Difference between revisions of "Part:BBa K5492401:Design"
Simonkasara (Talk | contribs) (→Design Notes) |
(→Source) |
||
| (One intermediate revision by one other user not shown) | |||
| Line 9: | Line 9: | ||
Codon optimisation for E.coli: | Codon optimisation for E.coli: | ||
| − | Position Changes | + | Position Changes |
| − | 10 TCC -> TCT | + | 10 TCC -> TCT |
| − | 16 AGG -> CGT | + | 16 AGG -> CGT |
| − | 58 CGG -> CGT | + | 58 CGG -> CGT |
| − | 61 AGG -> CGT | + | 61 AGG -> CGT |
| − | 67 CTC -> CTG | + | 67 CTC -> CTG |
| − | 76 TCC -> TCT | + | 76 TCC -> TCT |
| − | 121 CCA -> CCG | + | 121 CCA -> CCG |
| − | 127 ATA -> ATC | + | 127 ATA -> ATC |
| − | 130 ATA -> ATC | + | 130 ATA -> ATC |
| − | 136 AGG -> CGT | + | 136 AGG -> CGT |
| − | 175 ATA -> ATC | + | 175 ATA -> ATC |
| − | 202 CTT -> CTG | + | 202 CTT -> CTG |
| − | 211 CTC -> CTG | + | 211 CTC -> CTG |
| − | 214 TCC -> TCT | + | 214 TCC -> TCT |
| − | 235 CCA -> CCG | + | 235 CCA -> CCG |
| − | 268 CCA -> CCG | + | 268 CCA -> CCG |
| − | 286 GCC -> GCT | + | 286 GCC -> GCT |
| − | 301 CTT -> CTG | + | 301 CTT -> CTG |
| − | 307 GCC -> GCT | + | 307 GCC -> GCT |
| − | 322 CTC -> CTG | + | 322 CTC -> CTG |
| − | 376 AGA -> CGT | + | 376 AGA -> CGT |
| − | 397 CTT -> CTG | + | 397 CTT -> CTG |
| − | 454 CCA -> CCG | + | 454 CCA -> CCG |
| − | 481 CTC -> CTG | + | 481 CTC -> CTG |
| − | 484 TTA -> CTG | + | 484 TTA -> CTG |
| − | 505 CTC -> CTG | + | 505 CTC -> CTG |
| − | 571 CCC -> CCG | + | 571 CCC -> CCG |
| − | 583 CTC -> CTG | + | 583 CTC -> CTG |
| − | 610 CTC -> CTG | + | 610 CTC -> CTG |
| − | 634 GGG -> GGC | + | 634 GGG -> GGC |
| − | 637 CTT -> CTG | + | 637 CTT -> CTG |
| − | 658 CTT -> CGG | + | 658 CTT -> CGG |
| − | 664 TCC -> TCT | + | 664 TCC -> TCT |
| − | 711 A -> C | + | 711 A -> C |
| − | 715 CTT -> CTG | + | 715 CTT -> CTG |
| − | 754 GCC -> GCT | + | 754 GCC -> GCT |
| − | 763 CCA -> CCG | + | 763 CCA -> CCG |
| − | 766 CCT -> CCG | + | 766 CCT -> CCG |
| − | 772 CTC -> CTG | + | 772 CTC -> CTG |
| − | 775 AGA -> CGT | + | 775 AGA -> CGT |
| − | 784 CTT -> CTG | + | 784 CTT -> CTG |
| − | 787 GGG -> GGC | + | 787 GGG -> GGC |
| − | 805 CCT -> CCG | + | 805 CCT -> CCG |
| − | 829 GGG -> GGC | + | 829 GGG -> GGC |
| − | 838 CTT -> CTG | + | 838 CTT -> CTG |
| − | 862 ATA -> ATC | + | 862 ATA -> ATC |
===Source=== | ===Source=== | ||
| − | https://www.ncbi.nlm.nih.gov/nuccore/AH003685, [https://parts.igem.org/Part:BBa_K5492400 BBa_K5492400] | + | https://www.ncbi.nlm.nih.gov/nuccore/AH003685, [https://parts.igem.org/Part:BBa_K5492400 BBa_K5492400], https://www.genscript.com/gentitan-gene-fragments.html |
===References=== | ===References=== | ||
Latest revision as of 07:03, 2 October 2024
Optimised Human Histamine-N-Methlytransferase - HNMT
Assembly Compatibility:
- 10INCOMPATIBLE WITH RFC[10]Illegal EcoRI site found at 100
- 12INCOMPATIBLE WITH RFC[12]Illegal EcoRI site found at 100
- 21INCOMPATIBLE WITH RFC[21]Illegal EcoRI site found at 100
- 23INCOMPATIBLE WITH RFC[23]Illegal EcoRI site found at 100
- 25INCOMPATIBLE WITH RFC[25]Illegal EcoRI site found at 100
- 1000COMPATIBLE WITH RFC[1000]
Design Notes
Codon optimisation for E.coli:
Position Changes 10 TCC -> TCT 16 AGG -> CGT 58 CGG -> CGT 61 AGG -> CGT 67 CTC -> CTG 76 TCC -> TCT 121 CCA -> CCG 127 ATA -> ATC 130 ATA -> ATC 136 AGG -> CGT 175 ATA -> ATC 202 CTT -> CTG 211 CTC -> CTG 214 TCC -> TCT 235 CCA -> CCG 268 CCA -> CCG 286 GCC -> GCT 301 CTT -> CTG 307 GCC -> GCT 322 CTC -> CTG 376 AGA -> CGT 397 CTT -> CTG 454 CCA -> CCG 481 CTC -> CTG 484 TTA -> CTG 505 CTC -> CTG 571 CCC -> CCG 583 CTC -> CTG 610 CTC -> CTG 634 GGG -> GGC 637 CTT -> CTG 658 CTT -> CGG 664 TCC -> TCT 711 A -> C 715 CTT -> CTG 754 GCC -> GCT 763 CCA -> CCG 766 CCT -> CCG 772 CTC -> CTG 775 AGA -> CGT 784 CTT -> CTG 787 GGG -> GGC 805 CCT -> CCG 829 GGG -> GGC 838 CTT -> CTG 862 ATA -> ATC
Source
https://www.ncbi.nlm.nih.gov/nuccore/AH003685, BBa_K5492400, https://www.genscript.com/gentitan-gene-fragments.html
References
Dong H, Nilsson L, Kurland CG. Co-variation of tRNA abundance and codon usage in Escherichia coli at different growth rates. J Mol Biol. 1996 Aug 2;260(5):649-63. doi: 10.1006/jmbi.1996.0428. PMID: 8709146.
Lipinszki Z, Vernyik V, Farago N, Sari T, Puskas LG, Blattner FR, Posfai G, Gyorfy Z. Enhancing the Translational Capacity of E. coli by Resolving the Codon Bias. ACS Synth Biol. 2018 Nov 16;7(11):2656-2664. doi: 10.1021/acssynbio.8b00332. Epub 2018 Nov 2. PMID: 30351909.