                         SEQUENCE LISTING

<110>  BRANDEIS UNIVERSITY
 
<120>  DNA DISPLAY OF FOLDED RNA LIBRARIES ENABLING RNA-SELEX WITHOUT 
       REVERSE TRANSCRIPTION

<130>  147376.000681

<150>  63/194,002
<151>  2021-05-27

<160>  49    

<170>  PatentIn version 3.5

<210>  1
<211>  20
<212>  RNA
<213>  Artificial

<220>
<223>  stem-loop structure


<220>
<221>  misc_feature
<222>  (10)..(10)
<223>  n is a, c, g, or u

<220>
<221>  misc_feature
<222>  (13)..(14)
<223>  n is a, c, g, or u

<400>  1
gcgcccaggn ganngggcgc                                                   20


<210>  2
<211>  18
<212>  RNA
<213>  Artificial

<220>
<223>  stem-loop structure

<400>  2
aagcgacaca aagcccgg                                                     18


<210>  3
<211>  92
<212>  DNA
<213>  Artificial

<220>
<223>  Library Sequence


<220>
<221>  misc_feature
<222>  (19)..(43)
<223>  N at positions 19-43 can be A, T, C, or G

<400>  3
ccgggctttg tgtcgcttnn nnnnnnnnnn nnnnnnnnnn nnntttttct ctcttccctc       60

cttctctcct atagtgagtc gtattacagt tg                                     92


<210>  4
<211>  119
<212>  DNA
<213>  Artificial

<220>
<223>  CapArm

<400>  4
ctctcttccc tccttctctc ctttttcaac accacagacc agtataccca gaaatgacgc       60

aagcatagac aaacgattta gacatgagtg cccgacacaa cgaacaagct tttttttta       119


<210>  5
<211>  28
<212>  DNA
<213>  Artificial

<220>
<223>  CapArm

<400>  5
caactgtaat acgactcact ataggaga                                          28


<210>  6
<211>  83
<212>  DNA
<213>  Artificial

<220>
<223>  Rigidifier

<400>  6
gcttgttcgt tgtgtcgggc actcatgtct aaatcgtttg tctatgcttg cgtcatttct       60

gggtatactg gtctgtggtg ttg                                               83


<210>  7
<211>  28
<212>  DNA
<213>  Artificial

<220>
<223>  Primer

<400>  7
caactgtaat acgactcact ataggaga                                          28


<210>  8
<211>  18
<212>  DNA
<213>  Artificial

<220>
<223>  IsodC Rev primer

<400>  8
ccgggctttg tgtcgctt                                                     18


<210>  9
<211>  96
<212>  DNA
<213>  Artificial

<220>
<223>  3-U

<400>  9
ccgggctttg tgtcgcttta tccgtaggtt gcaccgtggg tctttttttt ttctctcttc       60

cctccttctc tcctatagtg agtcgtatta cagttg                                 96


<210>  10
<211>  96
<212>  DNA
<213>  Artificial

<220>
<223>  0-U

<400>  10
ccgggctttg tgtcgctttg tccgtgggtt gcgccgcggc cgcttttttt ttctctcttc       60

cctccttctc tcctatagtg agtcgtatta cagttg                                 96


<210>  11
<211>  94
<212>  DNA
<213>  Artificial

<220>
<223>  15F1-M1

<400>  11
ccgggctttg tgtcgctttc cacagggggc ccctgttccg tcgttttttt ctctcttccc       60

tccttctctc ctatagtgag tcgtattaca gttg                                   94


<210>  12
<211>  94
<212>  DNA
<213>  Artificial

<220>
<223>  15F1-M2

<400>  12
ccgggctttg tgtcgctttc cactgggggc ccctgttccg tcgatttttt ctctcttccc       60

tccttctctc ctatagtgag tcgtattaca gttg                                   94


<210>  13
<211>  94
<212>  DNA
<213>  Artificial

<220>
<223>  15F1-M3

<400>  13
ccgggctttg tgtcgctttc ctcagggggc ccctgttccg tcgatttttt ctctcttccc       60

tccttctctc ctatagtgag tcgtattaca gttg                                   94


<210>  14
<211>  95
<212>  DNA
<213>  Artificial

<220>
<223>  15F3-M1

<400>  14
ccgggctttg tgtcgcttgc cccaatcacc tgggttccct ctgttttttt tctctcttcc       60

