RosettaCommons/UTexasAptamer huggingface dataset:
Aptamer: C-ap15
Target: C-terminal region Recombinant human connective tissue growth factor (rhCTGF)
Type of nucleic acid: ssDNA
Sequence: 5'CTGTATGCCTCCTGTACGAGCGGTGATTCTTGTCCA3′
Sequence length: 36
GC content: 0.5277777777777778
Affinity: Kd: 5.234 nM
Pool type: 5′-GACAAGAATCACCGCTC-N40-CGTACAGGAGGCATACAG-3′
Pool random region: 40
Binding buffer/conditions: 10 μg yeast tRNA and 100 μg BSA in 100 μL SHMCK buffer (20 mM Hepes, 120 mM NaCl, 5 mM KCl, 1 mM MgCl2 and 1 mM CaCl2, pH 7.4)
Divalent salt: MgCl/CaCl
Buffer type: Other Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection: " Connective tissue growth factor (CTGF) is a secreted matricellular protein possessing complex biological functions. In this study, we selected CTGF-targeting DNA aptamers by using systematic evolution of ligands by exponential enrichment (SELEX). These CTGF aptamers might be used as a easy and fast detection tool for CTGF and be developed as CTGF-specific inhibitors for both research works and clinical applications."
Additional information: The synthetic aptamer characterized as c-ap15 only consisted of the core, random region due to mutations and deletions during amplification. Biotin was used to label the 5' end of this aptamer
Reference (2015, Biochem Biophys Res Commun ): Li, S., Huo, Y., Tian, H., Zhang, Q., Lv, Y., & Hao, Z. (2015). In vitro selection and characterization of deoxyribonucleic acid aptamers against connective tissue growth factor. Biochemical and biophysical research communications, 457(4), 640–646. https://doi.org/10.1016/j.bbrc.2015.01.041
Aptamer: C-ap18
Target: C-terminal region Recombinant human connective tissue growth factor (rhCTGF)
Type of nucleic acid: ssDNA
Sequence: 5′GGCACGTACGCGTCCTGTATGCCTCCTGTACGGGGG3′
Sequence length: 36
GC content: 0.6666666666666666
Affinity: Kd: 9.734 nM
Pool type: 5′-GACAAGAATCACCGCTC-N40-CGTACAGGAGGCATACAG-3′
Pool random region: 40
Binding buffer/conditions: 10 μg yeast tRNA and 100 μg BSA in 100 μL SHMCK buffer (20 mM Hepes, 120 mM NaCl, 5 mM KCl, 1 mM MgCl2 and 1 mM CaCl2, pH 7.4)
Divalent salt: MgCl/CaCl
Buffer type: Other Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection: " Connective tissue growth factor (CTGF) is a secreted matricellular protein possessing complex biological functions. In this study, we selected CTGF-targeting DNA aptamers by using systematic evolution of ligands by exponential enrichment (SELEX). These CTGF aptamers might be used as a easy and fast detection tool for CTGF and be developed as CTGF-specific inhibitors for both research works and clinical applications."
Additional information: The synthetic aptamer characterized as c-ap18 only consisted of the core, random region due to mutations and deletions during amplification. Biotin was used to label the 5' end of this aptamer
Reference (2015, Biochem Biophys Res Commun ): Li, S., Huo, Y., Tian, H., Zhang, Q., Lv, Y., & Hao, Z. (2015). In vitro selection and characterization of deoxyribonucleic acid aptamers against connective tissue growth factor. Biochemical and biophysical research communications, 457(4), 640–646. https://doi.org/10.1016/j.bbrc.2015.01.041
Aptamer: Q2
Target: Singapore grouper iridovirus (SGIV)--infected grouper spleen (GS) cells
Type of nucleic acid: ssDNA
Sequence: 5'GACGCTTACTCAGGTGTGACTCGTATGTCCATGGCCGCATATTGGGAAGGTTGGTTTGGACTATGTGGAAGTTCGAAGGACGCAGATGAAGTCTC3'
Sequence length: 95
GC content: 0.5052631578947369
Affinity: Kd: 12.09 nM
Pool type: 5'-GACGCTTACTCAGGTGTGACTCG-N50-CGAAGGACGCAGATGAAGTCTC-3'
Pool random region: 50
Binding buffer/conditions: 5 g glucose 1^-1 , 10 % FBS (Life Technologies), 1.0 g BSA l21 (Solarbio), 0.1 mg yeast tRNA ml21 (Invitrogen) and 5 mM MgCl2
Divalent salt: MgCl
Buffer type: Other Buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Therapeutic: " Singapore grouper iridovirus (SGIV) is a major viral pathogen of grouper aquaculture, and has caused heavy economic losses in China and South-east Asia. In this study, we generated four ssDNA aptamers against SGIV-infected grouper spleen (GS) cells using SELEX (systematic evolution of ligands by exponential enrichment) technology. Our results demonstrated that the four novel aptamers we generated were specific for SGIV-infected cells and could potentially be applied as rapid molecular diagnostic test reagents or therapeutic drugs targeting SGIV."
