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  • simonandrews
    replied
    Originally posted by NicoBxl View Post
    Ok for biomart,

    But I do not see where is the option for the promoter attribute ?
    If you skip the filtering step all together (so you get information on all genes), and then select "Attributes". From there you can select "Sequences" from the radio button at the top, you can then select "Flank (Transcript)", and then you can specify how far back from the TSS you want your promoter sequence to extend.

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  • NicoBxl
    replied
    Ok for biomart,

    But I do not see where is the option for the promoter attribute ?

    Leave a comment:


  • simonandrews
    replied
    Just to add to the list - I'd normally use BioMart to extract this kind of data.

    http://www.ensembl.org/biomart/martview/

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  • ttnguyen
    replied
    Galaxy should be another option. You can get data from various servers.
    http://main.g2.bx.psu.edu/

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  • mobdjek
    replied
    Hi Nico

    Try http://rsat.ulb.ac.be/rsat/, alot of differenet tools there.
    I think there is a tool called something like "retrieve ensembl seq." where you can define the regions you wish to retrieve. Also Bos Taurus


    All the best
    Morten

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  • NicoBxl
    started a topic Promoter sequence

    Promoter sequence

    Hi,

    Where can I find the promoter sequence of all the gene of an organism (in this case Bos Taurus) ?

    Thanks,

    N.
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