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low expression gene in RNASeq

How everyone,

I have recently got a RNASeq data. The mRNA level of my target gene is extremely low though the phenotype is very strong. All the change trend is consistent with qRT-PCR test, indicating the analysis pipeline should be fine. The knockdown is achieved through introducing shRNA and no off-target can be found through prediction. I am wondering why my mRNA is so lower for this gene?

It will be really appreciated if anyone can give me any idea!

Many thanks!

rnaseq low expression
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updated by Biostar Biostar • written by shenwei1376 • shenwei1376

I don't get it: you knock-down a gene, it has really low expression, it is in accordance with qRT-PCR, so... what is the problem? What is at odds?

On a related note, we have no idea of how low is "extremely low".

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written by h.mon h.mon

Hello shenwei1376!

We believe that this post does not fit the main topic of this site.

Lacks details, never followed up.

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

If you disagree please tell us why in a reply below, we'll be happy to talk about it.

Cheers!

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written by ATpoint ATpoint

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