                         SEQUENCE LISTING

<110>  Mandal, Maumita
 
<120>  MATERIALS AND METHODS FOR CONTROLLING GENE EXPRESSION

<130>  160408PCT

<150>  62/376,328
<151>  2016-08-17

<150>  62/376,325
<151>  2016-08-17

<150>  62/432,077
<151>  2016-12-09

<150>  62/432,160
<151>  2016-12-09

<160>  13    

<170>  PatentIn version 3.5

<210>  1
<211>  69
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide


<220>
<221>  P1_hairpin
<222>  (1)..(8)

<220>
<221>  J1/2
<222>  (9)..(13)

<220>
<221>  P2_hairpin
<222>  (14)..(18)

<220>
<221>  L2
<222>  (19)..(25)

<220>
<221>  P2_hairpin
<222>  (26)..(30)

<220>
<221>  J2/3
<222>  (31)..(40)

<220>
<221>  P3_hairpin
<222>  (41)..(46)

<220>
<221>  L3
<222>  (47)..(53)

<220>
<221>  P3_hairpin
<222>  (54)..(59)

<220>
<221>  J3/1
<222>  (60)..(61)

<220>
<221>  P1_hairpin
<222>  (62)..(69)

<400>  1
cacucauaua aucgcgugga uauggcacgc aaguuucuac cgggcaccgu aaauguccga       60

cuaugggug                                                               69


<210>  2
<211>  69
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide


<220>
<221>  P1_hairpin
<222>  (1)..(8)

<220>
<221>  J1/2
<222>  (9)..(13)

<220>
<221>  P2_hairpin
<222>  (14)..(18)

<220>
<221>  L2
<222>  (19)..(25)
<223>  nucleobase G37 has been replaced with an adenine residue (A)

<220>
<221>  P2_hairpin
<222>  (26)..(30)

<220>
<221>  J2/3
<222>  (31)..(40)

<220>
<221>  P3_hairpin
<222>  (41)..(46)

<220>
<221>  L3
<222>  (47)..(53)

<220>
<221>  P3_hairpin
<222>  (54)..(59)

<220>
<221>  J3/1
<222>  (60)..(61)

<220>
<221>  P1_hairpin
<222>  (62)..(69)

<400>  2
cacucauaua aucgcgugga uauagcacgc aaguuucuac cgggcaccgu aaauguccga       60

cuaugggug                                                               69


<210>  3
<211>  69
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide


<220>
<221>  P1_hairpin
<222>  (1)..(8)

<220>
<221>  J1/2
<222>  (9)..(13)

<220>
<221>  P2_hairpin
<222>  (14)..(18)

<220>
<221>  L2
<222>  (19)..(25)
<223>  nucleobase G37 is replaced with an adenine residue (A)

<220>
<221>  P2_hairpin
<222>  (26)..(30)

<220>
<221>  J2/3
<222>  (31)..(40)

<220>
<221>  P3_hairpin
<222>  (41)..(46)

<220>
<221>  L3
<222>  (47)..(53)
<223>  nucleobase C61 is replaced with a uracil residue (U)

<220>
<221>  P3_hairpin
<222>  (54)..(59)

<220>
<221>  J3/1
<222>  (60)..(61)

<220>
<221>  P1_hairpin
<222>  (62)..(69)

<400>  3
cacucauaua aucgcgugga uauagcacgc aaguuucuac cgggcacugu aaauguccga       60

cuaugggug                                                               69


<210>  4
<211>  69
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide


<220>
<221>  P1_hairpin
<222>  (1)..(8)

<220>
<221>  J1/2
<222>  (9)..(13)

<220>
<221>  P2_hairpin
<222>  (14)..(18)

<220>
<221>  L2
<222>  (19)..(25)
<223>  nucleobase G38 is replaced with an adenine residue (A)

<220>
<221>  P2_hairpin
<222>  (26)..(30)

<220>
<221>  J2/3
<222>  (31)..(40)

<220>
<221>  P3_hairpin
<222>  (41)..(46)

<220>
<221>  L3
<222>  (47)..(53)

<220>
<221>  P3_hairpin
<222>  (54)..(59)

<220>
<221>  J3/1
<222>  (60)..(61)

<220>
<221>  P1_hairpin
<222>  (62)..(69)

<400>  4
cacucauaua aucgcgugga uaugacacgc aaguuucuac cgggcaccgu aaauguccga       60

cuaugggug                                                               69


<210>  5
<211>  69
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide


<220>
<221>  P1_hairpin
<222>  (1)..(8)

<220>
<221>  J1/2
<222>  (9)..(13)

<220>
<221>  P2_hairpin
<222>  (14)..(18)

<220>
<221>  L2
<222>  (19)..(25)

<220>
<221>  P2_hairpin
<222>  (26)..(30)

<220>
<221>  J2/3
<222>  (31)..(40)

<220>
<221>  P3_hairpin
<222>  (41)..(46)
<223>  nucleobase A59 is replaced with a guanine residue (G)

<220>
<221>  L3
<222>  (47)..(53)

<220>
<221>  P3_hairpin
<222>  (54)..(59)
<223>  nucleobase U67 is replaced with a cytosine residue (C)

<220>
<221>  J3/1
<222>  (60)..(61)

<220>
<221>  P1_hairpin
<222>  (62)..(69)

<400>  5
cacucauaua aucgcgugga uauggcacgc aaguuucuac cgggcgccgu aaacguccga       60

cuaugggug                                                               69


<210>  6
<211>  73
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide


<220>
<221>  P1_hairpin
<222>  (1)..(10)
<223>  P1 hairpin is longer with the addition of new nucleotides

