Hi,

I am very new to RNA-Seq and am trying to understand the different metrics per sample from a RNA-Seq. The data has PF_BASES, PF_ALIGNED_BASES, RIBOSOMAL_BASES, CODING_BASES, UTR_BASES, INTRONIC_BASES and INTERGENIC_BASES.

Some questions:

1. Since introns are part of DNA and is not really transcribed into mRNA, how can INTRONIC_BASES be found from RNA-Seq? Same question for INTERGENIC_BASES also.

2. Why is that PF_ALIGNED_BASES is not equal to the sum of RIBOSOMAL_BASES, CODING_BASES, UTR_BASES, INTRONIC_BASES and INTERGENIC_BASES.? Is there an overlap between these bases?

Thanking you in advance..