Hi Shubham Bhardwaj

from this site (https://plants.ensembl.org/info/website/ftp/index.html) you'll be able to download all data from what you're searching for.

downloading the CDS you'll see the exome size.

fred

How to count total basepair within that CDS file, it is a very large file not opening in the window? Do I have to use Linux?

Yes, you'll need some command line to do that.

the syntax should be that: awk '/^>/ {if (seqlen){print seqlen}; print ;seqlen=0;next; } { seqlen += length($0)}END{print seqlen}' file.fa

fred

Hi Frederic Lepretre i used this command line in ubuntu and what it gives me, is list of coding sequences and their start and end position. Now in order to find the base pairs, Do I have to minus(subtract) their start and end position for each gene?

Hi Shubham Bhardwaj

the line I'send you should have give you the number of bases by chromosome.

but since you van all positions of all genes, it should be easy to extract length by gene and get the total CDS length. just redirect the results in a file instead of having them on screen.

fred