Question: Is it possible to get genes' promoters' sequences with RNA-seq data?
0
gravatar for hodatn
2.2 years ago by
hodatn0
hodatn0 wrote:

Hi Friends, I have a DEGs list of one medicinal plant which does not have the whole genome sequences.(just has RNA-seq data) I found the TFs but because the whole genome sequence is not available :

Is it possible to find TFBS's sequences from RNA seq data and DEGs list?and how? Is there any database or software to find gene promoter sequences?

Thank you

tfs rna-seq promoter sequence • 1.2k views
ADD COMMENTlink modified 2.2 years ago by shoujun.gu370 • written 2.2 years ago by hodatn0
0
gravatar for shoujun.gu
2.2 years ago by
shoujun.gu370
Rockville/MD
shoujun.gu370 wrote:

How do you get the DEGs list?

ADD COMMENTlink written 2.2 years ago by shoujun.gu370

The deferentially expressed genes(DEGs) was determined with a log-fold expression change(logFC) 2.

ADD REPLYlink written 2.2 years ago by hodatn0

i mean without knowing the sequence, how do you align your reads and get the counts?

ADD REPLYlink written 2.2 years ago by shoujun.gu370
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