BBa_K1039015 1 BBa_K1039015 Inverted GFP 2013-09-12T11:00:00Z 2015-05-08T01:08:50Z This sequenced was synthesized by BioBasic Inc. This is a gfp sequence with the ORF identical to the sequence of (BBa_E0040), but it is oriented opposite to the BioBrick convention. That is, it is read from suffix to prefix, and the coding strand is the opposite strand compared to most BioBricks. This can be expressed from a similarly ???inverted??? promoter. This can be used with invertible promoter switches, such as BBa_K1039008, BBa_K1039009, BBa_K1039001 and BBa_K1039002 which require the genes on either side of the switch to have opposite coding strands. false false _1346_ 0 18339 9 In stock false The coding sequence is read from suffix to prefix, rather than prefix to suffix. false Jama Hagi-Yusuf BBa_K093005 1 RBS-RFP RFP with RBS 2008-10-27T12:00:00Z 2015-05-08T01:08:40Z registry plasmids Released HQ 2013 RFP, BBa_E1010, with Elowitz RBS, BBa_B0034. false false _247_ 0 3630 9 In stock false The part was needed for downstream applications. There can be no expression of a reporter without a ribosome binding site. true Kathy Lam, Danielle Nash component2244025 1 BBa_E1010 component2244022 1 BBa_B0034 annotation2244022 1 BBa_B0034 range2244022 1 1 12 annotation2244025 1 BBa_E1010 range2244025 1 19 724 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_K1039028 1 BBa_K1039028 PhiC31 Invertible Medium Strength Promoter Switch Test Construct 2013-09-12T11:00:00Z 2015-05-08T01:08:50Z The parts were either synthesized by BioBasic Inc or from the parts registry. PhiC31 invertible promoter switch (BBa_K1039009) in PB state with gfp gene (BBa_K1039015) on the prefix side of the switch and rfp gene (BBa_J04450) on the suffix side. GFP is produced in this state of the switch. The invertible promoter is strong promoter J23118. false false _1346_ 0 18339 9 In stock false Note that there is an NheI site on the prefix side of the switch before the attP site. This was placed there as part of an early design of our switch, but does not contribute to functionality. false Jama Hagi-Yusuf component2341381 1 BBa_K1039015 component2341392 1 BBa_K093005 component2341386 1 BBa_K1039009 annotation2341392 1 BBa_K093005 range2341392 1 1272 1995 annotation2341386 1 BBa_K1039009 range2341386 1 749 1263 annotation2341381 1 BBa_K1039015 range2341381 1 1 740 BBa_K1039009 1 BBa_K1039009 PhiC31 Invertible Promoter Switch (Promoter J23118) ??? PB State 2013-09-11T11:00:00Z 2015-05-08T01:08:50Z The DNA was synthesized through New England BioLabs The switch consists of a medium-strength constitutive promoter (BBa_J23118) flanked by PhiC31 attP and attB sites. PhiC31 integrase (BBa_K1039012) recombines PhiC31 attP and attB to form PhiC31 attR and attL, flipping the orientation of the promoter and the promoter???s direction of transcription. ???Flipping??? of the switch by PhiC31 integrase (BBa_K1039012) forms the ???RL??? state of the switch (BBa_K1039011). Recombination of att sites affords the switch two potential states, with the promoter driving transcription of different genes depending on the state. The two states are described as ???PB state??? and ???RL state???, in reference to the PhiC31 att sites flanking the promoter in each state. There is a terminator (BBa_J61048) upstream of the promoter to prevent transcription of genes that correspond to the opposite state of the switch. In this state (PB state), genes on the prefix side of the switch are expressed. Note that these