Contigs to gene

Question

[aswathy.s]

Hi,

I wanted to know How can I get individual complete gene sequences from metagenomics assembled contigs. I have done following steps:

1. metagenomics assembly of a sample using Ray-Meta.
2. ORF prediction doen on all contigs
3. Predicted ORF has used for BLASTX
4. Protein Functional and Organism annotation based top blastx hits. Now I want to get the gene sequences of top hits. For example, I am interested to get a gene sequence corresponding to amylase of Vibrio neptunius, which is the top hit of BLASTX.

Since I have done BLASTX, using the genebank ID I can get the genepept info, see the link below , but not able to get the gene sequence. http://www.ncbi.nlm.nih.gov/protein/WP_045977982

Please answer me if any have some ideas.

Thanks, Aswathi

Answer 1

[Sej Modha]

You could use any methods suggested on this thread.