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transcription factor binding site

hi how to retrieve the sequences of the proximal promoter of the genes from the database of transcriptional start site?

genome
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updated by Denise CS Denise CS • written by bioinfo bioinfo

Which database of transcription start sites are you looking at? Are you looking at single genes or genome-wide? What species is this in? What coding languages do you know?

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written by Emily Emily

I am looking for a set of genes for Homo sapiens in DBTSS (database of transcription start sites).

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written by bioinfo bioinfo

2 answers

This is the URL of their download page. Please note the has not been updated since July 2015. You may want to have a look at the annotation of promoter regions from the Ensembl Regulatory build, which is more updated than DBTSS. If you know Perl you could download the sequence of those promoter regions (check the Ensembl Regulation API tutorial). If you have a couple of genes only, you can download the sequence from the browser itself. See the sequences of all regulatory regions in the HOXB2 gene

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written by Denise CS Denise CS

Release 9.0 Updated (July 9, 2015) Based on UCSC hg38, mm10 Top|

2009 would be old, but the above is the update information from http://dbtss.hgc.jp/

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written by Michael Dondrup Michael Dondrup

Yes, it was a typo of mine. I meant 2015. I will edit my original post.

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written by Denise CS Denise CS

For some genes, i have got the type promoter regions three times and the bp length is different for ex: KRT23. Can you please suggest me!!!

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written by bioinfo bioinfo

i am looking for a set of genes for Homo sapiens.

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written by bioinfo bioinfo

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