Hello,
We would like to submit annotated bacteriophage genomes to NCBI but we have a bit of a hard time to fully understand the process. We already created the bioproject and biosamples and submit the raw data. Last pieces are the genomes with our own annotations.
From what we understood, we need to generate gff3/gtf files and transform them with table2asn to generate sqn files.
Is that correct or is there another way?
And what are the details to be carefull with when generating the sqn file?
Thanks!
Julie
That's it! NCBI needs FastA or sqn files if you want to submit the genome annotation. table2asn is the tool required to generate .sqn file.
table2asn tool may throw errors constantly, you just have to fix one per one. Its specially hard when the annotation is long but is not your case.
Best
Thanks for your answer!
I will need table2asn for the bacteria genomes so I will keep this pipeline in mind :).
For the bacteriophages, I found another practical way (still long on the details check). A paper and NCBI were pointing toward it for phages, it is Bankit portal. So I used it. To submit data, a feature table and a fasta file are needed.
Pls follow the below given links
https://www.ncbi.nlm.nih.gov/genbank/wgs.submit
https://submit.ncbi.nlm.nih.gov/about/genome/
https://www.youtube.com/watch?v=fnpf9PVAS1w
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