Difference between revisions of "Part:BBa K1017404"

Revision as of 02:30, 25 September 2013

sRNA-2

We all know that sRNA is an important role on gene regulation. It will interact with the targeted mRNA by imperfect base pairing, reducing the translation efficiency and recruiting chaperones such as Hfq for translation termination. Since we choose sRNA to be part of our regulation-system, we need to prevent the sRNA from effecting undesired genes, so it is necessarily to design artificial sRNA that targets specifically to the desired genes.

We first picked the sRNA from a library of artificial sRNA that was constructed by fusing a randomized antisense domain of Spot42, the scaffold that is known to recruit the RNA chaperons. As we want the sRNA we picked can specifically complementary to the SD sequence which in our designed RBS, we picked the one which contains a consensus sequence, 5’-CCCUC-3’. Our artificial sRNA also has three stem-loop double stranded RNA structures, and the loop closest to the 3’ terminus is complementary to a sequence preceding the initiation codon of mRNA, so that it can prevent the ribosome from binding to the initiation condon, so the translation would be repressed.

Sequence and Features

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
COMPATIBLE WITH RFC[12]
21
INCOMPATIBLE WITH RFC[21]
Illegal XhoI site found at 3
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
COMPATIBLE WITH RFC[1000]

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 <partinfo>BBa_K1017404 short</partinfo>
-A DNA sequence whose product is a small RNA, which can bind on the complement sequence of itself.
+We all know that sRNA is an important role on gene regulation. It will interact with the targeted mRNA by imperfect base pairing, reducing the translation efficiency and recruiting chaperones such as Hfq for translation termination. Since we choose sRNA to be part of our regulation-system, we need to prevent the sRNA from effecting undesired genes, so it is necessarily to design artificial sRNA that targets specifically to the desired genes.
+We first picked the sRNA from a library of artificial sRNA that was constructed by fusing a randomized antisense domain of Spot42, the scaffold that is known to recruit the RNA chaperons. As we want the sRNA we picked can specifically complementary to the SD sequence which in our designed RBS, we picked the one which contains a consensus sequence, 5’-CCCUC-3’. Our artificial sRNA also has three stem-loop double stranded RNA structures, and the loop closest to the 3’ terminus is complementary to a sequence preceding the initiation codon of mRNA, so that it can prevent the ribosome from binding to the initiation condon, so the translation would be repressed.
-The sRNA will target the mRNA by direct and specific base-pairing , and lower the translation efficiency.  Then, it will turn into a shape like hairpin, and recruit chaperones such as Hfq to prevent the sRNA-mRNA combination from degrading.
 [[File:NCTU sRNA-2 structure predict.png|center]]