BBa_K1461100
1
BBa_K1461100
miR-142-3p target binding site
2014-09-22T11:00:00Z
2015-05-08T01:10:33Z
1.Friedland, A. E., Lu, T. K., Wang, X., Shi, D., Church, G., & Collins, J. J. (2009). Synthetic gene networks that count. science, 324(5931), 1199-1202.
After transcription, this cis-repressor sequence makes intramolecular hybridization with RBS and forms stem-loop stem part of which covers RBS. Therefore, when forming stem-loop, following CDS is not translated.
However, if the cognate RNA which called taRNA(trans-activating RNA,BBa_k1461103) exists, this cognate RNA in turn makes hybridization with cis-repressor sequence ,undoes stem-loop and exposes RBS.
false
false
_1840_
0
16849
9
In stock
false
We designed cis-repressor sequence and taRNA sequence to make free energy of most stable formation of stem-loop < free energy of most stable taRNA-annealed RNA by using viennaRNA package.
false
Shunsuke Sumi
annotation2386997
1
binding
range2386997
1
1
25
BBa_K1461101
1
BBa_K1461101
miR-142-5p target bindng site
2014-09-22T11:00:00Z
2015-05-08T01:10:33Z
1.Rhodius, V. A., Segall‐Shapiro, T. H., Sharon, B. D., Ghodasara, A., Orlova, E., Tabakh, H., ... & Voigt, C. A. (2013). Design of orthogonal genetic switches based on a crosstalk map of σs, anti‐σs, and promoters. Molecular systems biology, 9(1).
This promoter is orthogonal(???orthogonal??? means ???makes almost no crosstalk???) promoter and the cognate sigma factor is ecf20(BBa_k1461104).
false
false
_1840_
0
16849
9
In stock
false
We picked up the most orthogonal promoter from the reference.
false
Shunsuke Sumi
annotation2386998
1
binding
range2386998
1
1
23
BBa_B0010
1
BBa_B0010
T1 from E. coli rrnB
2003-11-19T12:00:00Z
2015-08-31T04:07:20Z
Transcriptional terminator consisting of a 64 bp stem-loop.
false
false
_1_
0
24
7
In stock
false
true
Randy Rettberg
annotation4184
1
stem_loop
range4184
1
12
55
annotation7018
1
BBa_B0010
range7018
1
1
80
BBa_B0034
1
BBa_B0034
RBS (Elowitz 1999) -- defines RBS efficiency
2003-01-31T12:00:00Z
2015-08-31T04:07:20Z
Released HQ 2013
RBS based on Elowitz repressilator.
false
true
_1_
0
24
7
In stock
false
Varies from -6 to +1 region from original sequence to accomodate BioBricks suffix. <p>No secondary structures are formed in the given RBS region. Users should check for secondary structures induced in the RBS by upstream and downstream elements in the +50 to -50 region, as such structures will greatly affect the strength of the RBS.
Contact info for this part: <a href="mailto:(bchow@media.mit.edu)">Brian Chow</a>
true
Vinay S Mahajan, Voichita D. Marinescu, Brian Chow, Alexander D Wissner-Gross and Peter Carr IAP, 2003.
annotation23325
1
conserved
range23325
1
5
8
BBa_B0015
1
BBa_B0015
double terminator (B0010-B0012)
2003-07-16T11:00:00Z
2015-08-31T04:07:20Z
Released HQ 2013
Double terminator consisting of BBa_B0010 and BBa_B0012
false
true
_1_
0
24
7
In stock
false
true
Reshma Shetty
component1916610
1
BBa_B0010
component1916612
1
BBa_B0012
annotation1916610
1
BBa_B0010
range1916610
1
1
80
annotation1916612
1
BBa_B0012
range1916612
1
89
129
BBa_E0040
1
GFP
green fluorescent protein derived from jellyfish Aequeora victoria wild-type GFP (SwissProt: P42212
2004-09-29T11:00:00Z
2016-01-26T02:09:38Z
Released HQ 2013
GFP (mut3b) [note that this part does not have a barcode]
false
true
_11_1_
4206
61
7
In stock
false
true
jcbraff
annotation1934520
1
GFP protein
range1934520
1
1
720
BBa_K1461304
1
BBa_K1461304
RBS-GFP-2miR 142 3p bindng sites-2miR 142 5p bindng sites-d.term
2014-09-25T11:00:00Z
2015-05-08T01:10:34Z
This is used for characterization of translation inhibition by miR-142-3p and 5p in HL60. This contains RBS, GFP, 4 miR-142-3p binding sites, 4 miR-142-3p binding sites and double terminator.
