RosettaCommons/UTexasAptamer huggingface dataset:
Aptamer: 109.1-7
Target: Prokaryotic 16s-rRNA region
Type of nucleic acid: ssRNA
Sequence: 5'GGGAGAAUUCCGACCAGAAGCUUUUAGGGCGGGACUUUUGGCCGCAAAGGUUGGUGUGAGGGUUCUCAAUAAUGGCCCAAGCAUAUGUGCGUCUACAUGGAUCCUCA3'
Sequence length: 107
GC content: 0.514018691588785
Affinity: Kd: 1.446 ± 0.088 uM
Pool type: 5'-GGGAGAATTCCGACCAGAAGC-N60-CATATGTGCGTCTACATGGATCCTCA-3'
Pool random region: 60
Binding buffer/conditions: 1 M NaCl, 50 mM Tris–HCl, 3 mM MgCl2, pH 7.4
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Research: " RNA-RNA recognition is a critical process in controlling many key biological events, such as translation and ribozyme functions. The recognition process governing RNA-RNA interactions can involve complementary Watson-Crick (WC) base pair binding, or can involve binding through tertiary structural interaction. These studies suggest that the RNA aptamer 109.2-3 interacts with the simple 27 nt A-site decoding region of 16S rRNA through their respective stem-loops."
Additional information: DNA library/pool was used as a template to generate the RNA pool used in the selection. A T7 promoter sequence might be necessary to use this DNA library/pool as a template to generate the RNA pool in the selection.
Reference (2000, Nucleic Acids Res ): Tok, J. B., Cho, J., & Rando, R. R. (2000). RNA aptamers that specifically bind to a 16S ribosomal RNA decoding region construct. Nucleic acids research, 28(15), 2902–2910. https://doi.org/10.1093/nar/28.15.2902
Aptamer: 109.2-15
Target: Prokaryotic 16s-rRNA region
Type of nucleic acid: ssRNA
Sequence: 5'GGGAGAAUUCCGACCAGAAGCGGCGUUCCGCAUCGGCAACUGGCGAGGAGUUGUAUUCGGCGGAAACGGGUUGAGGUCCGACAUAUGUGCGUCUACAUGGAUCCUCA3'
Sequence length: 107
GC content: 0.5700934579439252
Affinity: Kd: 1.665 ± 0.101 uM
Pool type: 5'-GGGAGAATTCCGACCAGAAGC-N60-CATATGTGCGTCTACATGGATCCTCA-3'
Pool random region: 60
Binding buffer/conditions: 1 M NaCl, 50 mM Tris–HCl, 3 mM MgCl2, pH 7.4
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Research: " RNA-RNA recognition is a critical process in controlling many key biological events, such as translation and ribozyme functions. The recognition process governing RNA-RNA interactions can involve complementary Watson-Crick (WC) base pair binding, or can involve binding through tertiary structural interaction. These studies suggest that the RNA aptamer 109.2-3 interacts with the simple 27 nt A-site decoding region of 16S rRNA through their respective stem-loops."
Additional information: DNA library/pool was used as a template to generate the RNA pool used in the selection. A T7 promoter sequence might be necessary to use this DNA library/pool as a template to generate the RNA pool in the selection.
Reference (2000, Nucleic Acids Res ): Tok, J. B., Cho, J., & Rando, R. R. (2000). RNA aptamers that specifically bind to a 16S ribosomal RNA decoding region construct. Nucleic acids research, 28(15), 2902–2910. https://doi.org/10.1093/nar/28.15.2902
Aptamer: 69.1-4
Target: Prokaryotic 16s-rRNA region
Type of nucleic acid: ssRNA
Sequence: 5'GGGAGAAUUCCGACCAGAAGCAGUGGAAGAGCCGGGUUGGGCAUAUGUGCGUCUACAUGGAUCCUCA3'
Sequence length: 67
GC content: 0.5522388059701493
Affinity: Kd: 2.946 ± 0.149 uM
Pool type: 5'-GGGAGAATTCCGACCAGAAGC-N20-CATATGTGCGTCTACATGGATCCTCA-3'
Pool random region: 20
Binding buffer/conditions: 1 M NaCl, 50 mM Tris–HCl, 3 mM MgCl2, pH 7.4
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Research: " RNA-RNA recognition is a critical process in controlling many key biological events, such as translation and ribozyme functions. The recognition process governing RNA-RNA interactions can involve complementary Watson-Crick (WC) base pair binding, or can involve binding through tertiary structural interaction. These studies suggest that the RNA aptamer 109.2-3 interacts with the simple 27 nt A-site decoding region of 16S rRNA through their respective stem-loops."
