Conservation score for selected species
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6.8 years ago

I have certain RNA Binding Protein sites that I have predicted computationally and they are said to be conserved in previous literature. I want to know if there is any track/tool that gives the conservation score or flags the conserved sequence in the specific species (or just mammals).

Conservation • 2.7k views
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The two resources I can think of now:

  1. GERP++ scores: http://mendel.stanford.edu/SidowLab/downloads/gerp/
  2. PhastCons scores from UCSC: Here is a relevant post
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This is very useful information, thanks!

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For GERP score is -0.5334 a somewhat conserved element?

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6.8 years ago

The UCSC Genome Browser carries various conservation tracks. You can manually score your sites against them with BEDOPS, e.g.: A: Average PhastCon score for a bed file

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Thanks again , I will use the bedops code to calculate avg phastcon score using this track.

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