                         SEQUENCE LISTING

<110>  F. Hoffmann-La Roche AG
       Roche Diagnostics GmbH
       Roche Molecular Systems, Inc.
 
<120>  COMPOSITIONS AND METHODS FOR DETECTING SEVERE ACUTE RESPIRATORY 
       SYNDROME CORONAVIRUS2 (SARS-COV-2) VARIANTS HAVING SPIKE PROTEIN 
       MUTATIONS

<130>  P36783-WO-HS

<150>  US 63/161398
<151>  2021-03-15

<150>  US 63/168718
<151>  2021-03-31

<160>  39    

<170>  PatentIn version 3.5

<210>  1
<211>  28
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Forward Primer D69-70_21690_F


<220>
<221>  modified_base
<222>  (28)..(28)
<223>  t-butylbenzyl dA

<400>  1
tcagatcctc agttttacat tcaactca                                          28


<210>  2
<211>  20
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Forward Primer E484K_23004F


<220>
<221>  modified_base
<222>  (20)..(20)
<223>  t-butylbenzyl dA

<400>  2
gccggtagca caccttgtaa                                                   20


<210>  3
<211>  27
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Forward Primer Y144_F


<220>
<221>  modified_base
<222>  (27)..(27)
<223>  t-butylbenzyl dA

<400>  3
gaagacccag tccctactta ttgttaa                                           27


<210>  4
<211>  22
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Forward Primer K417_N439_L452_F1


<220>
<221>  modified_base
<222>  (22)..(22)
<223>  t-butylbenzyl dA

<400>  4
tgaagtcaga caaatcgctc ca                                                22


<210>  5
<211>  19
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Forward Primer K417_N439_L452_F2


<220>
<221>  modified_base
<222>  (19)..(19)
<223>  t-butylbenzyl dA

<400>  5
acaaatcgct ccagggcaa                                                    19


<210>  6
<211>  30
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Forward Primer NCOV-1-FN1.A


<220>
<221>  modified_base
<222>  (30)..(30)
<223>  t-butylbenzyl dA

<400>  6
ctttgattgt tacgatggtg gctgtattaa                                        30


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

<220>
<223>  Reverse Primer D69-70_21690_R


<220>
<221>  modified_base
<222>  (28)..(28)
<223>  t-butylbenzyl dA

<400>  7
accatcatta aatggtagga cagggtta                                          28


<210>  8
<211>  31
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Reverse Primer D69-70_21859R


<220>
<221>  modified_base
<222>  (31)..(31)
<223>  t-butylbenzyl dA

<400>  8
gttagacttc tcagtggaag caaaataaac a                                      31


<210>  9
<211>  24
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Reverse Primer E484K_23004R


<220>
<221>  modified_base
<222>  (24)..(24)
<223>  t-butylbenzyl dA

<400>  9
accaacacca ttagtgggtt ggaa                                              24


<210>  10
<211>  34
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Reverse Primer N501Y_23124AR


<220>
<221>  modified_base
<222>  (34)..(34)
<223>  t-butylbenzyl dA

<400>  10
ggtgcatgta gaagttcaaa agaaagtact acta                                   34


<210>  11
<211>  27
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Reverse Primer N501Y_23007_R


<220>
<221>  modified_base
<222>  (27)..(27)
<223>  t-butylbenzyl dA

<400>  11
gctggtgcat gtagaagttc aaaagaa                                           27


<210>  12
<211>  33
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Reverse Primer Y144_R


<220>
<221>  modified_base
<222>  (33)..(33)
<223>  t-butylbenzyl dA

<400>  12
caattattcg cactagaata aactctgaac tca                                    33


<210>  13
<211>  33
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Reverse Primer K417_N439_L452_R1


<220>
<221>  modified_base
<222>  (33)..(33)
<223>  t-butylbenzyl dA

<400>  13
gcctgataga tttcagttga aatatctctc tca                                    33


<210>  14
<211>  30
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Reverse Primer K417_N439_L452_R2


<220>
<221>  modified_base
<222>  (30)..(30)
<223>  t-butylbenzyl dA

<400>  14
cggcctgata gatttcagtt gaaatatcta                                        30


<210>  15
<211>  25
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Reverse Primer NCOV-1R.A


<220>
<221>  modified_base
<222>  (25)..(25)
<223>  t-butylbenzyl dA

<400>  15
agtgcatctt gatcctcata actca                                             25