Additional information: DNA library/pool was used as a template to generate the RNA pool used in the selection. A T7 promoter sequence might be necessary to use this DNA library/pool as a template to generate the RNA pool in the selection.
Reference (2000, Nucleic Acids Res ): Tok, J. B., Cho, J., & Rando, R. R. (2000). RNA aptamers that specifically bind to a 16S ribosomal RNA decoding region construct. Nucleic acids research, 28(15), 2902–2910. https://doi.org/10.1093/nar/28.15.2902
Aptamer: 69.1-11
Target: Prokaryotic 16s-rRNA region
Type of nucleic acid: ssRNA
Sequence: 5'GGGAGAAUUCCGACCAGAAGCAGCGGAACGGCCGACUUCAACAUAUGUGCGUCUACAUGGAUCCUCA3'
Sequence length: 67
GC content: 0.5373134328358209
Affinity: Kd: 2.786 ± 0.188 uM
Pool type: 5'-GGGAGAATTCCGACCAGAAGC-N20-CATATGTGCGTCTACATGGATCCTCA-3'
Pool random region: 20
Binding buffer/conditions: 1 M NaCl, 50 mM Tris–HCl, 3 mM MgCl2, pH 7.4
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Research: " RNA-RNA recognition is a critical process in controlling many key biological events, such as translation and ribozyme functions. The recognition process governing RNA-RNA interactions can involve complementary Watson-Crick (WC) base pair binding, or can involve binding through tertiary structural interaction. These studies suggest that the RNA aptamer 109.2-3 interacts with the simple 27 nt A-site decoding region of 16S rRNA through their respective stem-loops."
Additional information: DNA library/pool was used as a template to generate the RNA pool used in the selection. A T7 promoter sequence might be necessary to use this DNA library/pool as a template to generate the RNA pool in the selection.
Reference (2000, Nucleic Acids Res ): Tok, J. B., Cho, J., & Rando, R. R. (2000). RNA aptamers that specifically bind to a 16S ribosomal RNA decoding region construct. Nucleic acids research, 28(15), 2902–2910. https://doi.org/10.1093/nar/28.15.2902
Aptamer: 1D13-01
Target: Doxycyline
Type of nucleic acid: ssRNA
Sequence: 5'GGAGCUCGGUAGUGACGCGUUGUGUUUACGCGUCUGAUGAGUGUAUAUGACACCGAUGGGUAUUUGCUAGUAUCCUGCGUUCACGAAACUACCUCGAGACGU3'
Sequence length: 102
GC content: 0.5
Affinity: Ki: 70 ± 20 nM
Pool type: 5′‐CGCGTTGTGTTTACGCGTCTGATGAGT‐N40‐ACGAAACTACCTCGAGACGT-3'
Pool random region: 40
Binding buffer/conditions: 40 mM Tris‐HCl, pH 8, 50 mM NaCl, 10 mM spermidine, 8 mM MgCl2
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 8
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Inhibition: " We have applied a novel in vitro selection strategy based on allosteric inhibition of a hammerhead ribozyme fused to a chosen "switch molevule" because it represents a cell-permeable small molecule with low toxicity for higher eukaryotes. Inhibition of doxycycline for the development of conditional gene expression systems based on the cleavage of mRNAs by the inserted hammerhead ribozyme depending on whether or not doxycycline is present in the cell"
Additional information: Additional nucleotides on 5' end of aptamer sequences originate from primer sequence. The original paper reported the sequnce in DNA from and include Thymine. The nonvariable region was pulled from Figure 3. The 5' end of sequence has added nucleotides that aren't present in the pool, but they are present in primers. DNA library/pool was used as a template to generate the RNA pool used in the selection. A T7 promoter sequence might be necessary to use this DNA library/pool as a template to generate the RNA pool in the selection.
Reference (2000, Angew Chem Int Ed Engl ): Piganeau, N., Jenne, A., Thuillier, V., & Famulok, M. (2000). An Allosteric Ribozyme Regulated by Doxycyline. Angewandte Chemie (International ed. in English), 39(23), 4369–4373. https://doi.org/10.1002/1521-3773(20001201)39:23<4369::AID-ANIE4369>3.0.CO;2-N
Aptamer: 1D16-05
Target: Doxycyline
Type of nucleic acid: ssRNA
Sequence: 5'GGAGCUCGGUAGUGACGCGUUGUGUUUACGCGUCUGAUGAGUGGUACAGUCCAGGGUGAAGUUCCAAUUUUGAACACCUCCACGAAACUACCUCGAGACGU3'
Sequence length: 101
GC content: 0.5148514851485149
Affinity: Ki: 20 ± 5 nM
Pool type: 5′‐CGCGTTGTGTTTACGCGTCTGATGAGT‐N40‐ACGAAACTACCTCGAGACGT-3'
Pool random region: 40
Binding buffer/conditions: 40 mM Tris‐HCl, pH 8, 50 mM NaCl, 10 mM spermidine, 8 mM MgCl2
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 8
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Inhibition: " We have applied a novel in vitro selection strategy based on allosteric inhibition of a hammerhead ribozyme fused to a chosen "switch molevule" because it represents a cell-permeable small molecule with low toxicity for higher eukaryotes. Inhibition of doxycycline for the development of conditional gene expression systems based on the cleavage of mRNAs by the inserted hammerhead ribozyme depending on whether or not doxycycline is present in the cell"
Additional information: Additional nucleotides on 5' end of aptamer sequences originate from primer sequence. The original paper reported the sequnce in DNA from and include Thymine. The nonvariable region was pulled from Figure 3. The 5' end of sequence has added nucleotides that aren't present in the pool, but they are present in primers. DNA library/pool was used as a template to generate the RNA pool used in the selection. A T7 promoter sequence might be necessary to use this DNA library/pool as a template to generate the RNA pool in the selection.
Reference (2000, Angew Chem Int Ed Engl ): Piganeau, N., Jenne, A., Thuillier, V., & Famulok, M. (2000). An Allosteric Ribozyme Regulated by Doxycyline. Angewandte Chemie (International ed. in English), 39(23), 4369–4373. https://doi.org/10.1002/1521-3773(20001201)39:23<4369::AID-ANIE4369>3.0.CO;2-N
Aptamer: 1D16-06
Target: Doxycyline
Type of nucleic acid: ssRNA
Sequence: 5'GGAGCUCGGUAGUGACGCGUUGUGUUUACGCGUCUGAUGAGUGGUUUGACCCUUGAUUCGAUGUAUUCGAAAGUGCUUGUUGACGAAACUACCUCGAGACGU3'
Sequence length: 102
GC content: 0.4901960784313725
Affinity: Ki: 25 ± 3 nM
Pool type: 5′‐CGCGTTGTGTTTACGCGTCTGATGAGT‐N40‐ACGAAACTACCTCGAGACGT-3'
Pool random region: 40
Binding buffer/conditions: 40 mM Tris‐HCl, pH 8, 50 mM NaCl, 10 mM spermidine, 8 mM MgCl2
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 8
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Inhibition: " We have applied a novel in vitro selection strategy based on allosteric inhibition of a hammerhead ribozyme fused to a chosen "switch molevule" because it represents a cell-permeable small molecule with low toxicity for higher eukaryotes. Inhibition of doxycycline for the development of conditional gene expression systems based on the cleavage of mRNAs by the inserted hammerhead ribozyme depending on whether or not doxycycline is present in the cell"
Additional information: Additional nucleotides on 5' end of aptamer sequences originate from primer sequence. The original paper reported the sequnce in DNA from and include Thymine. The nonvariable region was pulled from Figure 3. The 5' end of sequence has added nucleotides that aren't present in the pool, but they are present in primers.
