Difference between revisions of "Part:BBa J23008"

Latest revision as of 15:25, 18 May 2008

[key3c]

Encodes a short RNA sequence that "unlocks" the biobrick part J01122 (lock3) which is locked RFP.

BBa J23008 (key3c) is a derivative of J01129 (key3) with a 3 base pair modification. The purpose of J01129 is to "unlock" the "locked" sequence contained in J01122. When J01122 is transcribed the RNA secondary structure is such that the RBS hairpins with sequence upstream preventing the ribosome from binding and translation from occuring thereby locking up RFP further down stream. With the introduction of J01129 (in trans) the hairpin in J01122 can be destroyed. When J01129 is transcribed the RNA secondary structure is that of a hairpin with linear (uninhibited) sequence downstream of the hairpin. This linear sequence preferentially anneals to the stem of the hairpin opposite the RBS on J01122 which destroys the hairpin and frees the RBS allowing translation of RFP to occur. The region on J01129 that binds to the hairpin of J01122 anneals perfectly except for 3 base pairs which are mismatched. J23007 is exactly J01129 except these three base pairs have been corrected for perfect base pairing.

- - JCA Note: This part does not sequence well due to its heavy secondary structure. You'll most likely only read through half the part and then the read falls off.

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]

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 <b>BBa J23008</b> (key3c) is a derivative of [[Part:BBa J01129|J01129]] (key3) with a 3 base pair modification. The purpose of [[Part:BBa J01129|J01129]] is to "unlock" the "locked" sequence contained in [[Part:BBa J01122|J01122]]. When [[Part:BBa J01122|J01122]] is transcribed the RNA secondary structure is such that the RBS hairpins with sequence upstream preventing the ribosome from binding and translation from occuring thereby locking up RFP further down stream. With the introduction of [[Part:BBa J01129|J01129]] (in trans) the hairpin in [[Part:BBa J01122|J01122]] can be destroyed. When [[Part:BBa J01129|J01129]] is transcribed the RNA secondary structure is that of a hairpin with linear (uninhibited) sequence downstream of the hairpin. This linear sequence preferentially anneals to the stem of the hairpin opposite the RBS on [[Part:BBa J01122|J01122]] which destroys the hairpin and frees the RBS allowing translation of RFP to occur. The region on [[Part:BBa J01129|J01129]] that binds to the hairpin of [[Part:BBa J01122|J01122]] anneals perfectly except for 3 base pairs which are mismatched. [[Part:BBa_J23007|J23007]] is exactly [[Part:BBa J01129|J01129]] except these three base pairs have been corrected for perfect base pairing.
+***JCA Note:  This part does not sequence well due to its heavy secondary structure.  You'll most likely only read through half the part and then the read falls off.
 <!-- Add more about the biology of this part here
 ===Usage and Biology===
-***JCA Note:  This part does not sequence well due to its heavy secondary structure.  You'll most likely only read through half the part and then the read falls off.
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 <span class='h3bb'>Sequence and Features</span>