Additional information: The target molecules of Q2 might be membrane lipids or surface proteins that were not trypsin-sensitive. Aptamer Q2 conferred the highest levels of protection against SGIV and was able to inhibit SGIV infection in a dose-dependent manner
Reference (2015, J Gen Virol ): Li, P., Wei, S., Zhou, L., Yang, M., Yu, Y., Wei, J., Jiang, G., & Qin, Q. (2015). Selection and characterization of novel DNA aptamers specifically recognized by Singapore grouper iridovirus-infected fish cells. The Journal of general virology, 96(11), 3348–3359. https://doi-org.ezproxy.lib.utexas.edu/10.1099/jgv.0.000270
Aptamer: Q3
Target: Singapore grouper iridovirus (SGIV)--infected grouper spleen (GS) cells
Type of nucleic acid: ssDNA
Sequence: 5'GACGCTTACTCAGGTGTGACTCGTGGCTCTTTATGTTTTTGGGAGGGTTGGCTCGTATGTCGAAGGACGCAGATGAAGTCTC3'
Sequence length: 82
GC content: 0.5121951219512195
Affinity: Kd: 23.5 nM
Pool type: 5'-GACGCTTACTCAGGTGTGACTCG-N50-CGAAGGACGCAGATGAAGTCTC-3'
Pool random region: 50
Binding buffer/conditions: 5 g glucose 1^-1 , 10 % FBS (Life Technologies), 1.0 g BSA l21 (Solarbio), 0.1 mg yeast tRNA ml21 (Invitrogen) and 5 mM MgCl2
Divalent salt: MgCl
Buffer type: Other Buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Therapeutic: " Singapore grouper iridovirus (SGIV) is a major viral pathogen of grouper aquaculture, and has caused heavy economic losses in China and South-east Asia. In this study, we generated four ssDNA aptamers against SGIV-infected grouper spleen (GS) cells using SELEX (systematic evolution of ligands by exponential enrichment) technology. Our results demonstrated that the four novel aptamers we generated were specific for SGIV-infected cells and could potentially be applied as rapid molecular diagnostic test reagents or therapeutic drugs targeting SGIV."
Additional information: The target molecules of the Q3 aptamers were trypsin-sensitive proteins
Reference (2015, J Gen Virol ): Li, P., Wei, S., Zhou, L., Yang, M., Yu, Y., Wei, J., Jiang, G., & Qin, Q. (2015). Selection and characterization of novel DNA aptamers specifically recognized by Singapore grouper iridovirus-infected fish cells. The Journal of general virology, 96(11), 3348–3359. https://doi-org.ezproxy.lib.utexas.edu/10.1099/jgv.0.000270
Aptamer: Q4
Target: Singapore grouper iridovirus (SGIV)--infected grouper spleen (GS) cells
Type of nucleic acid: ssDNA
Sequence: 5'GACGCTTACTCAGGTGTGACTCGTTTCGTGTTATGCTCCTCTTTATTGTCAGCTGAGTTTCTGCAGTGCGAAGGACGCAGATGAAGTCTC3'
Sequence length: 90
GC content: 0.4888888888888889
Affinity: Kd: 25.6 nM
Pool type: 5'-GACGCTTACTCAGGTGTGACTCG-N50-CGAAGGACGCAGATGAAGTCTC-3'
Pool random region: 50
Binding buffer/conditions: 5 g glucose 1^-1 , 10 % FBS (Life Technologies), 1.0 g BSA l21 (Solarbio), 0.1 mg yeast tRNA ml21 (Invitrogen) and 5 mM MgCl2
Divalent salt: MgCl
Buffer type: Other Buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Therapeutic: " Singapore grouper iridovirus (SGIV) is a major viral pathogen of grouper aquaculture, and has caused heavy economic losses in China and South-east Asia. In this study, we generated four ssDNA aptamers against SGIV-infected grouper spleen (GS) cells using SELEX (systematic evolution of ligands by exponential enrichment) technology. Our results demonstrated that the four novel aptamers we generated were specific for SGIV-infected cells and could potentially be applied as rapid molecular diagnostic test reagents or therapeutic drugs targeting SGIV."
