Part 1: Benchling & In-silico Gel Art

1. Initial setup - Benchling download and setup, NEB Lambda sequence import and visualization in Benchling Online Lab Suite.

Step 1 - Creation of personal Benchling Account.

Step 2 - Finding of Lambda sequence on NEB.

According to NEB website, “Lamba double strand vector is isolated from bacteriophage lambda (cI857ind 1 Sam 7)”. Lambda DNA is reported on NEB website to be “48,502 base pairs in length”

Step 3 - Identification of Lambda Fasta sequence

… continues to 48502 base pairs overall final length.

Step 4 - Download and loading of FASTA sequence onto Benchling

Once generated the file “Lambda restriction digestion pattern”, the FASTA sequence was downloaded and saved to a local directory as a txt file from NEB Biosciences. It was then uploaded via the Create DNA/RNA sequence feature in Benchling and imported as a project.

Step 5 - Visualization of FASTA Sequence with restriction digestion sites

Part 2: Restriction Digestion Simulation on Benchling

Step 1 - EcoRI Restriction Digestion

After selecting the scissors icon, the EcoRI is selected and digestion is applied to the Lambda sequence

EcoRI restriction digestion is performed, leading to the following restriction digestion fragments: