After assembling some reads using Velvet-Oases, I noticed that many occasions, the 5' of a CDS would be missing. Sometimes, its the 3' end that is missing but mostly the 5'. Is this due to the degradation of mRNA before/during the sequencing process?
Seqanswers Leaderboard Ad
Collapse
Announcement
Collapse
No announcement yet.
X
-
We need to know some details about library construction to answer with any certainty. But the issue you are most likely seeing is that the library is the result of the poly A-based isolation of mRNA from total RNA. Because the poly A tail is at the 3' end of the mRNA, any degradation of the RNA sample will cause the 5' end of the message to be lost.
--
Phillip
Latest Articles
Collapse
-
by seqadmin
The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...-
Channel: Articles
04-22-2024, 07:01 AM -
ad_right_rmr
Collapse
News
Collapse
Topics | Statistics | Last Post | ||
---|---|---|---|---|
Started by seqadmin, 05-02-2024, 08:06 AM
|
0 responses
16 views
0 likes
|
Last Post
by seqadmin
05-02-2024, 08:06 AM
|
||
Started by seqadmin, 04-30-2024, 12:17 PM
|
0 responses
20 views
0 likes
|
Last Post
by seqadmin
04-30-2024, 12:17 PM
|
||
Started by seqadmin, 04-29-2024, 10:49 AM
|
0 responses
26 views
0 likes
|
Last Post
by seqadmin
04-29-2024, 10:49 AM
|
||
Started by seqadmin, 04-25-2024, 11:49 AM
|
0 responses
28 views
0 likes
|
Last Post
by seqadmin
04-25-2024, 11:49 AM
|
Comment