Most scientific journals require researchers to upload DNA and protein sequences cited in articles to public databases as part of the publication process. The main databases, which collectively form the International Nucleotide Sequence Database Collaboration, are GenBank, administered by the National Centre for Biotechnology Information (NCBI) in the USA (http://www.ncbi.nlm.nih.gov/genbank), the European Molecular Biology Organisation (EMBO) database in Europe (http://www.ebi.ac.uk), and the National DNA Databank of Japan (DDBJ, http://www.ddbj.nig.ac.jp). These databases exchange information daily so it is only necessary to submit the sequence to one database. Once a sequence is submitted it is assigned an accession number, which allows other researchers to find and retrieve the sequence when the journal article is published.
The GenBank submission tool allows you to upload your sequences
directly to GenBank from within Geneious Prime, retaining the annotations and
features that will appear on the GenBank record.
The Genbank submission tool implements BankIT and is thus only designed for simple submissions, such as a single sequence, a simple set of sequences (for example:16S rRNA, matK, ITS/rRNA, amoE, tefB, cytb, or COI sets), or a small batch of different sequences. If you have complex sequences with complicated feature annotations you should use Sequin.
Small genomes, such as chloroplasts, mitochondria, plasmids, phages, and viruses can be submitted through Geneious. However larger genomes (e.g. those requiring Locus_tag or BioProject registration such as bacterial and eukaryotic chromosomes) cannot be submitted through Geneious.
ESTs (expressed sequence tags), STSs (sequence tagged sites), and GSSs (genome survey sequences), High-Throughput Genomic (HTGs) Sequences, Whole Genome Shotgun (WGS) Sequences and Transcriptome Shotgun Assembly (TSA) Sequences also cannot be submitted through Geneious. These need to be submitted using the appropriate channels on the NCBI website.
Raw sequencing reads from next-generation sequencing platforms should be submitted through the Short Read Archive (SRA).
The following data is not accepted by GenBank:
For more information on submission types see the NCBI website.
In this tutorial, you learn how to correctly format your sequences
for submission to GenBank using the GenBank submission tool. This
includes adding the required GenBank meta-data and editing annotations
so they contain the correct properties. You will be guided through two
examples:
Exercise 1: Submission
of a single sequence of a protein-coding gene
Exercise 2: Submission of an alignment of non-coding mtDNA sequences
Please see the Troubleshooting
section at the end of the tutorial for a list of common error messages
that may occur during submission.
If you want to open the tutorial in a different window, click the
new window button .