Reference (2000, Angew Chem Int Ed Engl ): Piganeau, N., Jenne, A., Thuillier, V., & Famulok, M. (2000). An Allosteric Ribozyme Regulated by Doxycyline. Angewandte Chemie (International ed. in English), 39(23), 4369–4373. https://doi.org/10.1002/1521-3773(20001201)39:23<4369::AID-ANIE4369>3.0.CO;2-N
Aptamer: rafl7
Target: Adenosine triphosphate (ATP)
Type of nucleic acid: ssRNA
Sequence: 5′GGAAGGCACGACGAAGCAAGCAGGCAACGAACACAGAAGACCGGGGGAACUACCGCGCGUGCCAGACCCAACCAGCCAGAGACC3′
Sequence length: 84
GC content: 0.6309523809523809
Affinity: Kd: 223 μM ± 20 μM
Pool type: 5′-GGAAGGCACGAC-N51-AGACCCAACCAGCCAGAGACC-3′
Pool random region: 51
Binding buffer/conditions: 300 mM NaCl, 20 mM Tris-Cl, pH 7.4, 5 mM MgCl2
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Application as quoted in the referenced paper: Biosensor: " Increase in fluorescence. Reagentless biosensors that can directly transduce molecular recognition to optical signals should potentiate the development of sensor arrays for a wide variety of analytes. We have therefore attempted to develop selection methods that couple the broad molecular recognition properties of aptamers with signal transduction. The adaptation of selected nucleic acid-binding species (aptamers) to function as biosensors would potentiate numerous diagnostic applications"
Additional information: DNA library/pool was used as a template to generate the RNA pool used in the selection. A T7 promoter sequence might be necessary to use this DNA library/pool as a template to generate the RNA pool in the selection.
Reference (2000, Nat Biotechnol ): Jhaveri, S., Rajendran, M., & Ellington, A. D. (2000). In vitro selection of signaling aptamers. Nature biotechnology, 18(12), 1293–1297. https://doi.org/10.1038/82414
Aptamer: rafl7-U61C
Target: Adenosine triphosphate (ATP)
Type of nucleic acid: ssRNA
Sequence: 5′GGAAGGCACGACGAAGCAAGCAGGCAACGAACACAGAAGACCGGGGGAACUACCGCGCGCGCCAGACCCAACCAGCCAGAGACC3′
Sequence length: 84
GC content: 0.6428571428571429
Affinity: Kd: 165 μM ± 10 μM
Pool type: 5′-GGAAGGCACGAC-N51-AGACCCAACCAGCCAGAGACC-3′
Pool random region: 51
Binding buffer/conditions: 300 mM NaCl, 20 mM Tris-Cl, pH 7.4, 5 mM MgCl2
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Mutants of rafl7 were constructed that replaced the uridine at position 61 with cytidine (rafl7-u61c).
Application as quoted in the referenced paper: Biosensor: " Increase in fluorescence. Reagentless biosensors that can directly transduce molecular recognition to optical signals should potentiate the development of sensor arrays for a wide variety of analytes. We have therefore attempted to develop selection methods that couple the broad molecular recognition properties of aptamers with signal transduction. The adaptation of selected nucleic acid-binding species (aptamers) to function as biosensors would potentiate numerous diagnostic applications"
Additional information: DNA library/pool was used as a template to generate the RNA pool used in the selection. A T7 promoter sequence might be necessary to use this DNA library/pool as a template to generate the RNA pool in the selection.
Reference (2000, Nat Biotechnol ): Jhaveri, S., Rajendran, M., & Ellington, A. D. (2000). In vitro selection of signaling aptamers. Nature biotechnology, 18(12), 1293–1297. https://doi.org/10.1038/82414
Aptamer: rafl7s
Target: Adenosine triphosphate (ATP)
Type of nucleic acid: ssRNA
Sequence: 5′GGGCGCGACGAAGCAAGCAGGCAACGAACACAGAAGACCGGGGGAACUACCGCGCGCGCCC3′
Sequence length: 61
GC content: 0.6885245901639344
Affinity: Kd: 175 μM ± 5 μM
Pool type: 5′-GGAAGGCACGAC-N51-AGACCCAACCAGCCAGAGACC-3′
Pool random region: 51
Binding buffer/conditions: 300 mM NaCl, 20 mM Tris-Cl, pH 7.4, 5 mM MgCl2
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Truncated and mutants of rafl7 were constructed that replaced the uridine at position 61 with cytidine (rafl7-u61c).
