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Tried doing a Blast search for a PPO gene in an advocado genome: https://www.ncbi.nlm.nih.gov/blast/Blast.cgi?PAGE_TYPE=BlastSearch&PROG_DEFAULTS=on&BLAST_SPEC=OGP__3435__73885&DATABASE=GPIPE/3435/current

However there are no matches, which may be because it is a different species with a slightly different sequence? The genome I am searching is known to contain PPO.

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  • $\begingroup$ Once again, RTFM! $\endgroup$
    – David
    Commented Jun 12, 2018 at 19:14

1 Answer 1

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As stated in the comments here, there is no complete genome sequence for avocado as of yet, though people appear to be working on it.

However, there are a large number of ESTs and doing a BLAST of their translations with the tomato PPO sequence (tblastn) gives some hits.

Here is a link to that BLAST.


However there are no matches, which may be because it is a different species with a slightly different sequence?

This is precisely the problem that BLAST was designed to solve.

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  • $\begingroup$ how did you get that link to share your BLAST search? $\endgroup$
    – Dale
    Commented Jun 11, 2018 at 19:18
  • $\begingroup$ @Dale There is a link on the page, near the top right, called "Bookmark". $\endgroup$
    – canadianer
    Commented Jun 11, 2018 at 19:19

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