<220>
<221>  J1/2
<222>  (11)..(15)

<220>
<221>  P2_hairpin
<222>  (16)..(20)

<220>
<221>  L2
<222>  (21)..(27)

<220>
<221>  P2_hairpin
<222>  (28)..(32)

<220>
<221>  J2/3
<222>  (33)..(42)

<220>
<221>  P3_hairpin
<222>  (43)..(48)

<220>
<221>  L3
<222>  (49)..(55)

<220>
<221>  P3_hairpin
<222>  (56)..(61)

<220>
<221>  J3/1
<222>  (62)..(63)

<220>
<221>  P1_hairpin
<222>  (64)..(73)
<223>  P1 hairpin is longer with the addition of new nucleotides

<400>  6
agcgcucaua uaaucgcgug gauauggcac gcaaguuucu accgggcacc guaaaugucc       60

gacuaugggc gcu                                                          73


<210>  7
<211>  69
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide


<220>
<221>  P1_hairpin
<222>  (1)..(8)

<220>
<221>  J1/2
<222>  (9)..(13)

<220>
<221>  P2_hairpin
<222>  (14)..(18)

<220>
<221>  L2
<222>  (19)..(25)

<220>
<221>  P2_hairpin
<222>  (26)..(30)

<220>
<221>  J2/3
<222>  (31)..(40)

<220>
<221>  P3_hairpin
<222>  (41)..(45)

<220>
<221>  L3
<222>  (46)..(54)
<223>  nucleobase U67 is replaced with an adenine residue (A), which 
       results in a shortened P3 hairpin and a larger L3 loop

<220>
<221>  P3_hairpin
<222>  (55)..(59)

<220>
<221>  J3/1
<222>  (60)..(61)

<220>
<221>  P1_hairpin
<222>  (62)..(69)

<400>  7
cacucauaua aucgcgugga uauggcacgc aaguuucuac cgggcaccgu aaaaguccga       60

cuaugggug                                                               69


<210>  8
<211>  69
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide


<220>
<221>  P1_hairpin
<222>  (1)..(8)

<220>
<221>  J1/2
<222>  (9)..(13)
<223>  nucleobase U25 is replaced with a cytosine (C), which results in 
       a more flexible and longer J1/2

<220>
<221>  P2_hairpin
<222>  (14)..(18)

<220>
<221>  L2
<222>  (19)..(25)

<220>
<221>  P2_hairpin
<222>  (26)..(30)

<220>
<221>  J2/3
<222>  (31)..(40)

<220>
<221>  P3_hairpin
<222>  (41)..(46)

<220>
<221>  L3
<222>  (47)..(53)

<220>
<221>  P3_hairpin
<222>  (54)..(59)

<220>
<221>  J3/1
<222>  (60)..(61)

<220>
<221>  P1_hairpin
<222>  (62)..(69)

<400>  8
cacucauaua accgcgugga uauggcacgc aaguuucuac cgggcaccgu aaauguccga       60

cuaugggug                                                               69


<210>  9
<211>  69
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide


<220>
<221>  P1_hairpin
<222>  (1)..(8)
<223>  nucleobase A19 is replaced with a guanine residue (G), which 
       results in a stable P1 hairpin

<220>
<221>  J1/2
<222>  (9)..(13)

<220>
<221>  P2_hairpin
<222>  (14)..(18)

<220>
<221>  L2
<222>  (19)..(25)

<220>
<221>  P2_hairpin
<222>  (26)..(30)

<220>
<221>  J2/3
<222>  (31)..(40)

<220>
<221>  P3_hairpin
<222>  (41)..(46)

<220>
<221>  L3
<222>  (47)..(53)

<220>
<221>  P3_hairpin
<222>  (54)..(59)

<220>
<221>  J3/1
<222>  (60)..(61)

<220>
<221>  P1_hairpin
<222>  (62)..(69)
<223>  nucleobase U77 is replaced with a cytosine residue (C), which 
       results in a stable P1 hairpin

<400>  9
cacucguaua aucgcgugga uauggcacgc aaguuucuac cgggcaccgu aaauguccga       60

cuacgggug                                                               69


<210>  10
<211>  10
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide

<400>  10
agcgcucaua                                                              10


<210>  11
<211>  10
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide

<400>  11
uaugggcgcu                                                              10


<210>  12
<211>  188
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide


<220>
<221>  aptamer_domain
<222>  (14)..(82)

<220>
<221>  expression_platform
<222>  (83)..(188)

<400>  12
aauauaauag gaacacucau auaaucgcgu ggauauggca cgcaaguuuc uaccgggcac       60

cguaaauguc cgacuauggg ugagcaaugg aaccgcacgu guacgguuuu uugugauauc      120

agcauugcuu gcucuuuauu ugagcgggca augcuuuuuu uauucucaua acggagguag      180

acaggaug                                                               188


<210>  13
<211>  188
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  synthetic oligonucleotide


<220>
<221>  aptamer_domain
<222>  (14)..(82)

<220>
<221>  expression_platform
<222>  (83)..(188)

<400>  13
aauauaauag gaacacucau auaaucgcgu ggauauggca cgcaaguuuc uaccgggcac       60

cguaaauguc cgacuauggg ugagcaaugg aaccgcacgu guacgguuuu uugugauauc      120

agcauugcuu gcucuuuauu ugagcggcga aucguuuuuu uauucucaua acggagguag      180

acaggaug                                                               188


