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  • help for genome annotation

    Hi,

    I have an assembled genome sequence of a non-model species. Could anyone tell me which is the best way to annotate this?

  • #2
    To start with:
    - Gene modelling software to identify open-reading frames
    - BLAST comparison to closely related genome databases. Transcriptome, exome or protein information will likely give you putative functional information
    - BLAST to repetitive element databases like TREP, repbase etc to annotate transposable elements

    Have a browse of the SeqWiki (http://seqanswers.com/wiki/Special:BrowseData) for software to do each. You'll need to research the best option for your particular organism whether it be a plant, animal, fungi etc.

    Comment


    • #3
      Originally posted by jimmybee View Post
      To start with:
      - Gene modelling software to identify open-reading frames
      - BLAST comparison to closely related genome databases. Transcriptome, exome or protein information will likely give you putative functional information
      - BLAST to repetitive element databases like TREP, repbase etc to annotate transposable elements

      Have a browse of the SeqWiki (http://seqanswers.com/wiki/Special:BrowseData) for software to do each. You'll need to research the best option for your particular organism whether it be a plant, animal, fungi etc.
      Thanks for your kindly reply~~

      Comment

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