residues 109–208 following the Literature’s materials and methods. As an N-HisTag from pET-28(a) was used in materials and methods, its amino acid sequence was added in the N-Terminal of Fox-1. The Cry7Ca1 gene was codon-optimized for expression in Escherichia coli using the GenSmartTM Codon Optimization Tool. The forbidden restriction enzymes sites were the following: BioBrick forbidden restriction sites (EcoRI, XbaI, SpeI, PstI) and Type IIS forbidden restriction sites (BsaI, SapI and Bpil). BglBrick prefix (nt 1525-1560) and suffix (nt 2277-2318) from pBbB7a (Addgene #35358) were added to the optimised sequence generated. They were designed to be cloned with Gibson Assembly. | + | Fox-1 amino acid sequence retrieved from NCBI residues 109–208 following the Literature’s materials and methods <html><a href="#1">[1]</a></html>. As an N-HisTag from pET-28(a) was used in materials and methods, its amino acid sequence was added in the N-Terminal of Fox-1. The Cry7Ca1 gene was codon-optimized for expression in Escherichia coli using the GenSmartTM Codon Optimization Tool. The forbidden restriction enzymes sites were the following: BioBrick forbidden restriction sites (EcoRI, XbaI, SpeI, PstI) and Type IIS forbidden restriction sites (BsaI, SapI and Bpil). BglBrick prefix (nt 1525-1560) and suffix (nt 2277-2318) from pBbB7a (Addgene #35358) were added to the optimised sequence generated. They were designed to be cloned with Gibson Assembly. |
===Source=== | ===Source=== | ||
− | Plasmids used were from BglBrick repository. pBbB7a-GFP was a gift from Jay Keasling (Addgene plasmid # 35358 ; http://n2t.net/addgene:35358 ; RRID:Addgene_35358) <html><a href="# | + | Plasmids used were from BglBrick repository. pBbB7a-GFP was a gift from Jay Keasling (Addgene plasmid # 35358 ; http://n2t.net/addgene:35358 ; RRID:Addgene_35358) <html><a href="#2">[2]</a></html>. |
===References=== | ===References=== | ||
Line 42: | Line 42: | ||
<html> | <html> | ||
<ol> | <ol> | ||
+ | |||
+ | <li> | ||
+ | <a id="1" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1356361/" target="_blank"> | ||
+ | Auweter, S., Fasan, R., Reymond, L., Underwood, J., Black, D., Pitsch, S. and Allain, F., 2020. Molecular Basis Of RNA Recognition By The Human Alternative Splicing Factor Fox-1.</a> | ||
+ | </li> | ||
+ | |||
<li> | <li> | ||
− | <a id=" | + | <a id="2" href="https://jbioleng.biomedcentral.com/articles/10.1186/1754-1611-5-12" target="_blank"> |
BglBrick vectors and datasheets: A synthetic biology platform for gene expression. Lee TS, Krupa RA, Zhang F, Hajimorad M, Holtz WJ, Prasad N, Lee SK, Keasling JD. J Biol Eng. 2011 Sep 20;5:12. 10.1186/1754-1611-5-12 PubMed 21933410</a> | BglBrick vectors and datasheets: A synthetic biology platform for gene expression. Lee TS, Krupa RA, Zhang F, Hajimorad M, Holtz WJ, Prasad N, Lee SK, Keasling JD. J Biol Eng. 2011 Sep 20;5:12. 10.1186/1754-1611-5-12 PubMed 21933410</a> | ||
</li> | </li> | ||
</ol> | </ol> | ||
</html> | </html> |
Revision as of 16:26, 26 October 2020
Fox-1 RBD: a protein domain binding strongly and specifically to RNA sequence UGCAUGU.
- 10COMPATIBLE WITH RFC[10]
- 12COMPATIBLE WITH RFC[12]
- 21COMPATIBLE WITH RFC[21]
- 23COMPATIBLE WITH RFC[23]
- 25COMPATIBLE WITH RFC[25]
- 1000COMPATIBLE WITH RFC[1000]
Design Notes
Fox-1 amino acid sequence retrieved from NCBI residues 109–208 following the Literature’s materials and methods [1]. As an N-HisTag from pET-28(a) was used in materials and methods, its amino acid sequence was added in the N-Terminal of Fox-1. The Cry7Ca1 gene was codon-optimized for expression in Escherichia coli using the GenSmartTM Codon Optimization Tool. The forbidden restriction enzymes sites were the following: BioBrick forbidden restriction sites (EcoRI, XbaI, SpeI, PstI) and Type IIS forbidden restriction sites (BsaI, SapI and Bpil). BglBrick prefix (nt 1525-1560) and suffix (nt 2277-2318) from pBbB7a (Addgene #35358) were added to the optimised sequence generated. They were designed to be cloned with Gibson Assembly.
Source
Plasmids used were from BglBrick repository. pBbB7a-GFP was a gift from Jay Keasling (Addgene plasmid # 35358 ; http://n2t.net/addgene:35358 ; RRID:Addgene_35358) [2].
References
- Auweter, S., Fasan, R., Reymond, L., Underwood, J., Black, D., Pitsch, S. and Allain, F., 2020. Molecular Basis Of RNA Recognition By The Human Alternative Splicing Factor Fox-1.
- BglBrick vectors and datasheets: A synthetic biology platform for gene expression. Lee TS, Krupa RA, Zhang F, Hajimorad M, Holtz WJ, Prasad N, Lee SK, Keasling JD. J Biol Eng. 2011 Sep 20;5:12. 10.1186/1754-1611-5-12 PubMed 21933410