false
false
_1840_
0
16849
9
It's complicated
false
false
Shunsuke Sumi
component2389869
1
BBa_E0040
component2389871
1
BBa_K1461100
component2389867
1
BBa_B0034
component2389875
1
BBa_K1461101
component2389877
1
BBa_K1461101
component2389873
1
BBa_K1461100
component2389884
1
BBa_B0015
annotation2389867
1
BBa_B0034
range2389867
1
1
12
annotation2389875
1
BBa_K1461101
range2389875
1
813
835
annotation2389884
1
BBa_B0015
range2389884
1
875
1003
annotation2389871
1
BBa_K1461100
range2389871
1
747
771
annotation2389877
1
BBa_K1461101
range2389877
1
844
866
annotation2389873
1
BBa_K1461100
range2389873
1
780
804
annotation2389869
1
BBa_E0040
range2389869
1
19
738
BBa_B0012
1
BBa_B0012
TE from coliphageT7
2003-01-31T12:00:00Z
2015-08-31T04:07:20Z
Derived from the TE terminator of T7 bacteriophage between Genes 1.3 and 1.4 <genbank>V01146</genbank>.
Released HQ 2013
Transcription terminator for the <i>E.coli</i> RNA polymerase.
false
false
_1_
0
24
7
In stock
false
<P> <P>Suggested by Sri Kosuri and Drew Endy as a high efficiency terminator. The 5' end cutoff was placed immediately after the TAA stop codon and the 3' end cutoff was placed just prior to the RBS of Gene 1.4 (before AAGGAG).<P> Use anywhere transcription should be stopped when the gene of interest is upstream of this terminator.
false
Reshma Shetty
annotation1690
1
polya
range1690
1
28
41
annotation1686
1
T7 TE
range1686
1
8
27
annotation7020
1
BBa_B0012
range7020
1
1
41
annotation1687
1
stop
range1687
1
34
34
BBa_B0010_sequence
1
ccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctc
BBa_K1461101_sequence
1
gcataaagtagaaagcactactt
BBa_B0034_sequence
1
aaagaggagaaa
BBa_K1461304_sequence
1
aaagaggagaaatactagatgcgtaaaggagaagaacttttcactggagttgtcccaattcttgttgaattagatggtgatgttaatgggcacaaattttctgtcagtggagagggtgaaggtgatgcaacatacggaaaacttacccttaaatttatttgcactactggaaaactacctgttccatggccaacacttgtcactactttcggttatggtgttcaatgctttgcgagatacccagatcatatgaaacagcatgactttttcaagagtgccatgcccgaaggttatgtacaggaaagaactatatttttcaaagatgacgggaactacaagacacgtgctgaagtcaagtttgaaggtgatacccttgttaatagaatcgagttaaaaggtattgattttaaagaagatggaaacattcttggacacaaattggaatacaactataactcacacaatgtatacatcatggcagacaaacaaaagaatggaatcaaagttaacttcaaaattagacacaacattgaagatggaagcgttcaactagcagaccattatcaacaaaatactccaattggcgatggccctgtccttttaccagacaaccattacctgtccacacaatctgccctttcgaaagatcccaacgaaaagagagaccacatggtccttcttgagtttgtaacagctgctgggattacacatggcatggatgaactatacaaataataatactagaggtgtagtgtttcctactttatggattactagaggtgtagtgtttcctactttatggattactagaggcataaagtagaaagcactactttactagaggcataaagtagaaagcactactttactagagccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctctactagagtcacactggctcaccttcgggtgggcctttctgcgtttata
BBa_E0040_sequence
1
atgcgtaaaggagaagaacttttcactggagttgtcccaattcttgttgaattagatggtgatgttaatgggcacaaattttctgtcagtggagagggtgaaggtgatgcaacatacggaaaacttacccttaaatttatttgcactactggaaaactacctgttccatggccaacacttgtcactactttcggttatggtgttcaatgctttgcgagatacccagatcatatgaaacagcatgactttttcaagagtgccatgcccgaaggttatgtacaggaaagaactatatttttcaaagatgacgggaactacaagacacgtgctgaagtcaagtttgaaggtgatacccttgttaatagaatcgagttaaaaggtattgattttaaagaagatggaaacattcttggacacaaattggaatacaactataactcacacaatgtatacatcatggcagacaaacaaaagaatggaatcaaagttaacttcaaaattagacacaacattgaagatggaagcgttcaactagcagaccattatcaacaaaatactccaattggcgatggccctgtccttttaccagacaaccattacctgtccacacaatctgccctttcgaaagatcccaacgaaaagagagaccacatggtccttcttgagtttgtaacagctgctgggattacacatggcatggatgaactatacaaataataa
BBa_K1461100_sequence
1
gtgtagtgtttcctactttatggat
BBa_B0012_sequence
1
tcacactggctcaccttcgggtgggcctttctgcgtttata
BBa_B0015_sequence
1
ccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctctactagagtcacactggctcaccttcgggtgggcctttctgcgtttata
igem2sbol
1
iGEM to SBOL conversion
Conversion of the iGEM parts registry to SBOL2.1
James Alastair McLaughlin
Chris J. Myers
2017-03-06T15:00:00.000Z