Could you suggest me which all databases represent the promoter region on a gene sequence. I want to represent promoter region on Glucokinase gene. Please help me in this regard.
Could you suggest me which all databases represent the promoter region on a gene sequence. I want to represent promoter region on Glucokinase gene. Please help me in this regard.
Assuming that you are interested in eukaryotes - probably humans - I'd start with the top hit from a Google search, which is the Eukaryotic Promoter Database.
Please provide more details (e.g. organism) if that's not what you want.
Maybe http://doop.abc.hu. Not really up-to-date, but contains chordate and plant promoter collections. I am (was) responsible for it.
Try the list of solutions and resources on Max Hauessler's Tregwiki on OpenWetWare
You also need to look at what is being done with the VISTA project at Lawrence Berkeley Labs. The goal of VISTA is to identify distant-acting transcriptional enhancers in the human genome by coupling the identification of evolutionary conserved noncoding sequences with a moderate throughput mouse transgenesis enhancer assay.
Be sure to also explore the ENCODE data, in the regulation section, for several TFBS data sets that have new and interesting stuff. It is found in the UCSC Genome Browser, mostly on the human Mar 2006 assembly right now. I just saw the first mouse stuff come in, but it's pretty limited right now.
I second the VISTA suggestion as well. Their Enhancer Browser is a very neat project.
Hi
i suggest you try Genomatix, it is very interesting database and also tools for promoter analysis. you can retrive promoter region, too. but at first you have to register by a academic email after that you can use it free for one week. i really suggest you see this site.
regards
I read you answer fully and this is why I commented. Repeatedly using a free trial license does not a make a resource "freely available" (i.e. open access) and may in fact violate the terms of the license. I wouldn't recommend that any researcher use a multiple free trial offers if they intend to publish with the data/results procured in this manner.
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Which organism? Eukaryote or prokaryote?