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  • high percetage of intergenic reads from RNA-SEQ

    We just finished analysis on a RNA-SEQ project, however, we found the exonic reads accounts for only 15% of total reads while intergentic reads almost reached 70%. Very confused. Any thoughts here?

  • #2
    Maybe the sample is contaminated by the genome DNA ?

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    • #3
      Originally posted by CC_seqanswers View Post
      We just finished analysis on a RNA-SEQ project, however, we found the exonic reads accounts for only 15% of total reads while intergentic reads almost reached 70%. Very confused. Any thoughts here?
      We have seen a similar thing with one set of libraries and it was confirmed as carryover DNA contamination.

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      • #4
        I suspected DNA contamination too and thank you for confirming the case!

        Originally posted by protist View Post
        We have seen a similar thing with one set of libraries and it was confirmed as carryover DNA contamination.

        Comment

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