Additional information: The target molecules of the Q4 aptamers were trypsin-sensitive proteins
Reference (2015, J Gen Virol ): Li, P., Wei, S., Zhou, L., Yang, M., Yu, Y., Wei, J., Jiang, G., & Qin, Q. (2015). Selection and characterization of novel DNA aptamers specifically recognized by Singapore grouper iridovirus-infected fish cells. The Journal of general virology, 96(11), 3348–3359. https://doi-org.ezproxy.lib.utexas.edu/10.1099/jgv.0.000270
Aptamer: Q5
Target: Singapore grouper iridovirus (SGIV)--infected grouper spleen (GS) cells
Type of nucleic acid: ssDNA
Sequence: 5'GACGCTTACTCAGGTGTGACTCGTATTCGGGTTATTGCTCCTCTTTATTGTCACCTGGATGTATGATCGTGTAGCGAAGGACGCAGATGAAGTCTC3'
Sequence length: 96
GC content: 0.4791666666666667
Affinity: Kd: 24.35 nM
Pool type: 5'-GACGCTTACTCAGGTGTGACTCG-N50-CGAAGGACGCAGATGAAGTCTC-3'
Pool random region: 50
Binding buffer/conditions: 5 g glucose 1^-1 , 10 % FBS (Life Technologies), 1.0 g BSA l21 (Solarbio), 0.1 mg yeast tRNA ml21 (Invitrogen) and 5 mM MgCl2
Divalent salt: MgCl
Buffer type: Other Buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Therapeutic: " Singapore grouper iridovirus (SGIV) is a major viral pathogen of grouper aquaculture, and has caused heavy economic losses in China and South-east Asia. In this study, we generated four ssDNA aptamers against SGIV-infected grouper spleen (GS) cells using SELEX (systematic evolution of ligands by exponential enrichment) technology. Our results demonstrated that the four novel aptamers we generated were specific for SGIV-infected cells and could potentially be applied as rapid molecular diagnostic test reagents or therapeutic drugs targeting SGIV."
Additional information: The target molecules of the Q5 aptamers were trypsin-sensitive proteins
Reference (2015, J Gen Virol ): Li, P., Wei, S., Zhou, L., Yang, M., Yu, Y., Wei, J., Jiang, G., & Qin, Q. (2015). Selection and characterization of novel DNA aptamers specifically recognized by Singapore grouper iridovirus-infected fish cells. The Journal of general virology, 96(11), 3348–3359. https://doi-org.ezproxy.lib.utexas.edu/10.1099/jgv.0.000270
Aptamer: Ap52
Target: Melanoma‐associated antigen A3 (MAGE‐A3)
Type of nucleic acid: ssDNA
Sequence: 5'ATCCAGAGTGACGCAGCAAGCACTCAATATTCCCTGGACACGGTGGCTTAGT3'
Sequence length: 52
GC content: 0.5192307692307693
Affinity: Kd: 57 nM
Pool type: 5'-ATCCAGAGTGACGCAGCA-N16-TGGACACGGTGGCTTAGT3'
Pool random region: 16
Binding buffer/conditions: 0.01% yeast tRNA, 0.1% BSA, 0.45% glucose, 5 mM MgCl2, in Dulbecco's Phosphate-Buffered Saline
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic: " A DNA aptamer was identified against the shared tumor-specific MAGE-A3111-125 peptide antigen. Cy3-conjugated aptamers signals were specifically localized to the surface of those cancer cells. The results indicate that the DNA aptamer against the shared tumor-specific MAGE-A3 peptide can be used in cancer cell targeting and has the potential for developing into new modalities for the diagnosis of multiple cancers."
Reference (2015, Int J Cancer ): Wang, C. Y., Lin, B. L., & Chen, C. H. (2016). An aptamer targeting shared tumor-specific peptide antigen of MAGE-A3 in multiple cancers. International journal of cancer, 138(4), 918–926. https://doi.org/10.1002/ijc.29826
Aptamer: H3T
Target: His3-tagged recombinant proteins
Type of nucleic acid: ssDNA
Sequence: 5'CATGCTTCCCCAGGGAGATGGTTTGCCGGTGGGCAGGTTTAGGGTCTGCTCGGGATTGCGGAGGAACATGCGTCGCAAACGAGGAACATGCGTCGCAAAC3'
Sequence length: 100
GC content: 0.59
Affinity: Kd: 122.7 ± 20.6 nM
Pool type: 5'-CATGCTTCCCCAGGGAGATG-N40-GAGGAACATGCGTCGCAAAC-3"
Pool random region: 40
Binding buffer/conditions: Tris−HCl buffer supplemented only with NaCl (50 mM Tris−HCl, 150 mM NaCl, 0.01% (v/v) Tween 20; pH 7.5)
Buffer type: Tris Buffers
pH: 7.5
Molecular weight of target: 18.7 Kda
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection: " Immobilized metal ion affinity chromatography (IMAC) is widely used for the purification of many different His6-tagged recombinant proteins. On the one hand, it is a powerful technique but on the other hand it has its disadvantages. In this report, we present the development of a unique ssDNA aptamer for the purification of His3-tagged recombinant proteins. We show that the purity of His3-tagged proteins is superior when purified with the help of the H3T aptamer in comparison with Ni-NTA resin."
Reference (2015, J Chromatogr A ): Bartnicki, F., Kowalska, E., Pels, K.K., & Strzałka, W. (2015). Imidazole-free purification of His3-tagged recombinant proteins using ssDNA aptamer-based affinity chromatography. Journal of chromatography. A, 1418, 130-139. https://doi.org/10.1016/j.chroma.2015.09.055
Aptamer: A1
Target: Beta-Site amyloid precursor protein cleaving enzyme 1 (BACE1)
Type of nucleic acid: ssDNA
Sequence: 5'GCAATGGTACGGTACTTCCGTCATCAGCTTGTGATGTGGATGCGAACTGCAAAAGTGCACGCTACTTTGCTAA3'
Sequence length: 73
GC content: 0.4794520547945205
Affinity: Kd: 68.5655 ± 8.1237 nM
Pool type: 5′-GCAATGGTACGGTACTTCC-N30-CAAAAGTGCACGCTACTTTGCTAA-3′
Pool random region: 30
Binding buffer/conditions: 0.45 g of glucose, 10 mg of yeast tRNA, 5 mg of salmon sperm DNA, 0.1 g of BSA, and 0.5 ml of 1 M MgCl2 in 100 ml of 1 x phosphate-buffered saline [PBS]
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " Increased levels of brain Aβ have been implicated in the pathogenesis of Alzheimer's disease (AD). Thus, β-secretase represents a primary target for inhibitor drug development in AD. These findings support the preliminary feasibility of an aptamer evolved from a SELEX strategy to function as a potential BACE1 inhibitor. To our knowledge, this is the first study to acquire a DNA aptamer that exhibited binding specificity to BACE1 and inhibited its activity."
Reference (2015, PLoS One ): Liang, H., Shi, Y., Kou, Z., Peng, Y., Chen, W., Li, X., Li, S., Wang, Y., Wang, F., & Zhang, X. (2015). Inhibition of BACE1 Activity by a DNA Aptamer in an Alzheimer's Disease Cell Model. PLoS ONE, 10. https://doi.org/10.1371/journal.pone.0140733
Aptamer: AY-3
Target: AIB1 CBP/p300-interaction domain
Type of nucleic acid: ssDNA
Sequence: 5′AGCGTCGAATACCACTACAGGGGATGCGAAGTTCCGCGGTCGAGTATATGATACATCCATCTAATGGAGCTCGTGGTCAG3′
Sequence length: 80
GC content: 0.5125
Affinity: Kd: 47.83 ± 4.99 nM
Pool type: 5′-AGCGTCGAATACCACTACAG-N40-CTAATGGAGCTCGTGGTCAG-3′
Pool random region: 40
Binding buffer/conditions: 5 mM MgCl2, 0.1 mg/mL yeast tRNA in PBS, pH 7.4
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " AIB1, which acts as a major oncogene, is highly expressed in many human cancers, and has been demonstrated to be a key regulator for tumor initiation, progression, metastasis, invasion, and survival. In this research, we isolated a DNA aptamer AY-3 that binds to AIB1-CID from a random oligonucleotide library using in vitro screening technology-Systematic Evolution of Ligands by EXponential enrichment (SELEX). The aptamer was found to disrupt in the interaction between p300 and AIB1. This aptamer has great potential to serve as a therapeutic agent for cancer by inhibiting the coactivation of AIB1."
Reference (2015, J Mol Evol ): An, Y., Wu, J., Yang, B., Zhu, Z., Gao, M., Yu, C., & Yang, C. J. (2015). Selection and Application of DNA Aptamer Against Oncogene Amplified in Breast Cancer 1. Journal of molecular evolution, 81(5-6), 179–185. https://doi.org/10.1007/s00239-015-9703-y
Aptamer: anti-KpnI RNA Aptamer 20
Target: KpnI isoschizomer Acc65I
Type of nucleic acid: ssRNA
Sequence: 5'GGGAUAUCCUUCAUGAUUCGGAAAAGCGUAACCGCGGCCAAUCAUGCAUGAAGCGUUCCAUAUUUUU3'
Sequence length: 67
GC content: 0.4477611940298507
Affinity: Kd: 11.6 ± 2.3 nM
Pool type: 5′-TA2TACGACTCACTATAG3ATATC2TC2ATGAT-N10-G-TA2-N9-ATCATGCATGA2GCGT2C2ATAT5-3'
Pool random region: 19
Binding buffer/conditions: Selection buffer for KpnI (10 mM HEPES pH 7.5, 100 mM NaCl, 1 mM CaCl2)
Divalent salt: CaCl
Buffer type: Other Buffers
pH: 7.5
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Therapeutic: " Restriction endonucleases (REases) recognize and cleave short palindromic DNA sequences, protecting bacterial cells against bacteriophage infection by attacking foreign DNA. We are interested in the potential of folded RNA to mimic DNA, a concept that might be applied to inhibition of DNA-binding proteins. Anti-REase RNA aptamers could have value in studies of REase mechanism and may give clues to a code for designing RNAs that competitively inhibit DNA binding proteins including transcription factors."
Additional information: The structured RNA libraries (Figure ​(Figure1A)1A) used for selection were 67-nt in length with a potential tetraloop (GUAA) flanked by two random regions: 10 nt upstream and 9 nt downstream of the tetraloop. 

The synthetic DNA template for the selection pool was 5′-TA2TACGACTCACTATAG3ATATC2TC2ATGATN10G-TA2N9ATCATGCATGA2GCGT2C2ATAT5 where N indicates any base. Nucleotides in the random region were synthesized from a mixture of phosphoramidites adjusted for the relative coupling efficiency of each monomer. The library template was amplified by PCR using primers LJM-4485 5′-TA2TACGACTCACTATAG3ATATC2 and LJM-4486 5′A5TATG2A2CGCT2CATGCAT.
