                         SEQUENCE LISTING

<110>  Gen-Probe Incorporated
       Brentano, Steven  T.
       Lyakhov, Dmitry
       Carlson, James D.
       Nelson, Norman C.
 
<120>  Methods and Compositions for Nucleic Acid Amplification

<130>  GP198-PCT

<140>  PCT/US 07/_______
<141>  2007-12-20

<150>  US 60/871451
<151>  2006-12-21

<160>  68    

<170>  PatentIn version 3.3

<210>  1
<211>  80
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  1
aatttaatac gactcactat agggagagtt tgtatgtctg ttgctattat gtctagtcta     60

cgtgtgtgct ttgtacgcac                                                 80


<210>  2
<211>  80
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  2
aatttaatac gactcactat agggagagtt tgtatgtctg ttgctattat gtctaatcta     60

cttgtgtgct ctgtacacac                                                 80


<210>  3
<211>  78
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  3
aatttaatac gactcactat agggagagtt tgtatgtctg ttgctattat gtctacgcct     60

cacatttaca acaggacg                                                   78


<210>  4
<211>  77
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  4
aatttaatac gactcactat agggagagtt tgtatgtctg ttgctattat gtctacaatg     60

tagtaattag ctgtggc                                                    77


<210>  5
<211>  78
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  5
aatttaatac gactcactat agggagagtt tgtatgtctg ttgctattat gtctagcaca     60

ccacggacac acaaagga                                                   78


<210>  6
<211>  82
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  6
aatttaatac gactcactat agggagagtt tgtatgtctg ttgctattat gtctaggata     60

gtgtgtccat aaacagctgc tg                                              82


<210>  7
<211>  76
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  7
aatttaatac gactcactat agggagagtt tgtatgtctg ttgctattat gtctaccgtc     60

tggctagtag ttgatg                                                     76


<210>  8
<211>  78
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  8
aatttaatac gactcactat agggagagtt tgtatgtctg ttgctattat gtctacggag     60

cttcaattct gtaacacg                                                   78


<210>  9
<211>  79
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  9
aatttaatac gactcactat agggagagtt tgtatgtctg ttgctattat gtctacgtat     60

gttgtttagc ttgtctagc                                                  79


<210>  10
<211>  21
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  10
gtgacagctc agatgaggat g                                               21


<210>  11
<211>  16
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  11
cgacgagccg aaccac                                                     16


<210>  12
<211>  19
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  12
gaccttgtat gtcacgagc                                                  19


<210>  13
<211>  22
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  13
gacagctcag aggaggagga tg                                              22


<210>  14
<211>  38
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  14
acagcagtac aaatggcagg acagctcaga ggaggagg                             38


<210>  15
<211>  40
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  15
acagcagtac aaatggcagg tgacagctca gatgaggatg                           40


<210>  16
<211>  35
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  16
acagcagtac aaatggcagg acgagccgaa ccaca                                35


<210>  17
<211>  42
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  17
acagcagtac aaatggcagg acgagctgaa ccacagcgtc ac                        42


<210>  18
<211>  38
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  18
acagcagtac aaatggcagg accttgtatg tcacgagc                             38


<210>  19
<211>  41
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  19
acagcagtac aaatggcagg acagctcaga ggaggaggat g                         41


<210>  20
<211>  23
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  20
cagcuggaca agcagaaccg gac                                             23


<210>  21
<211>  21
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  21
ggccagaugg acaagcacaa c                                               21


<210>  22
<211>  25
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  22
guaguagaaa gcucagcaga cgacc                                           25


<210>  23
<211>  22
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  23
gaccuuagaa cacuacagca gc                                              22


<210>  24
<211>  23
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  24
gauugcgagc cuuacagcag cug                                             23


<210>  25
<211>  21
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  25
ccgaccatgc agttaatcac c                                               21


<210>  26
<211>  21
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  26
gcgtgaccag ctaccagaaa g                                               21


<210>  27
<211>  21
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  27
gccacagcaa gctagacaag c                                               21


