BBa_K1461310 1 BBa_K1461310 pCMV-RBS-GFP-2 miR 142 3p bindgin sites-2 miR 142 5p binding site-d.term 2014-09-25T11:00:00Z 2015-05-08T01:10:34Z This is a GFP generator. This generator is used for characterization of translation inhibition by miR-142-5p in HL60. This contains pCMV, RBS, GFP, 2 miR-142-3p binding sites, 2 miR-142-5p binding sites and double terminator. false false _1840_ 0 16849 9 It's complicated false false Shunsuke Sumi component2390015 1 BBa_K747096 component2390035 1 BBa_K1461304 annotation2390035 1 BBa_K1461304 range2390035 1 589 1591 annotation2390015 1 BBa_K747096 range2390015 1 1 580 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 component2389875 1 BBa_K1461101 component2389867 1 BBa_B0034 component2389869 1 BBa_E0040 component2389871 1 BBa_K1461100 component2389873 1 BBa_K1461100 component2389884 1 BBa_B0015 component2389877 1 BBa_K1461101 annotation2389877 1 BBa_K1461101 range2389877 1 844 866 annotation2389873 1 BBa_K1461100 range2389873 1 780 804 annotation2389871 1 BBa_K1461100 range2389871 1 747 771 annotation2389875 1 BBa_K1461101 range2389875 1 813 835 annotation2389884 1 BBa_B0015 range2389884 1 875 1003 annotation2389869 1 BBa_E0040 range2389869 1 19 738 annotation2389867 1 BBa_B0034 range2389867 1 1 12 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_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 annotation7020 1 BBa_B0012 range7020 1 1 41 annotation1687 1 stop range1687 1 34 34 annotation1690 1 polya range1690 1 28 41 annotation1686 1 T7 TE range1686 1 8 27 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 component1916612 1 BBa_B0012 component1916610 1 BBa_B0010 annotation1916612 1 BBa_B0012 range1916612 1 89 129 annotation1916610 1 BBa_B0010 range1916610 1 1 80 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_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_K747096 1 BBa_K747096 CMV-promoter 2012-09-25T11:00:00Z 2015-05-08T01:13:11Z not sure Released HQ 2013 follows false false _998_ 0 13224 9 In stock false c false Lucas Schneider annotation2199147 1 CMV range2199147 1 1 580 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&#8208;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 &#963;s, anti&#8208;&#963;s, 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_B0010_sequence 1 ccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctc BBa_K747096_sequence 1 atagtaatcaattacggggtcattagttcatagcccatatatggagttccgcgttacataacttacggtaaatggcccgcctggctgaccgcccaacgacccccgcccattgacgtcaataatgacgtatgttcccatagtaacgccaatagggactttccattgacgtcaatgggtggagtatttacggtaaactgcccacttggcagtacatcaagtgtatcatatgccaagtacgccccctattgacgtcaatgacggtaaatggcccgcctggcattatgcccagtacatgaccttatgggactttcctacttggcagtacatctacgtattagtcatcgctattaccatggtgatgcggttttggcagtacatcaatgggcgtggatagcggtttgactcacggggatttccaagtctccaccccattgacgtcaatgggagtttgttttggcaccaaaatcaacgggactttccaaaatgtcgtaacaactccgccccattgacgcaaatgggcggtaggcgtgtacggtgggaggtctatataagcagagctggtttagtgaaccgtcagatc BBa_K1461101_sequence 1 gcataaagtagaaagcactactt BBa_B0034_sequence 1 aaagaggagaaa BBa_K1461304_sequence 1 