ctccttctct cctatagtga gtcgtattac agttg                                  95


<210>  15
<211>  95
<212>  DNA
<213>  Artificial

<220>
<223>  15F3-M2

<400>  15
ccgggctttg tgtcgcttgc cccaatctcc tgggttccct atgttttttt tctctcttcc       60

ctccttctct cctatagtga gtcgtattac agttg                                  95


<210>  16
<211>  95
<212>  DNA
<213>  Artificial

<220>
<223>  15F3-M3

<400>  16
ccgggctttg tgtcgcttgc cccagtcacc tgggttccct atgttttttt tctctcttcc       60

ctccttctct cctatagtga gtcgtattac agttg                                  95


<210>  17
<211>  95
<212>  DNA
<213>  Artificial

<220>
<223>  15F3-M4

<400>  17
ccgggctttg tgtcgcttgc cgccatcacc ggcgttccct atgttttttt tctctcttcc       60

ctccttctct cctatagtga gtcgtattac agttg                                  95


<210>  18
<211>  92
<212>  DNA
<213>  Artificial

<220>
<223>  15F3-Mut-1-Mod

<400>  18
ccgggctttg tgtcgcttgc gcccaatcac ctgggcgctt ttttttttct ctcttccctc       60

cttctctcct atagtgagtc gtattacagt tg                                     92


<210>  19
<211>  25
<212>  RNA
<213>  Artificial

<220>
<223>  3-U Capture Arm Primer

<400>  19
agacccacgg ugcaaccuac ggaua                                             25


<210>  20
<211>  25
<212>  DNA
<213>  Artificial

<220>
<223>  0-U Forward Primer

<400>  20
gcggccgcgg cgcaacccac ggaca                                             25


<210>  21
<211>  96
<212>  DNA
<213>  Artificial

<220>
<223>  13F1

<400>  21
caactgtaat acgactcact ataggagaga aggagggaag agagaaaaaa aaagggtgta       60

gccgtaaaga ccgtcaacaa gcgacacaaa gcccgg                                 96


<210>  22
<211>  93
<212>  DNA
<213>  Artificial

<220>
<223>  13F2

<400>  22
caactgtaat acgactcact ataggagaga aggaaagaga gaaaaaaaaa acgcaaagcg       60

ccgccatcgg atgccaagcg acacaaagcc cgg                                    93


<210>  23
<211>  94
<212>  DNA
<213>  Artificial

<220>
<223>  15F1

<400>  23
caactgtaat acgactcact ataggagaga aggagggaag agagaaaaaa tcgacggaac       60

aggggccccc tgtggaaagc gacacaaagc ccgg                                   94


<210>  24
<211>  95
<212>  DNA
<213>  Artificial

<220>
<223>  15F3

<400>  24
caactgtaat acgactcact ataggagaga aggagggaag agagaaaaaa aacataggga       60

acccaggtga ttggggcaag cgacacaaag cccgg                                  95


<210>  25
<211>  71
<212>  DNA
<213>  Artificial

<220>
<223>  17F3*

<400>  25
caactgtaat acgactcact ataggagact gtcccaacgg caatgtggct cacaagcgac       60

acaaagcccg g                                                            71


<210>  26
<211>  71
<212>  DNA
<213>  Artificial

<220>
<223>  18F4*

<400>  26
caactgtaat acgactcact ataggagaca ggattgacac cgaccacttg cccaagcgac       60

acaaagcccg g                                                            71


<210>  27
<211>  26
<212>  RNA
<213>  Artificial

<220>
<223>  15F1 Clone

<400>  27
ucgacggaac aggggccccc ugugga                                            26


<210>  28
<211>  26
<212>  RNA
<213>  Artificial

<220>
<223>  15F1-M1 Clone

<400>  28
acgacggaac aggggccccc ugugga                                            26


<210>  29
<211>  26
<212>  RNA
<213>  Artificial

<220>
<223>  15F1-M2 Clone

<400>  29
ucgacggaac cggggccccc ggugga                                            26