genes must be inverted relative to the BioBrick convention, i.e. they are transcribed from suffix to prefix, rather than prefix to suffix. In the RL state (BBa_K1039011), genes on the suffix side of the switch are expressed. These genes are oriented in accordance with the BioBrick convention, i.e. they are transcribed from prefix to suffix. This state (PB state) is recovered from RL state (BBa_K1039011) in the presence of PhiC31 integrase and PhiC31 recombination directionality factor (RDF) (BBa_K1039012 and BBa_K1039013) through recombination of PhiC31 attR and attL, which forms PhiC31 attP and attB. In summary, PB state is flipped to RL state in the presence of PhiC31 integrase, and RL state is flipped to PB state in the presence of PhiC31 integrase and RDF. In the absence of integrase or integrase and RDF, the switch will hold its state. In this way, it is a passive digital memory device. All aspects of this switch are directly inspired by the switch developed by Groth et al., 2004. Spacer sequences between genetic elements are also taken directly from the work of Groth et al. false false _1346_ 0 14649 9 It's complicated false The genes on the prefix side of the switch needed to be inverted. false Urooj Kishor annotation2339338 1 PhiC31 attB range2339338 1 482 515 annotation2339337 1 PhiC31 attP range2339337 1 9 47 annotation2339336 1 BBa_J61048 range2339336 1 316 428 annotation2339343 1 BBa_J23118 range2339343 1 189 223 BBa_E1010 1 mRFP1 **highly** engineered mutant of red fluorescent protein from Discosoma striata (coral) 2004-07-27T11:00:00Z 2015-08-31T04:07:26Z Campbell et al., PNAS v99 p7877 <a href="http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=12060735">URL</a> Released HQ 2013 monomeric RFP: Red Fluorescent Protein. Excitation peak: 584 nm Emission peak: 607 nm false false _11_1_ 0 52 7 In stock false TAATAA double stop codon added (DE). Four silent mutations made to remove three EcoRI sites and one PstI site: A28G, A76G, A349G, G337A. true Drew Endy annotation1014044 1 mrfp1 range1014044 1 1 675 annotation2214014 1 Help:Barcodes range2214014 1 682 706 BBa_K093005_sequence 1 aaagaggagaaatactagatggcttcctccgaagacgttatcaaagagttcatgcgtttcaaagttcgtatggaaggttccgttaacggtcacgagttcgaaatcgaaggtgaaggtgaaggtcgtccgtacgaaggtacccagaccgctaaactgaaagttaccaaaggtggtccgctgccgttcgcttgggacatcctgtccccgcagttccagtacggttccaaagcttacgttaaacacccggctgacatcccggactacctgaaactgtccttcccggaaggtttcaaatgggaacgtgttatgaacttcgaagacggtggtgttgttaccgttacccaggactcctccctgcaagacggtgagttcatctacaaagttaaactgcgtggtaccaacttcccgtccgacggtccggttatgcagaaaaaaaccatgggttgggaagcttccaccgaacgtatgtacccggaagacggtgctctgaaaggtgaaatcaaaatgcgtctgaaactgaaagacggtggtcactacgacgctgaagttaaaaccacctacatggctaaaaaaccggttcagctgccgggtgcttacaaaaccgacatcaaactggacatcacctcccacaacgaagactacaccatcgttgaacagtacgaacgtgctgaaggtcgtcactccaccggtgcttaataacgctgatagtgctagtgtagatcgc BBa_B0034_sequence 1 aaagaggagaaa BBa_E1010_sequence 1 atggcttcctccgaagacgttatcaaagagttcatgcgtttcaaagttcgtatggaaggttccgttaacggtcacgagttcgaaatcgaaggtgaaggtgaaggtcgtccgtacgaaggtacccagaccgctaaactgaaagttaccaaaggtggtccgctgccgttcgcttgggacatcctgtccccgcagttccagtacggttccaaagcttacgttaaacacccggctgacatcccggactacctgaaactgtccttcccggaaggtttcaaatgggaacgtgttatgaacttcgaagacggtggtgttgttaccgttacccaggactcctccctgcaagacggtgagttcatctacaaagttaaactgcgtggtaccaacttcccgtccgacggtccggttatgcagaaaaaaaccatgggttgggaagcttccaccgaacgtatgtacccggaagacggtgctctgaaaggtgaaatcaaaatgcgtctgaaactgaaagacggtggtcactacgacgctgaagttaaaaccacctacatggctaaaaaaccggttcagctgccgggtgcttacaaaaccgacatcaaactggacatcacctcccacaacgaagactacaccatcgttgaacagtacgaacgtgctgaaggtcgtcactccaccggtgcttaataacgctgatagtgctagtgtagatcgc