Question: UTR region misassembly ?
gravatar for ascendo.u
6.1 years ago by
United States
ascendo.u10 wrote:

Dear folks,


During my RNA-seq assembly, I found many misassemble or SNP or indel in UTR region.

I used SOAPdenovo-trans, Trinity and others.

They always generated lots of redundancy.

And this redundancy generated from UTR regions even though the gene body have well consensus sequence.

Cause of this UTR difference, I think they generated a lot of redundancy.

Do you have any idea of this happening?

I think the coverage of UTR is lower than gene body.

Please give me some reference.


Thank you.




ADD COMMENTlink modified 6.0 years ago by Biostar ♦♦ 20 • written 6.1 years ago by ascendo.u10

did you visualize your assembly, how does it look like?

may be the case of differential expression of isoforms, but I am not sure.

ADD REPLYlink written 6.0 years ago by Manvendra Singh2.1k
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