Reference (2015, Nucleic Acids Res ): Mondragón, E., & Maher, L. J. (2015). RNA aptamer inhibitors of a restriction endonuclease. Nucleic Acids Research, 43(15), 7544-7555. doi:10.1093/nar/gkv702
Aptamer: anti-KpnI RNA Aptamer 29
Target: KpnI isoschizomer Acc65I
Type of nucleic acid: ssRNA
Sequence: 5'GGGAUAUCCCUACAUGAUAAUCGGGUGAGUAAGGCCUAAACAUCAUGCAUGAAGCGUUCCAUAUUUUU3'
Sequence length: 68
GC content: 0.4117647058823529
Affinity: Kd: 419 ± 46.6 nM
Pool type: 5′-TA2TACGACTCACTATAG3ATATC2TC2ATGAT-N10-G-TA2-N9-ATCATGCATGA2GCGT2C2ATAT5-3'
Pool random region: 19
Binding buffer/conditions: Selection buffer for KpnI (10 mM HEPES pH 7.5, 100 mM NaCl, 1 mM CaCl2)
Divalent salt: CaCl
Buffer type: Other Buffers
pH: 7.5
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Therapeutic: " Restriction endonucleases (REases) recognize and cleave short palindromic DNA sequences, protecting bacterial cells against bacteriophage infection by attacking foreign DNA. We are interested in the potential of folded RNA to mimic DNA, a concept that might be applied to inhibition of DNA-binding proteins. Anti-REase RNA aptamers could have value in studies of REase mechanism and may give clues to a code for designing RNAs that competitively inhibit DNA binding proteins including transcription factors."
Additional information: The structured RNA libraries (Figure ​(Figure1A)1A) used for selection were 67-nt in length with a potential tetraloop (GUAA) flanked by two random regions: 10 nt upstream and 9 nt downstream of the tetraloop. 

The synthetic DNA template for the selection pool was 5′-TA2TACGACTCACTATAG3ATATC2TC2ATGATN10G-TA2N9ATCATGCATGA2GCGT2C2ATAT5 where N indicates any base. Nucleotides in the random region were synthesized from a mixture of phosphoramidites adjusted for the relative coupling efficiency of each monomer. The library template was amplified by PCR using primers LJM-4485 5′-TA2TACGACTCACTATAG3ATATC2 and LJM-4486 5′A5TATG2A2CGCT2CATGCAT.
Reference (2015, Nucleic Acids Res ): Mondragón, E., & Maher, L. J. (2015). RNA aptamer inhibitors of a restriction endonuclease. Nucleic Acids Research, 43(15), 7544-7555. doi:10.1093/nar/gkv702
Aptamer: anti-KpnI RNA Aptamer 30
Target: KpnI isoschizomer Acc65I
Type of nucleic acid: ssRNA
Sequence: 5'GGGAUAUCCUUCAUGAUUCGGAAAAGCGUAACCGCGGCCGAUCAUGCAUGAAGCGUUCCAUAUUUUU3'
Sequence length: 67
GC content: 0.4626865671641791
Affinity: Kd: 18.6 ± 4.5 nM
Pool type: 5′-TA2TACGACTCACTATAG3ATATC2TC2ATGATN10G-TA2-N9-ATCATGCATGA2GCGT2C2ATAT5-3'
Pool random region: 19
Binding buffer/conditions: Selection buffer for KpnI (10 mM HEPES pH 7.5, 100 mM NaCl, 1 mM CaCl2)
Divalent salt: CaCl
Buffer type: Other Buffers
pH: 7.5
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Therapeutic: " Restriction endonucleases (REases) recognize and cleave short palindromic DNA sequences, protecting bacterial cells against bacteriophage infection by attacking foreign DNA. We are interested in the potential of folded RNA to mimic DNA, a concept that might be applied to inhibition of DNA-binding proteins. Anti-REase RNA aptamers could have value in studies of REase mechanism and may give clues to a code for designing RNAs that competitively inhibit DNA binding proteins including transcription factors."
Additional information: The structured RNA libraries (Figure ​(Figure1A)1A) used for selection were 67-nt in length with a potential tetraloop (GUAA) flanked by two random regions: 10 nt upstream and 9 nt downstream of the tetraloop. 

The synthetic DNA template for the selection pool was 5′-TA2TACGACTCACTATAG3ATATC2TC2ATGATN10G-TA2N9ATCATGCATGA2GCGT2C2ATAT5 where N indicates any base. Nucleotides in the random region were synthesized from a mixture of phosphoramidites adjusted for the relative coupling efficiency of each monomer. The library template was amplified by PCR using primers LJM-4485 5′-TA2TACGACTCACTATAG3ATATC2 and LJM-4486 5′A5TATG2A2CGCT2CATGCAT.
Reference (2015, Nucleic Acids Res ): Mondragón, E., & Maher, L. J. (2015). RNA aptamer inhibitors of a restriction endonuclease. Nucleic Acids Research, 43(15), 7544-7555. doi:10.1093/nar/gkv702