<210>  28
<211>  61
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  28
gcucauaaca guggagguca guugccuctt taaaaaaaaa aaaaaaaaaa aaaaaaaaaa     60

a                                                                     61


<210>  29
<211>  55
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  29
acagcgcccu gcccaacgac cctttaaaaa aaaaaaaaaa aaaaaaaaaa aaaaa          55


<210>  30
<211>  62
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  30
gugcacagau cagguagcuu guagggucgt ttaaaaaaaa aaaaaaaaaa aaaaaaaaaa     60

aa                                                                    62


<210>  31
<211>  60
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  31
gcacaggucu ggcaauuugu auggccgttt aaaaaaaaaa aaaaaaaaaa aaaaaaaaaa     60


<210>  32
<211>  59
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  32
ggucuuugac aucugugaca ccuuauttta aaaaaaaaaa aaaaaaaaaa aaaaaaaaa      59


<210>  33
<211>  55
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  33
aatttaatac gactcactat agggagagtt tgtatgtctg ttgctattat gtcta          55


<210>  34
<211>  19
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  34
acagcagtac aaatggcag                                                  19


<210>  35
<211>  48
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (28)..(29)
<223>  non-nucleotide spacer  (-CH2CH2O--)3 between nt 28 and 29

<220>
<221>  misc_structure
<222>  (48)..(48)
<223>  3' end blocked by 3' C covalently joined in 3' to 5' orientation

<400>  35
tagacataat agcaacagac atacaaacct gccatttgta ctgctgtc                  48


<210>  36
<211>  54
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  36
gtcatatgcg acgatctcag ccaggagatt cagcggggca tacggattct cacc           54


<210>  37
<211>  76
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (76)..(76)
<223>  3' C is blocked by use of 3' DMT dC cpg structure

<400>  37
aatttaatac gactcactat agggagacca caacggtttt ctgccggtta gctggccacg     60

atatcaacta tttggc                                                     76


<210>  38
<211>  35
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (35)..(35)
<223>  3' end is blocked by 3' C covalently joined in 3' to 5' 
       orientation

<400>  38
gcagaagcuu ccugacuggc caaauccacu cagcc                                35


<210>  39
<211>  27
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (5)..(6)
<223>  9-carbon non-nucleotide linker is between nt 5 and 6

<400>  39
cugccaauuu uugagagaac acggcag                                         27


<210>  40
<211>  55
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (55)..(55)
<223>  3' end is blocked by 3' C covalently joined in 3' to 5' 
       orientation

<400>  40
gcagcacauc cgaccgcuug ctttaaaaaa aaaaaaaaaa aaaaaaaaaa aaaac          55


<210>  41
<211>  81
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  41
tctccctata gtgagtcgta ttaaattgtc atatgcgacg atctcagcca ggagattcag     60

cggggcatac ggattctcac c                                               81


<210>  42
<211>  43
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  42
gtcatatgcg acgatctcag ctttgtctct aattgaccat gtc                       43


<210>  43
<211>  67
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (67)..(67)
<223>  3' terminus blocked by 3' DMT dC cpg structure

<400>  43
aatttaatac gactcactat agggagacca caacggtttc aaggaagtga caatagatta     60

tataggc                                                               67


<210>  44
<211>  23
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (23)..(23)
<223>  3' terminal  end is blocked by terminal C is covalently joined in
       3' to 5' orientation

<400>  44
cuauugucac uuccuugagu auc                                             23


<210>  45
<211>  22
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (17)..(18)
<223>  9-carbon non-nucleotide linker is between nt 17 and 18

<400>  45
ccacuugcga uguuuuaagu gg                                              22


<210>  46
<211>  57
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (57)..(57)
<223>  3' terminal end is blocked by C is covalently joined in 3' to 5' 
       orientation

<400>  46
cguucacuau uggucucugc auuctttaaa aaaaaaaaaa aaaaaaaaaa aaaaaac        57


<210>  47
<211>  70
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  47
tctccctata gtgagtcgta ttaaattgtc atatgcgacg atctcagctt tgtctctaat     60

tgaccatgtc                                                            70


<210>  48
<211>  47
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  48
gtcatatgcg acgatctcag ggctcatcga tgacccaaga tggcggc                   47


