Extract CDS from an extracted gene without bioperl

Question

[adeena_hassan]

HI everyone

I have extracted genes from whole genome using bedtools getfasta command and now I want to get CDS of each gene by using any tool, because every script (which are given in different biostar posts) I tried have some bugs and as I'm beginner in bioinformatics I can't handle or edit those scripts properly,, I have fna and gff files of 100 genomes and I have extracted 2 genes from each and now I want to extract CDS kindly help me how to do so I have short time for this task.. :(

Edit: I have find emboss tool but it requires genbank files as input and I don't know how to extract single gene from genbank whole genome file without bioperl or python

Answer 1

[Ben]

Now you have obtained the CDS of genes, then you just convert cDNA to RNA，