Table 3 Oligonucleotides for the generation of fluorescent nanoparticle probes.
From: Modular fluorescent nanoparticle DNA probes for detection of peptides and proteins
Component | Name | Annealing region | Oligonucleotide sequence (annealing region in bold) |
|---|---|---|---|
DNA aptamer probe | P7-B1 or B1 | P7 | 5′-CAA GCA GAA GAC GGC ATA CGA GAT CAT GCT TCC CCA GGG AGA TGG TTT GCC GGT GGG CAG GTT TAG GGT CTG CTC GGG ATT GCG GAG GAA CAT GCG TCG CAA ACG TGT AGA TCT CGG TGG TCG CCG TAT CAT T-3′ |
polyA-B1 | polyA | 5′-AAA AAA AAA AAA AAA AAA AAA CAT GCT TCC CCA GGG AGA TGG TTT GCC GGT GGG CAG GTT TAG GGT CTG CTC GGG ATT GCG GAG GAA CAT GCG TCG CAA ACG TGT AGA TCT CGG TGG TCG CCG TAT CAT T-3′ | |
H3T | P7 | 5′- CAA GCA GAA GAC GGC ATA CGA GAT GTT TGC CGG TGG GCA GGT TTA GGG TCT GCT CGG GAT TGC GGA GGA ACA TGC GTC GCA AAC GTG TAG ATC TCG GTG GTC GCC GTA TCA TT -3′ | |
Her2 | P7 | 5′- CAA GCA GAA GAC GGC ATA CGA GAT TCT AAA AGG ATT CTT CCC AAG GGG ATC CAA TTC AAA CAG CGT GTA GAT CTC GGT GGT CGC CGT ATC ATT -3′ | |
polyA-Aptamer2 | polyA | 5′-AGC GTC TCT CGA TCT CAT TCT CAG GTG GGG GGT ATA TTT AGA GAC GGA AGA TCG AGA GCA AGC GTT GTT TTG ATG GCC CAA AAA AAA AAA AAA AAA AAA-3′ | |
polyT-Aptamer2 | polyT | 5′-AGC GTC TCT CGA TCT CAT TCT CAG GTG GGG GGT ATA TTT AGA GAC GGA AGA TCG AGA GCA AGC GTT GTT TTG ATG GCC CTT TTT TTT TTT TTT TTT TTT-3′ | |
Negative-control Aptamer (Fig. 4) | P7 | 5′ CAA GCA GAA GAC GGC ATA CGA GAT TCA AGT GGT CAT GTA CTA GTC AA -3′ | |
VEGF | P7 | 5′- CAA GCA GAA GAC GGC ATA CGA GAT CCC GTC TTC CAG ACA AGA GTG CAG GGG TGT AGA TCT CGG TGG TCG CCG TAT CAT T -3′ | |
Conjugation-annealing handle | DBCO-polyT | polyT | 5′-TTT TTT TTT TTT TTT TTT TTT-DBCO-3′ |
DBCO-P7 (revcom) | P7 reverse complement | 5′-ATC TCG TAT GCC GTC TTC TGC TTG-DBCO-3′ | |
Direct attachment | DBCO-B1 | NA | 5′-[DBCO-C7]-CAA GCA GAA GAC GGC ATA CGA GAT CAT GCT TCC CCA GGG AGA TGG TTT GCC GGT GGG CAG GTT TAG GGT CTG CTC GGG ATT GCG GAG GAA CAT GCG TCG CAA ACG TGT AGA TCT CGG TGG TCG CCG TAT CAT T-3′ |
Biotin-B1 | 5′-/5Biosg/CA TGC TTC CCC AGG GAG ATG GTT TGC CGG TGG GCA GGT TTA GGG TCT GCT CGG GAT TGC GGA GGA ACA TGC GTC GCA AAC-3′ | ||
Biotin-Her2 | 5′-/5Biosg/TC TAA AAG GAT TCT TCC CAA GGG GAT CCA ATT CAA ACA GC-3′ | ||
Biotin-H3T | 5′-/5Biosg/GTT TGC CGG TGG GCA GGT TTA GGG TCT GCT CGG GAT TGC GGA GGA ACA TGC GTC GCA AAC-3′ |
