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  • 3'utr

    Hi,

    Where can I find the 3'UTR sequences of all the genes of the human ?

    Thanks a lot,

    N.

  • #2
    try this: UCSC table browser, human genome, refseq/ensembl/ucsc annotation track, select "BED" output format and after clicking on "get output" click on 3'UTR.

    Comment


    • #3
      Hi,
      you can also try and use Ensembl and BioMart:

      or http://www.biomart.org/

      In brief,
      first select "Ensembl genes 60" as your database and then Homo Sapiens as your organism.
      Second, since you are trying to export a lot of data it is better to export them chromosome by chromosome. Just select Filters (top left), then "Region" and the chromosome you want.
      Third, under "Attributes" (top left) select "Sequences", click "+" to open the sequences available and select "3'UTR".
      Then click "Results" and export to compressed file.

      BioMart is handy for any batch queries and you can find more about BioMart here:


      Ensembl helpdesk

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      • #4
        Originally posted by NicoBxl View Post
        Where can I find the 3'UTR sequences of all the genes of the human ?
        Try http://utrdb.ba.itb.cnr.it/ :: Download :: Flat file :: HUMAN :: 3'UTR

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        • #5
          Originally posted by NicoBxl View Post
          Where can I find the 3'UTR sequences of all the genes of the human ?
          At the end of the genes, after the stop codon.

          Comment


          • #6
            Originally posted by steven View Post
            At the end of the genes, after the stop codon.
            Sorry, i couldn't help it.
            Anyway, you should be fine with the previous answers -let me know otherwise.

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            • #7
              Originally posted by steven View Post
              At the end of the genes, after the stop codon.
              lol... I think you can also use BioMart to get these.
              Homepage: Dan Bolser
              MetaBase the database of biological databases.

              Comment

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