How to get simply the sequence between two positions (start-end) in a specific chromosome using Biomart?

Question

[Zakaria Benmounah]

Hi,

I found how to extract the the 3UTR sequence 5UTR sequence using biomart but what I want simply is to extract the whole sequence between two position in a specific chromosome,

Best

Answer 1

[Emily]

BioMart is a tool for getting feature data, such as genes or variants. It is not designed for genome data, such as sequence. The easiest way to get sequence between two points is via the Ensembl REST API sequence region endpoint.

[Zakaria Benmounah]

Many thanks, is there any package to do it with R ?

[Emily]

It's a REST API, you can access it through whatever language you like. Just Google REST and R.