Is there a full transcriptome available for Orbicella franksi? If not, can you map RNAseq data from O franksi to O. annularis or O. faveolata?

28 November 2017 1 3K Report

I am looking for a reference transcriptome for Orbicella franksi.

If this is not available can one map RNAseq reads to a sister species' transcriptome i.e. O. annularis or O faveolata?

It might be better to do de novo assemble to to get transcriptome, map your RNAseq reads to your transcriptome, and then blast your transcriptome to close relative's genome.

Not sure what will happen if you map your reads to sister species, you might get lots of your read mis-matched or unmatched. You can ask suggestions from Dr. Corbin Jones.

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