Annotate Sequences in Geneious Prime

This annotate sequences series shows how to annotate in Geneious Prime: import or manually create annotations, transfer or copy them between aligned homologous sequences, pull them from a custom nucleotide or protein database, or annotate ORFs, CDS, or mRNA regions using the Annotate by BLAST tool. The series spans five videos, 1 to 6 minutes each.

Transfer Annotations
Annotate from Database

Annotate Sequences

Add annotations by importing GenBank, BED, or GFF files, or creating them manually. Detect annotations automatically using Live Annotate & Predict against reference files, or transfer annotations between aligned sequences.

LENGTH 6 minutes

Transfer Annotations

Transfer annotations from a homologous aligned sequence set as the reference, adjusting the similarity slider for stringency. Always check transferred CDS boundaries manually and correct the start or stop codon position if lengths differ from the source.

LENGTH 3 minutes

Copy Annotations

Copy all annotations, or a single selected one, from one aligned sequence to another using Annotation > Copy to (or Copy all in selected region to) after a pairwise alignment of homologous sequences.

LENGTH 1 minutes

Annotate from Database

Build a reference database of annotated sequences, then use Live Annotate & Predict’s Annotate from option to transfer matching annotations, adjusting the similarity scale and letting CDS ends auto-adjust to in-frame start and stop codons.

LENGTH 6 minutes

Annotate by BLAST

Annotate ORF, CDS, or mRNA regions by BLAST, choosing an amino acid database, a similarity threshold, and optional custom BLAST parameters. Matching hits are back-translated onto your sequence with source and similarity data attached.

LENGTH 2 minutes