Molecular Biology | Benchling Help Center

How does Benchling Calculate Molecular Weight?

Listed below are Amino Acid Weights used in Benchling's Molecular Biology Suite

Written by Nima Jelveh
Updated over a week ago

Getting Started

Import sequences

Import DNA sequences from public databases or from your computer.

Written by Vineet Gopal
Updated over a week ago

Plasmid Editor basics

Learn how to view and edit sequences, display ORFs, search for DNA strings, create translations, and change sequence topology.

Written by Somak Das
Updated over a week ago

Molecular biology tools FAQ

Answer common FAQ on topics such as Tm calculations, custom ladders, colors of annotations, methylation, overhangs and topology.

Written by Lauren Shields
Updated over a week ago

Use parts to design modular sequences

Nest one sequence within another sequence

Written by Saif Hakim
Updated over a week ago

Send your sequence to NCBI BLAST

Use Benchling to send your sequence to NCBI BLAST

Written by Henry Holbrook
Updated over a week ago

Annotations

Create and edit annotations

Learn how to create and edit annotations on DNA or amino acid sequences

Written by Lauren Shields
Updated over a week ago

Create a feature library for auto-annotation

Learn how to create an annotation/DNA feature library

Written by Vineet Gopal
Updated over a week ago

Auto-annotate sequences

Learn how to annotate your sequences automatically using an annotation library.

Written by Lauren Shields
Updated over a week ago

Annotate sequences in bulk

A powerful way to annotate multiple sequences using your feature libraries.

Written by Vineet Gopal
Updated over a week ago

Restriction Enzymes and Digests

Create lists of restriction enzymes

Create your own enzyme lists that represent the enzymes in your lab’s inventory, and share enzyme lists with your entire organization.

Written by Nishant Neel
Updated over a week ago

Find restriction enzyme cut sites

Search for enzymes and visualize them on your sequence maps.

Written by Nishant Neel
Updated over a week ago

Simulate a digest

Create a virtual digest in Benchling.

Written by Nishant Neel
Updated over a week ago

Restriction enzymes FAQ

Answers to common questions on restriction enzymes, such as visualizing high fidelity enzymes.

Written by Lauren Shields
Updated over a week ago

Primers

Import primers

Use Benchling to quickly import existing primer databases and share those primers with the lab.

Written by Nishant Neel
Updated over a week ago

Export primers

How to export all primers/oligos attached to a sequence or within a folder

Written by Nishant Neel
Updated over a week ago

Attach saved primers

Find and attach saved primers to sequences.

Written by Nishant Neel
Updated over a week ago

Design Primers Manually

Design single or paired primers and verify your primers by checking secondary structures, melting temperature (Tm), and GC content.

Written by Nishant Neel
Updated over a week ago

Design primers with the primer wizard

Learn how to design primers directly on a sequence using the primer wizard

Written by Vineet Gopal
Updated over a week ago

Run PCR in silico

Learn how to run a PCR reaction, see your PCR product and create a virtual digest on Benchling.

Written by Lauren Shields
Updated over a week ago

Primers FAQ

Answer common questions on primers, such as deleting, detaching and viewing primers

Written by Lauren Shields
Updated over a week ago

Protein Analysis

Protein Tool Basics

Easily import, align, analyze, and export your protein sequences.

Written by Alan Pierce
Updated over a week ago

Create Protein Translations

Create a protein translation directly on top of a DNA sequence

Written by Lauren Shields
Updated over a week ago

Protein analysis and FAQ

Learn the calculations behind our protein biochemical analyses and other FAQ on proteins, including the meaning of amino acid colors.

Written by Lauren Shields
Updated over a week ago

Alignments

Upload trace (.ab1) files

Learn how to upload and view .ab1 files on Benchling

Written by Lauren Shields
Updated over a week ago

Align to a template

Learn how to align a sequence to a template

Written by Lauren Shields
Updated over a week ago

Create a consensus alignment

Learn how to create a consensus alignment.

Written by Lauren Shields
Updated over a week ago

Alignments FAQ

Common questions on alignments, including where to find previous alignments, alignment multiple sequences and re-aligning after trimming.

Written by Lauren Shields
Updated over a week ago

Cloning and the Assembly Wizard

Clone by copy and paste

Perform digest and ligate assemblies by a simple copy and paste method.

Written by Nishant Neel
Updated over a week ago

Clone using the Digest/Ligate assembly wizard

Learn how to do a digest/ligate assembly on Benchling using our Assembly Wizard.

Written by Lauren Shields
Updated over a week ago

Clone using the Gibson assembly wizard

Learn how to do Gibson Assembly on Benchling using the assembly wizard

Written by Lauren Shields
Updated over a week ago

Gibson assembly FAQ

Search here for FAQ on Gibson assembly, such as maintaining restriction sites and overhang exonuclease removal.

Written by Lauren Shields
Updated over a week ago

Clone using the Golden Gate assembly wizard

Learn how to do golden gate cloning using our Assembly Wizard

Written by Lauren Shields
Updated over a week ago