<210>  30
<211>  26
<212>  RNA
<213>  Artificial

<220>
<223>  15F1-M3 Clone

<400>  30
ucgacggagc aggggccccc ugcgga                                            26


<210>  31
<211>  25
<212>  RNA
<213>  Artificial

<220>
<223>  15F3 Clone

<400>  31
cauagggaac ccaggugauu ggggc                                             25


<210>  32
<211>  25
<212>  RNA
<213>  Artificial

<220>
<223>  15F3-M1 Clone

<400>  32
cagagggaac ccaggugauu ggggc                                             25


<210>  33
<211>  25
<212>  RNA
<213>  Artificial

<220>
<223>  15F3-M2 Clone

<400>  33
cauagggaac ccaggagauu ggggc                                             25


<210>  34
<211>  25
<212>  RNA
<213>  Artificial

<220>
<223>  15F3-M3 Clone

<400>  34
cauagggaac ccaggugacu ggggc                                             25


<210>  35
<211>  25
<212>  RNA
<213>  Artificial

<220>
<223>  15F3-M4 Clone

<400>  35
cauagggaac gccggugaug gcggc                                             25


<210>  36
<211>  21
<212>  DNA
<213>  Artificial

<220>
<223>  Pre Optimized Capture Sequence

<400>  36
ggaggaagag gaagggagag g                                                 21


<210>  37
<211>  9
<212>  DNA
<213>  Artificial

<220>
<223>  Pre Optimized Spacer Sequence

<400>  37
gagaggaag                                                                9


<210>  38
<211>  21
<212>  DNA
<213>  Artificial

<220>
<223>  Post Optimized Capture Sequence

<400>  38
ggagagaagg agggaagaga g                                                 21


<210>  39
<211>  10
<212>  DNA
<213>  Artificial

<220>
<223>  Post Optimized Spacer Sequence

<400>  39
aaaaaaaaaa                                                              10


<210>  40
<211>  50
<212>  RNA
<213>  Artificial

<220>
<223>  15F1-parent

<400>  40
aaaaaaucga cggaacaggg gcccccugug gaaagcgaca caaagcccgg                  50


<210>  41
<211>  50
<212>  RNA
<213>  Artificial

<220>
<223>  Mut1 (2-1A)

<400>  41
aaaaaaacga cggaacaggg gcccccugug gaaagcgaca caaagcccgg                  50


<210>  42
<211>  50
<212>  RNA
<213>  Artificial

<220>
<223>  Mut2 (2-2G)

<400>  42
aaaaaaucga cggaaccggg gcccccggug gaaagcgaca caaagcccgg                  50


<210>  43
<211>  50
<212>  RNA
<213>  Artificial

<220>
<223>  Mut3 (2-3C)

<400>  43
aaaaaaucga cggagcaggg gcccccugcg gaaagcgaca caaagcccgg                  50


<210>  44
<211>  51
<212>  RNA
<213>  Artificial

<220>
<223>  15F3-parent

<400>  44
aaaaaaaaca uagggaaccc aggugauugg ggcaagcgac acaaagcccg g                51


<210>  45
<211>  51
<212>  RNA
<213>  Artificial

<220>
<223>  Mut1 (3-1G)

<400>  45
aaaaaaaaca gagggaaccc aggugauugg ggcaagcgac acaaagcccg g                51


<210>  46
<211>  51
<212>  RNA
<213>  Artificial

<220>
<223>  Mut2 (3-2A)

<400>  46
aaaaaaaaca uagggaaccc aggagauugg ggcaagcgac acaaagcccg g                51


<210>  47
<211>  51
<212>  RNA
<213>  Artificial

<220>
<223>  Mut3 (3-3C)

<400>  47
aaaaaaaaca uagggaaccc aggugacugg ggcaagcgac acaaagcccg g                51


<210>  48
<211>  51
<212>  RNA
<213>  Artificial

<220>
<223>  Mut4 (3-4G)

<400>  48
aaaaaaaaca uagggaacgc cggugauggc ggcaagcgac acaaagcccg g                51


<210>  49
<211>  48
<212>  RNA
<213>  Artificial

<220>
<223>  Mut1-Long stem

<400>  49
aaaaaaaaaa gcgcccaggu gauugggcgc aagcgacaca aagcccgg                    48


