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. Author manuscript; available in PMC: 2020 May 15.
Published in final edited form as: Methods. 2019 Jan 17;161:24–34. doi: 10.1016/j.ymeth.2019.01.008

Table 1.

A list of commonly used fluorogenic RNA aptamers and their spectral properties

Fluorogenic aptamer Fluorophore KD (nM) Ex / Em (nm) ε(M−1cm−1) ϕ Ref.
GFP 395 / 508 21,000 0.77 [115]
Spinach DFHBI 540 469 / 501 24,300 0.72 [31]
Spinach-2 DFHBI-1T 560 482 / 505 31,000 0.94 [116]
Spinach-2 DFHBI-2T 1,300 500 / 523 29,000 0.12 [116]
Broccoli DFHBI-1T 360 472 / 507 29,600 0.94 [48]
Red-Broccoli DFHO 206 518 / 582 35,000 0.34 [50]
Corn DFHO 70 505 / 545 29,000 0.25 [50]
Mango TO1-Biotin 3.2 510 / 535 77,500 0.14 [49]
Mango II TO1-Biotin 0.7 510 / 535 ~77,000 ~0.2 [110]
Mango III TO1-Biotin 5.6 510 / 535 ~77,000 ~0.56 [110]
Mango IV TO1-Biotin 11.1 510 / 535 ~77,000 0.42 [110]
Mango TO3-Biotin 5.1 637 / 658 9,300 N/A [49]
Mango YO3-Biotin 25.6 597 / 618 N/A N/A [111]
MG-aptamer Malachite Green 117 630 / 650 150,000 0.187 [36]
SRB-2 SR-DN 1,400 579 / 596 85,200 0.65 [117]
SRB-2 TMR-DN 35 564 / 587 90,500 0.33 [51]
DNB SR-DN 800 572 / 591 50,250 0.98 [52]
DNB TMR-DN 350 555 / 582 47,150 0.90 [52]
BHQ apt (A1) Cy3-BHQ1 4,700 520 / 565 N/A N/A [118]

N/A: not available; ɛ: absorption coefficient; ϕ: quantum yield; Ex / Em: excitation/emission wavelength peak value