To include feature and annotation information with your submission, you must first annotate your features by creating sequence annotations in Geneious.

Note: If you are building your submission directly from sequence assemblies, only sequence annotations on your consensus sequences will be included in your submission. Any annotations on the reads will be ignored.

To create a sequence annotation, first select the region, or regions of your sequences that you wish to annotate. To annotate multiple sequences at once, just select a rectangular region covering two or more sequences (see below)

Click the Add Annotation button in the toolbar to bring up the annotation dialog. Coose an annotation name and type, then add qualifiers to your annotation by clicking the Add button in the qualifiers section near the top of the dialog. For a list of valid annotation types and qualifiers, please see http://www.ncbi.nlm.nih.gov/projects/collab/FT/index.html#7.2

If you are submitting a gene to Genbank, you need to annotate the gene region (and also the CDS region if your gene is coding)

Your Gene and CDS annotations must have at least the following qualifiers:

Gene Annotations:

• A gene qualifier e.g. gene : COI

CDS Annotations:

• A transl_table qualifier, representing the genetic code used in translation (taken from The NCBI Genetic Codes Definition) e.g. transl_table : 5
• A codon_start qualifier, representing the frame of the translation from 1 to 3 e.g. codon_start : 3
• A product qualifier, describing the protein name. Please see Genbank for information about appropriate protein names. e.g. product : cytochrome b

If your sequence represents a partial gene (or other region of interest), you can indicate that your annotaiton represents a partial feature by giving it truncated ends. Select your annotation's interval, and click Edit. You will be able to set both the left and right ends of the annotation as truncated.