# Dataset: Locations of regulatory sequences in the human genome?

I am looking for the positions of annotated regulatory sequences (promoters, enhancers and suppressors) in the human genome.

I looked at Ensembl regulatory Build and PAZAR but I am not used to look for datasets and I failed to find what I was looking for.

Can you help to find annotated regulatory sequences (start and end positions) in the human genome?

• Nice to see you here! Could you clarify what type of regulatory sequences you'd want? All of them? Would you include promoters in that or only things like splicing enhancers/supressors? Jun 16 '17 at 14:40
• Yes, both promoters, enhancers and suppressors (TBH, I did not think of promoter when asking my question but I'd like to consider them as well). Annotation on what type of sequence (promoter, enhancer/supressor) it is would be great. Post edited to add this info. Thanks @terdon Jun 16 '17 at 14:42

This can be done quite easily using Ensebl's BioMart.

1. Choose the Ensembl Regulation database:

2. Select the "Human Regulatory Features" dataset:

3. That's basically it right there, just click on "Results":

4. Export to file and click "Go":

This will download a file called mart_export.txt which looks like this (I chose TSV for tab separated values):

\$ head mart_export.txt
Chromosome/scaffold name    Start (bp)  End (bp)    Feature type
18  76429380    76430144    Open chromatin
8   66405962    66406502    Open chromatin
4   61184401    61184600    CTCF Binding Site
X   40733600    40737000    Promoter
5   97407001    97407200    CTCF Binding Site
X   73946201    73946600    Promoter Flanking Region
15  19948201    19949200    CTCF Binding Site
5   11302601    11303143    Open chromatin
2   208407801   208408000   CTCF Binding Site


As you can see the format is pretty straightforward. The first column has the chromosome or scaffold name (it should always be a chromosome for human), the second and third are the star and end positions and the last field is the type of region.