Entering edit mode
3.7 years ago
zion22
▴
70
Hi, sorry to bother you, I have a query and I already checked the post history on biostars and I really couldn't find what I was looking for. Does anyone know of a simple, up-to-date way to download nucleotide sequences from the GI number list? I have a list of specific GI numbers but can't find an efficient way to download in fasta file in ncbi portal. Thank you and I appreciate your attention.
Hi, thank you very much, I have another question, how can I download specific genes from a genome? I explain you, if I have the following genome CP024842.1 and I want to download the 16s, efl, lux genes from that genome, how would command line be? Thanks again
Only if these genes are annotated in the genome assembly. I don't see
efl
orlux
in the protein table for this organism.yes, i know, it was only an example, ej. for qseC, acnA and 16s genes. how would command line be?
You can get start stops and then download the sequence using a command like following:
this will generate (truncated)
Unfortunately this gene has not been annotated in your genome of interest