<210>  16
<211>  36
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe D69-70-2_PRB


<220>
<221>  misc_feature
<223>  5` JA270

<220>
<221>  misc_feature
<223>  3` Spacer C3 blocker

<220>
<221>  misc_feature
<222>  (12)..(13)
<223>  BHQ-2 Quencher

<400>  16
ttccatgcta tctctgggac caatggtact aagagg                                 36


<210>  17
<211>  29
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe D69-70-2_PRB_SHT


<220>
<221>  misc_feature
<223>  5` JA270

<220>
<221>  misc_feature
<223>  3` Spacer C3 blocker

<220>
<221>  misc_feature
<222>  (12)..(13)
<223>  BHQ-2 Quencher

<400>  17
ttccatgcta tctctgggac caatggtac                                         29


<210>  18
<211>  47
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe E484K_ML_PRB1


<220>
<221>  misc_feature
<223>  5` Coumarin

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (4)..(6)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (8)..(9)
<223>  BHQ-2 Quencher

<400>  18
tgttaaaggt tttaattgtt actttccttt acaatcatat ggtttcc                     47


<210>  19
<211>  30
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe N501Y_HEX_PRB1


<220>
<221>  misc_feature
<223>  5` HEX

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (4)..(6)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (7)..(8)
<223>  BHQ-2 Quencher

<400>  19
cacttatggt gttggttacc aaccatacag                                        30


<210>  20
<211>  47
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe E484K_ML_FAM1


<220>
<221>  misc_feature
<223>  5` FAM

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (4)..(6)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (8)..(9)
<223>  BHQ-2 Quencher

<400>  20
tgttaaaggt tttaattgtt actttccttt acaatcatat ggtttcc                     47


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

<220>
<223>  Probe Y144_PRB


<220>
<221>  misc_feature
<223>  5` FAM

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (8)..(9)
<223>  BHQ-2 Quencher

<400>  21
tttgggtgtt taccacaaaa acaacaaaag ttggatgg                               38


<210>  22
<211>  38
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe K417N4d


<220>
<221>  misc_feature
<223>  5` Coumarin

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (7)..(7)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (10)..(11)
<223>  BHQ-2 Quencher

<220>
<221>  misc_feature
<222>  (16)..(17)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (22)..(23)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (29)..(30)
<223>  D-Locked Nucleic Acid

<400>  22
tggaaatatt gctgattata attataaatt accagatg                               38


<210>  23
<211>  37
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe L452R2-zx1


<220>
<221>  misc_feature
<223>  5` Coumarin

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blockerr

<220>
<221>  misc_feature
<222>  (5)..(6)
<223>  BHQ-2 Quencher

<220>
<221>  misc_feature
<222>  (13)..(15)
<223>  D-Locked Nucleic Acid

<400>  23
taccggtata gattgtttag gaagtctaat ctcaaac                                37


<210>  24
<211>  40
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe K417N4cs_J270


<220>
<221>  misc_feature
<223>  5` JA270

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (9)..(9)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (12)..(13)
<223>  BHQ-2 Quencher

<220>
<221>  misc_feature
<222>  (18)..(19)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (24)..(25)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (31)..(32)
<223>  D-Locked Nucleic Acid

<400>  24
actggaaata ttgctgatta taattataaa ttaccagatg                             40


<210>  25
<211>  35
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe N439K_e3mC


<220>
<221>  misc_feature
<223>  5` HEX

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (4)..(7)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (9)..(10)
<223>  BHQ-2 Quencher

<220>
<221>  misc_feature
<222>  (12)..(12)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (16)..(16)
<223>  2`-OMethyl

<220>
<221>  misc_feature
<222>  (16)..(16)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (20)..(20)
<223>  D-Locked Nucleic Acid

<400>  25
ctaaaaatct tgattctaag gttggtggta attat                                  35


<210>  26
<211>  38
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe D69-70_WT1_PRB


<220>
<221>  misc_feature
<223>  5` FAM

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (7)..(8)
<223>  BHQ-2 Quencher

<400>  26
tccatgctat acatgtctct gggaccaatg gtactaag                               38


<210>  27
<211>  42
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe E484K_WT2L_PRB2


<220>
<221>  misc_feature
<223>  5` FAM

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (4)..(6)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (8)..(9)
<223>  BHQ-2 Quencher

<400>  27
tgttgaaggt tttaattgtt actttccttt acaatcatat gg                          42


<210>  28
<211>  30
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe N501Y-WT_PRB


<220>
<221>  misc_feature
<223>  5` FAM

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (4)..(6)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (7)..(8)
<223>  BHQ-2 Quencher

<400>  28
cactaatggt gttggttacc aaccatacag                                        30


<210>  29
<211>  42
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe E484K_WT2L_COU1


<220>
<221>  misc_feature
<223>  5` Coumarin

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (4)..(6)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (8)..(9)
<223>  BHQ-2 Quencher

<400>  29
tgttgaaggt tttaattgtt actttccttt acaatcatat gg                          42


<210>  30
<211>  42
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe N501Y-WT_COU1


<220>
<221>  misc_feature
<223>  5` Coumarin

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (4)..(6)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (8)..(9)
<223>  BHQ-2 Quencher

<400>  30
tgttgaaggt tttaattgtt actttccttt acaatcatat gg                          42


<210>  31
<211>  38
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe K417N_wt8c


<220>
<221>  misc_feature
<223>  5` FAM

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (10)..(11)
<223>  BHQ-2 Quencher

<220>
<221>  misc_feature
<222>  (16)..(17)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (22)..(23)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (29)..(30)
<223>  D-Locked Nucleic Acid

<400>  31
tggaaagatt gctgattata attataaatt accagatg                               38


<210>  32
<211>  38
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe K417N_wt8a1


<220>
<221>  misc_feature
<223>  5` FAM

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (6)..(8)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (10)..(11)
<223>  BHQ-2 Quencher

<220>
<221>  misc_feature
<222>  (16)..(17)
<223>  D-Locked Nucleic Acid

<400>  32
tggaaagatt gctgattata attataaatt accagatg                               38


<210>  33
<211>  37
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe L452R_wt1-zx1


<220>
<221>  misc_feature
<223>  5` FAM

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (5)..(5)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (6)..(7)
<223>  BHQ-2 Quencher

<220>
<221>  misc_feature
<222>  (16)..(17)
<223>  D-Locked Nucleic Acid

<400>  33
tacctgtata gattgtttag gaagtctaat ctcaaac                                37


<210>  34
<211>  40
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe K417N_wt8cs_J270


<220>
<221>  misc_feature
<223>  5` JA270

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (12)..(13)
<223>  BHQ-2 Quencher

<220>
<221>  misc_feature
<222>  (18)..(19)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (24)..(25)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (31)..(32)
<223>  D-Locked Nucleic Acid

<400>  34
actggaaaga ttgctgatta taattataaa ttaccagatg                             40


<210>  35
<211>  32
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Probe N439K_wte2


<220>
<221>  misc_feature
<223>  5` FAM

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (4)..(6)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (5)..(5)
<223>  2` OMethyl

<220>
<221>  misc_feature
<222>  (9)..(10)
<223>  BHQ-2 Quencher

<220>
<221>  misc_feature
<222>  (16)..(16)
<223>  D-Locked Nucleic Acid

<220>
<221>  misc_feature
<222>  (16)..(16)
<223>  2` OMethyl

<400>  35
ctaacaatct tgattctaag gttggtggta at                                     32


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

<220>
<223>  Probe WUHAN-4P_COU6QC3


<220>
<221>  misc_feature
<223>  5` Coumarin

<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (6)..(7)
<223>  BHQ-2 Quencher

<400>  36
tcatcgtcaa caacctagac aaatcagctg gttttc                                 36


<210>  37
<211>  42
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Blocking Probe E484K_WT2L_NO_DYE


<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (4)..(6)
<223>  D-Locked Nucleic Acid

<400>  37
tgttgaaggt tttaattgtt actttccttt acaatcatat gg                          42


<210>  38
<211>  30
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Blocking Probe N501Y-WT_NO_DYE


<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<220>
<221>  misc_feature
<222>  (4)..(6)
<223>  D-Locked Nucleic Acid

<400>  38
cactaatggt gttggttacc aaccatacag                                        30


<210>  39
<211>  38
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Blocking Probe LNAD69-70_WT1_NO_DYE


<220>
<221>  misc_feature
<223>  3` Spacer C3 Blocker

<400>  39
tccatgctat acatgtctct gggaccaatg gtactaag                               38