aaagaggagaaatactagatgcgtaaaggagaagaacttttcactggagttgtcccaattcttgttgaattagatggtgatgttaatgggcacaaattttctgtcagtggagagggtgaaggtgatgcaacatacggaaaacttacccttaaatttatttgcactactggaaaactacctgttccatggccaacacttgtcactactttcggttatggtgttcaatgctttgcgagatacccagatcatatgaaacagcatgactttttcaagagtgccatgcccgaaggttatgtacaggaaagaactatatttttcaaagatgacgggaactacaagacacgtgctgaagtcaagtttgaaggtgatacccttgttaatagaatcgagttaaaaggtattgattttaaagaagatggaaacattcttggacacaaattggaatacaactataactcacacaatgtatacatcatggcagacaaacaaaagaatggaatcaaagttaacttcaaaattagacacaacattgaagatggaagcgttcaactagcagaccattatcaacaaaatactccaattggcgatggccctgtccttttaccagacaaccattacctgtccacacaatctgccctttcgaaagatcccaacgaaaagagagaccacatggtccttcttgagtttgtaacagctgctgggattacacatggcatggatgaactatacaaataataatactagaggtgtagtgtttcctactttatggattactagaggtgtagtgtttcctactttatggattactagaggcataaagtagaaagcactactttactagaggcataaagtagaaagcactactttactagagccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctctactagagtcacactggctcaccttcgggtgggcctttctgcgtttata BBa_E0040_sequence 1 atgcgtaaaggagaagaacttttcactggagttgtcccaattcttgttgaattagatggtgatgttaatgggcacaaattttctgtcagtggagagggtgaaggtgatgcaacatacggaaaacttacccttaaatttatttgcactactggaaaactacctgttccatggccaacacttgtcactactttcggttatggtgttcaatgctttgcgagatacccagatcatatgaaacagcatgactttttcaagagtgccatgcccgaaggttatgtacaggaaagaactatatttttcaaagatgacgggaactacaagacacgtgctgaagtcaagtttgaaggtgatacccttgttaatagaatcgagttaaaaggtattgattttaaagaagatggaaacattcttggacacaaattggaatacaactataactcacacaatgtatacatcatggcagacaaacaaaagaatggaatcaaagttaacttcaaaattagacacaacattgaagatggaagcgttcaactagcagaccattatcaacaaaatactccaattggcgatggccctgtccttttaccagacaaccattacctgtccacacaatctgccctttcgaaagatcccaacgaaaagagagaccacatggtccttcttgagtttgtaacagctgctgggattacacatggcatggatgaactatacaaataataa BBa_K1461310_sequence 1 atagtaatcaattacggggtcattagttcatagcccatatatggagttccgcgttacataacttacggtaaatggcccgcctggctgaccgcccaacgacccccgcccattgacgtcaataatgacgtatgttcccatagtaacgccaatagggactttccattgacgtcaatgggtggagtatttacggtaaactgcccacttggcagtacatcaagtgtatcatatgccaagtacgccccctattgacgtcaatgacggtaaatggcccgcctggcattatgcccagtacatgaccttatgggactttcctacttggcagtacatctacgtattagtcatcgctattaccatggtgatgcggttttggcagtacatcaatgggcgtggatagcggtttgactcacggggatttccaagtctccaccccattgacgtcaatgggagtttgttttggcaccaaaatcaacgggactttccaaaatgtcgtaacaactccgccccattgacgcaaatgggcggtaggcgtgtacggtgggaggtctatataagcagagctggtttagtgaaccgtcagatctactagagaaagaggagaaatactagatgcgtaaaggagaagaacttttcactggagttgtcccaattcttgttgaattagatggtgatgttaatgggcacaaattttctgtcagtggagagggtgaaggtgatgcaacatacggaaaacttacccttaaatttatttgcactactggaaaactacctgttccatggccaacacttgtcactactttcggttatggtgttcaatgctttgcgagatacccagatcatatgaaacagcatgactttttcaagagtgccatgcccgaaggttatgtacaggaaagaactatatttttcaaagatgacgggaactacaagacacgtgctgaagtcaagtttgaaggtgatacccttgttaatagaatcgagttaaaaggtattgattttaaagaagatggaaacattcttggacacaaattggaatacaactataactcacacaatgtatacatcatggcagacaaacaaaagaatggaatcaaagttaacttcaaaattagacacaacattgaagatggaagcgttcaactagcagaccattatcaacaaaatactccaattggcgatggccctgtccttttaccagacaaccattacctgtccacacaatctgccctttcgaaagatcccaacgaaaagagagaccacatggtccttcttgagtttgtaacagctgctgggattacacatggcatggatgaactatacaaataataatactagaggtgtagtgtttcctactttatggattactagaggtgtagtgtttcctactttatggattactagaggcataaagtagaaagcactactttactagaggcataaagtagaaagcactactttactagagccaggcatcaaataaaacgaaaggctcagtcgaaagactgggcctttcgttttatctgttgtttgtcggtgaacgctctctactagagtcacactggctcaccttcgggtgggcctttctgcgtttata 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 Chris J. Myers James Alastair McLaughlin 2017-03-06T15:00:00.000Z