Tools from this field

Circular and linear plasmid map inside the project workspace.

Imports GenBank, FASTA, and SBOL, and writes GenBank back out.

Restriction digest for the enzyme library, and the Primer3 / SantaLucia 1998 melting-temperature calculator.

The plasmid editor runs here as the SeqViz map plus the sequence view. The separate Open Vector Editor shell is not mounted.

Melting temperature uses the SantaLucia 1998 formula as implemented for Primer3 conditions in sequence-utils. Pair search runs in the primer bench.

Guide finding scans SpCas9, SaCas9, and AsCas12a PAMs. A spacer can be passed to the map, the primer bench, or assembly.

Codon optimization maximizes Kazusa codon usage and can avoid chosen restriction sites. The result can replace the working sequence.

Translation uses NCBI table 1. Passed sequence results can be aligned with Needleman–Wunsch on the Compare page.

BsaI overhang assembly uses TeselaGen cut coordinates. The product can replace the working sequence or be aligned.

The population bench is a haploid Wright–Fisher model with selection. It reads the same project as the other benches.

The open sequence is shown on the linear map and the SeqViz plasmid view. Indexed genome browsers are not hosted here.