Hi, I have a list of thousands regulatory features from the Ensembl Regulatory Build and I want to associate each one to a gene or transcript from the ensembl gene annotation. I looked in the "feature context" in ensembl web page and I could see the ensembl gene associated to a specific regulatory feature, e.g. ENSR00000297462 to ENSG00000057704, I want to do this but in a much larger scale. I've searched a lot here in Biostars and in the ensembl help web page and I can't find any solution. The annotation has CTCF bindings, open chromatin sites and enhancers so I think in these cases that's not possible but for promoters (proximal promoters) it can be done.
GeneCards has an annotation for enhancers called Genehancer which match a group of genes with a enhancer location, I downloaded the data but they have its own IDs and I don't know how to translate those into ensembl ENSR IDs. I hope if this is possible. Thank you very much for your help.