Application as quoted in the referenced paper: Biosensor: " Increase in fluorescence. Reagentless biosensors that can directly transduce molecular recognition to optical signals should potentiate the development of sensor arrays for a wide variety of analytes. We have therefore attempted to develop selection methods that couple the broad molecular recognition properties of aptamers with signal transduction. The adaptation of selected nucleic acid-binding species (aptamers) to function as biosensors would potentiate numerous diagnostic applications"
Additional information: DNA library/pool was used as a template to generate the RNA pool used in the selection. A T7 promoter sequence might be necessary to use this DNA library/pool as a template to generate the RNA pool in the selection.
Reference (2000, Nat Biotechnol ): Jhaveri, S., Rajendran, M., & Ellington, A. D. (2000). In vitro selection of signaling aptamers. Nature biotechnology, 18(12), 1293–1297. https://doi.org/10.1038/82414
Aptamer: rafl28
Target: Adenosine triphosphate (ATP)
Type of nucleic acid: ssRNA
Sequence: 5′GGAAGGCACGACCGCGCAAGAUACCGCCCGACAGCGGAAGGAGGGGCAUGCGGUCCAGGGCUGAGACCCAACCAGCCAGAGACC3′
Sequence length: 84
GC content: 0.6785714285714286
Affinity: Not reported 
Pool type: 5′-GGAAGGCACGAC-N51-AGACCCAACCAGCCAGAGACC-3′
Pool random region: 51
Binding buffer/conditions: 300 mM NaCl, 20 mM Tris-Cl, pH 7.4, 5 mM MgCl2
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Application as quoted in the referenced paper: Biosensor: " Increase in fluorescence. Reagentless biosensors that can directly transduce molecular recognition to optical signals should potentiate the development of sensor arrays for a wide variety of analytes. We have therefore attempted to develop selection methods that couple the broad molecular recognition properties of aptamers with signal transduction. The adaptation of selected nucleic acid-binding species (aptamers) to function as biosensors would potentiate numerous diagnostic applications"
Additional information: DNA library/pool was used as a template to generate the RNA pool used in the selection. A T7 promoter sequence might be necessary to use this DNA library/pool as a template to generate the RNA pool in the selection.
Reference (2000, Nat Biotechnol ): Jhaveri, S., Rajendran, M., & Ellington, A. D. (2000). In vitro selection of signaling aptamers. Nature biotechnology, 18(12), 1293–1297. https://doi.org/10.1038/82414
Aptamer: 1D16-13
Target: Doxycyline
Type of nucleic acid: ssRNA
Sequence: 5'GGAGCUCGGUAGUGACGCGUUGUGUUUACGCGUCUGAUGAGUCCUCGGUAAUCGCCGUAUCAAAAGUCGGAAUGGAGGGUCGACGAAACUACCUCGAGACGU3'
Sequence length: 102
GC content: 0.5392156862745098
Affinity: Ki: 50 ± 30 nM
Pool type: 5′‐CGCGTTGTGTTTACGCGTCTGATGAGT‐N40‐ACGAAACTACCTCGAGACGT-3'
Pool random region: 40
Binding buffer/conditions: 40 mM Tris‐HCl, pH 8, 50 mM NaCl, 10 mM spermidine, 8 mM MgCl2
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 8
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Inhibition: " We have applied a novel in vitro selection strategy based on allosteric inhibition of a hammerhead ribozyme fused to a chosen "switch molevule" because it represents a cell-permeable small molecule with low toxicity for higher eukaryotes. Inhibition of doxycycline for the development of conditional gene expression systems based on the cleavage of mRNAs by the inserted hammerhead ribozyme depending on whether or not doxycycline is present in the cell"
Additional information: Additional nucleotides on 5' end of aptamer sequences originate from primer sequence. The original paper reported the sequnce in DNA from and include Thymine. The nonvariable region was pulled from Figure 3. The 5' end of sequence has added nucleotides that aren't present in the pool, but they are present in primers. DNA library/pool was used as a template to generate the RNA pool used in the selection. A T7 promoter sequence might be necessary to use this DNA library/pool as a template to generate the RNA pool in the selection.
