Create a feature table for 20,000 contigs

[papori]

Hi,
We were generating 20,000+ set of contigs using Trinity for non-model organism (no genome).

Next, we used blastx of these contigs versus swiss-prot to find homuloges.

Now, we want to publish our contigs plus the blastx results as annotation dataset in genebank.

Is that make sense to create an annotation dataset (for genebank) only from blastx?

Thanks,
Pap

[westerman]

Certainly people have published such annotations before. As for if the reviewers will be satisfied with that level of annotation depends on the journal and what level of detail you wish to provide.

[papori]

Certainly people have published such annotations before. As for if the reviewers will be satisfied with that level of annotation depends on the journal and what level of detail you wish to provide.

Thanks westerman!
Do you know a bout a tool/script which can covert the blastx results to a proper format for submission to genbank?

[GenoMax]

Wondering out aloud, if it makes sense to submit this dataset to HTG (http://www.ncbi.nlm.nih.gov/genbank/htgs) or WGS (http://www.ncbi.nlm.nih.gov/genbank/wgs/? HTG may not available to individuals so WGS may be the only option.

Was trying to think if one could get away without submitting annotations. Not the right application

[papori]

Wondering out aloud, if it makes sense to submit this dataset to HTG (http://www.ncbi.nlm.nih.gov/genbank/htgs) or WGS (http://www.ncbi.nlm.nih.gov/genbank/wgs/)? HTG may not available to individuals so WGS may be the only option.

Thanks GenoMax!
The data is transcriptome, not genome.
So i am not sure this is relevant..