how I can find the exact position of genes encode polymerases in genomes?

Question

[zizigolu]

hi,

I should locate where in viruses genomes encode for RNA dependent RNA polymerase. in NCBI viral genomes there are more than 1500 genomes. how can I find where in these genomes are genes which code RNA dependent RNA polymerase. first I thought to download 1500 GTF and grep the position of these genes but I thought manually it take hours to download.

A way to extract a list of these gene ids belong to each viral family and their position in the genome

help me please to figure out

thank you

Answer 1

[harold.smith.tarheel]

Have you tried the NCBI Gene database with your search terms?

[zizigolu]

Actually I need the exact position of these genes in for example single stranded RNA virus families

[harold.smith.tarheel]

The site returns the position in the 'Location' field. Here's a typical entry:

Name/Gene ID    Description    **Location**
ID: 911824    RNA-dependent RNA polymerase [Zaire ebolavirus]    **NC_002549.1 (11501..18282)**