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Old 01-17-2014, 02:18 PM   #1
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Location: Vancouver

Join Date: Jan 2014
Posts: 1
Default Fail in ligation of 5' RNA adapter


I am looking for help with library preparation in MiSeq. I have tried to ligate 5' RNA adapter (33bp) to RNA (22bp) already ligated to 3' DNA adapter (33bp), but it did not show any band at about 88bp. I have tested that the 3' adapter ligation is fine. The concentration of 5' adapter is 5 uM, and my ligation condition is 1h at 20 degree using T4 RNA ligase. I also tried 37 degree and overnight ligation, did not work. This 5' adapter terminates with "U". Will it affect ligation process? Any idea how to solve this problem? Thanks.
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