Reference (2000, Angew Chem Int Ed Engl ): Piganeau, N., Jenne, A., Thuillier, V., & Famulok, M. (2000). An Allosteric Ribozyme Regulated by Doxycyline. Angewandte Chemie (International ed. in English), 39(23), 4369–4373. https://doi.org/10.1002/1521-3773(20001201)39:23<4369::AID-ANIE4369>3.0.CO;2-N
Aptamer: 9-41U22
Target: Pepocin
Type of nucleic acid: ssRNA
Sequence: 5'GGGAGUCUGAAGUCGGACUCGAUAUCAAUUCACUUCAGACU3'
Sequence length: 41
GC content: 0.4634146341463415
Affinity: Kd: 17.9 ± 2.2 nM
Pool type: 5'-GGGAAUGGAUCCACAUCUACGUAUUC-N30-UUCACUGCAGACUUGACGAAGCUU-3'
Pool random region: 30
Binding buffer/conditions: 3 mM sodium phosphate, 3 mM MgCl2, 45 mM NaCl, 2.5 mM EDTA, 3 mM Tris-HCl (pH 7.5), 0.15 mM dithiothreitol, and 12% glycerol
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.5
Molecular weight of target: Not reported
Post-SELEX modifications: Fragmented 41-mer sequence.
Application as quoted in the referenced paper: Therapeutic: " bind to the Ribosome Inactivating Protein (RIP) pepocin, which acts as a toxin. The aptame rinhibit the N-glycosidase activity of pepocin on rat liver 28 S rRNA. Competitive binding experiments using aptamer variants suggest that the conserved hairpin region in the anti-pepocin aptamer binds near the catalytic site on pepocin and prevents the interaction of pepocin and 28 S rRNA. Anti-RIP aptamers have potential use in diagnostic systems for the detection of pepocin or could be used as therapy to prevent the action of pepocin in mammalian cells."
Reference (2000, J Biol Chem ): Hirao, I., Madin, K., Endo, Y., Yokoyama, S., & Ellington, A. D. (2000). RNA aptamers that bind to and inhibit the ribosome-inactivating protein, pepocin. The Journal of biological chemistry, 275(7), 4943–4948. https://doi.org/10.1074/jbc.275.7.4943
Aptamer: 8-14
Target: Pepocin
Type of nucleic acid: ssRNA
Sequence: 5'GGGAAUGGAUCCACAUCUACGUAUUCAGUCUAGGAAGCAGUCGGACUUGUUAUCAAUUCACUGCAGACUGUACGAAGCUU3'
Sequence length: 80
GC content: 0.45
Affinity: Kd: 23.4 ± 2.3 nM
Pool type: 5'-GGGAAUGGAUCCACAUCUACGUAUUC-N30-UUCACUGCAGACUUGACGAAGCUU-3'
Pool random region: 30
Binding buffer/conditions: 3 mM sodium phosphate, 3 mM MgCl2, 45 mM NaCl, 2.5 mM EDTA, 3 mM Tris-HCl (pH 7.5), 0.15 mM dithiothreitol, and 12% glycerol
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.5
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " bind to the Ribosome Inactivating Protein (RIP) pepocin, which acts as a toxin. The aptame rinhibit the N-glycosidase activity of pepocin on rat liver 28 S rRNA. Competitive binding experiments using aptamer variants suggest that the conserved hairpin region in the anti-pepocin aptamer binds near the catalytic site on pepocin and prevents the interaction of pepocin and 28 S rRNA. Anti-RIP aptamers have potential use in diagnostic systems for the detection of pepocin or could be used as therapy to prevent the action of pepocin in mammalian cells."
Reference (2000, J Biol Chem ): Hirao, I., Madin, K., Endo, Y., Yokoyama, S., & Ellington, A. D. (2000). RNA aptamers that bind to and inhibit the ribosome-inactivating protein, pepocin. The Journal of biological chemistry, 275(7), 4943–4948. https://doi.org/10.1074/jbc.275.7.4943