BBa_K1039015_sequence 1 agttattatttgtatagttcatccatgccatgtgtaatcccagcagctgttacaaactcaagaaggaccatgtggtctctcttttcgttgggatctttcgaaagggcagattgtgtggacaggtaatggttgtctggtaaaaggacagggccatcgccaattggagtattttgttgataatggtctgctagttgaacgcttccatcttcaatgttgtgtctaattttgaagttaactttgattccattcttttgtttgtctgccatgatgtatacattgtgtgagttatagttgtattccaatttgtgtccaagaatgtttccatcttctttaaaatcaataccttttaactcgattctattaacaagggtatcaccttcaaacttgacttcagcacgtgtcttgtagttcccgtcatctttgaaaaatatagttctttcctgtacataaccttcgggcatggcactcttgaaaaagtcatgctgtttcatatgatctgggtatctcgcaaagcattgaacaccataaccgaaagtagtgacaagtgttggccatggaacaggtagttttccagtagtgcaaataaatttaagggtaagttttccgtatgttgcatcaccttcaccctctccactgacagaaaatttgtgcccattaacatcaccatctaattcaacaagaattgggacaactccagtgaaaagttcttctcctttacgcatctagtatttctcctcttt BBa_K1039028_sequence 1 agttattatttgtatagttcatccatgccatgtgtaatcccagcagctgttacaaactcaagaaggaccatgtggtctctcttttcgttgggatctttcgaaagggcagattgtgtggacaggtaatggttgtctggtaaaaggacagggccatcgccaattggagtattttgttgataatggtctgctagttgaacgcttccatcttcaatgttgtgtctaattttgaagttaactttgattccattcttttgtttgtctgccatgatgtatacattgtgtgagttatagttgtattccaatttgtgtccaagaatgtttccatcttctttaaaatcaataccttttaactcgattctattaacaagggtatcaccttcaaacttgacttcagcacgtgtcttgtagttcccgtcatctttgaaaaatatagttctttcctgtacataaccttcgggcatggcactcttgaaaaagtcatgctgtttcatatgatctgggtatctcgcaaagcattgaacaccataaccgaaagtagtgacaagtgttggccatggaacaggtagttttccagtagtgcaaataaatttaagggtaagttttccgtatgttgcatcaccttcaccctctccactgacagaaaatttgtgcccattaacatcaccatctaattcaacaagaattgggacaactccagtgaaaagttcttctcctttacgcatctagtatttctcctcttttactagagaggctagcccccaactggggtaacctttgagttctctcagttgggggaatagcgaggaggtaaattgtaagctttagggaaacgacatttactgacgcgactttctcaaagctagggtgttggcctgaactgtacgcttggagttgtaggacagacataaaagtatcagatacgcacactaaccatctgctagcacaatacctaggactgagctagccgtcaagtgacaactgtataggcgcgagagcgacggcgtgcttccggaccgggccttagcgagcgttagcacggtagtagacctttggggttgaataaccggcttatcggtcagtttcacctgatttacgtaaaaacccgcttcggcgggtttttgcttttggaggggcagaaagatgaatgactgtccacgacgctatacccaaaagaaaatctattgtactaatcggcttcaacgtgccgcacgggtggcacctcaggagggcgcgcccggggagcccaagggcacgccctggcactactagagaaagaggagaaatactagatggcttcctccgaagacgttatcaaagagttcatgcgtttcaaagttcgtatggaaggttccgttaacggtcacgagttcgaaatcgaaggtgaaggtgaaggtcgtccgtacgaaggtacccagaccgctaaactgaaagttaccaaaggtggtccgctgccgttcgcttgggacatcctgtccccgcagttccagtacggttccaaagcttacgttaaacacccggctgacatcccggactacctgaaactgtccttcccggaaggtttcaaatgggaacgtgttatgaacttcgaagacggtggtgttgttaccgttacccaggactcctccctgcaagacggtgagttcatctacaaagttaaactgcgtggtaccaacttcccgtccgacggtccggttatgcagaaaaaaaccatgggttgggaagcttccaccgaacgtatgtacccggaagacggtgctctgaaaggtgaaatcaaaatgcgtctgaaactgaaagacggtggtcactacgacgctgaagttaaaaccacctacatggctaaaaaaccggttcagctgccgggtgcttacaaaaccgacatcaaactggacatcacctcccacaacgaagactacaccatcgttgaacagtacgaacgtgctgaaggtcgtcactccaccggtgcttaataacgctgatagtgctagtgtagatcgc BBa_K1039009_sequence 1 aggctagcccccaactggggtaacctttgagttctctcagttgggggaatagcgaggaggtaaattgtaagctttagggaaacgacatttactgacgcgactttctcaaagctagggtgttggcctgaactgtacgcttggagttgtaggacagacataaaagtatcagatacgcacactaaccatctgctagcacaatacctaggactgagctagccgtcaagtgacaactgtataggcgcgagagcgacggcgtgcttccggaccgggccttagcgagcgttagcacggtagtagacctttggggttgaataaccggcttatcggtcagtttcacctgatttacgtaaaaacccgcttcggcgggtttttgcttttggaggggcagaaagatgaatgactgtccacgacgctatacccaaaagaaaatctattgtactaatcggcttcaacgtgccgcacgggtggcacctcaggagggcgcgcccggggagcccaagggcacgccctggcac 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