Difference between revisions of "Part:BBa K1210001"

Revision as of 00:02, 29 October 2013

PK401 Pseudoknot

Synthetic pseudoknot that induces -1 frameshift during translation. Part has flanking RFC 25 prefix and suffix upstream and downstream.

RFC 25 prefix 5' GAATTCGCGGCCGCTTCTAGATGGCCGGC 3'

RFC 25 suffix 5' ACCGGTTAATACTAGTAGCGGCCGCTGCAG 3'

Assembly with this part should be done using the RFC 25 assembly strategy (which creates the following scar: 5' [part A] ACCGGC [part B] 3'). Assembling using RFC 23 (Silver standard) creates a stop codon in the -1 frame of the scar sequence (5' [part A] ACTAGA [part B] 3').

This part was characterized using a fluorescent protein test construct (BBa_K1210000), and has been shown to have a frameshifting frequency of 21 ± 5%. This reported frameshifting frequency is in agreement with published values (Tholstrup et al., 2011)

Literature Cited

Tholstrup, J., Oddershede, L. B., & Sørensen, M. A. (2011). mRNA pseudoknot structures can act as ribosomal roadblocks. Nucleic acids research, 40(1), 303-313.

Sequence and Features

Assembly Compatibility:

10
COMPATIBLE WITH RFC[10]
12
COMPATIBLE WITH RFC[12]
21
COMPATIBLE WITH RFC[21]
23
COMPATIBLE WITH RFC[23]
25
COMPATIBLE WITH RFC[25]
1000
COMPATIBLE WITH RFC[1000]

@@ Line 9: / Line 9: @@
 Assembly with this part should be done using the RFC 25 assembly strategy (which creates the following scar: 5' [part A] ACCGGC [part B] 3'). Assembling using RFC 23 (Silver standard) creates a stop codon in the -1 frame of the scar sequence (5' [part A] ACTAGA [part B] 3').
+This part was characterized using a fluorescent protein test construct (BBa_K1210000), and has been shown to have a frameshifting frequency of 21 ± 5%. This reported frameshifting frequency is in agreement with published values (Tholstrup ''et al''., 2011)
+'''Literature Cited'''
+Tholstrup, J., Oddershede, L. B., & Sørensen, M. A. (2011). mRNA pseudoknot structures can act as ribosomal roadblocks. ''Nucleic acids research'', 40(1), 303-313.