Question: Hg19 Promoters .Bed File
4
gravatar for Jneary1978
9.7 years ago by
Jneary197860
San Antonio
Jneary197860 wrote:

Is there already a pre-defined downloadable list of all predicted promoters in the human genome? Preferably a .bed file? I'm not having a lot of luck finding anything.

If not, can you suggest resources to obtain this info?

Thanks!

bed promoter hg • 7.1k views
ADD COMMENTlink modified 9.7 years ago by Casey Bergman18k • written 9.7 years ago by Jneary197860
2
gravatar for Casey Bergman
9.7 years ago by
Casey Bergman18k
Athens, GA, USA
Casey Bergman18k wrote:

If you define X kb upstream of a gene to be a promoter, you can get this using the UCSC table browser as follows:

ADD COMMENTlink modified 23 months ago by Kevin Blighe69k • written 9.7 years ago by Casey Bergman18k
1

There's also the Ensembl annotation data - this contains more information on transcripts and exon boundaries too.

But to my knowledge, there's no definitive definition of promoter X being 2kb in length, and promoter Y being 1.5kb. We just have to make a judgment on what's an appropriate size.

ADD REPLYlink modified 16 months ago by _r_am32k • written 9.7 years ago by Rob140

Thank you much!

ADD REPLYlink written 9.7 years ago by Jneary197860
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