<210>  49
<211>  27
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  49
ggctcatcga tgacccaaga tggcggc                                         27


<210>  50
<211>  64
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (64)..(64)
<223>  3' end is blocked by use of  3' DMT dC cpg structure

<400>  50
aatttaatac gactcactat agggagacca caacggtttt aatgtctaag tagtgacatg     60

tttc                                                                  64


<210>  51
<211>  26
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (26)..(26)
<223>  3' terminal C is covalently joined in 3' to 5' orientation

<400>  51
ugucacuacu uagacauuau auuguc                                          26


<210>  52
<211>  27
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (21)..(22)
<223>  9-carbon non-nucleotide linker is between nt 21 and 22

<400>  52
cgcuuccugu guguguggua ugaagcg                                         27


<210>  53
<211>  59
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  53
aucuguuuuc cugcccaucc uuuaagttta aaaaaaaaaa aaaaaaaaaa aaaaaaaaa      59


<210>  54
<211>  74
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  54
tctccctata gtgagtcgta ttaaattgtc atatgcgacg atctcagggc tcatcgatga     60

cccaagatgg cggc                                                       74


<210>  55
<211>  42
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  55
gtcatatgcg acgatctcag gctgtggctg acctgaaata cc                        42


<210>  56
<211>  22
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  56
gctgtggctg acctgaaata cc                                              22


<210>  57
<211>  71
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (71)..(71)
<223>  3' terminal C is blocked by use of 3' DMT dC cpg structure

<400>  57
aatttaatac gactcactat agggagacca caacggtttc cactgcatca ggaacaaaag     60

cgtgatcttg c                                                          71


<210>  58
<211>  24
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (24)..(24)
<223>  3' terminal C is covalently joined in 3' to 5' orientation

<400>  58
gaugcagugg gcagcuguga ggac                                            24


<210>  59
<211>  24
<212>  RNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (19)..(20)
<223>  9-carbon non-nucleotide linker is between nt 19 and 20

<400>  59
ugugucuuca ggaugaaaca caca                                            24


<210>  60
<211>  60
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (60)..(60)
<223>  3' terminal C is covalently joined in 3' to 5' orientation

<400>  60
cgaacuugcg cacacacguc auuggattta aaaaaaaaaa aaaaaaaaaa aaaaaaaaac     60


<210>  61
<211>  69
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  61
tctccctata gtgagtcgta ttaaattgtc atatgcgacg atctcaggct gtggctgacc     60

tgaaatacc                                                             69


<210>  62
<211>  557
<212>  DNA
<213>  Human 

<400>  62
tttaccatct gaggccacac atctgctgaa atggagataa ttaacatcac tagaaacagc     60

aagatgacaa tataatgtct aagtagtgac atgtttttgc acatttccag cccctttaaa    120

tatccacaca cacaggaagc acaaaaggaa gcacagaggt aagtgcttta taaagcactc    180

aatttctact cagaaatttt tgatggcctt aagttcctct actcgtttct atccttccta    240

ctcactgtcc tcccggaatc cactaccgat tttctatttc ttgcctcgta ttgtctgact    300

ggctcacttg gatttatctc acggagtctg gattttctac ccgggctcac ctccgtccct    360

ccatatttgt cctccacttt cacagatccc tgggagaaat gcccggccgc catcttgggt    420

catcgatgag cctcgccctg tgcctggtcc cgcttgtgag ggaaggacat tagaaaatga    480

attgatgtgt tccttaaagg atgggcagga aaacagatcc tgttgtggat atttatttga    540

acgggattac agatttg                                                   557


<210>  63
<211>  30
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  63
atgtccaagt gtcatatgcg acgatctcag                                      30


<210>  64
<211>  20
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide

<400>  64
gtcatatgcg acgatctcag                                                 20


<210>  65
<211>  40
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (40)..(40)
<223>  3' terminal C is covalently joined in 3' to 5' orientation

<400>  65
aatttaatac gactcactat agggagacca caacggtttc                           40


<210>  66
<211>  43
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  misc_structure
<222>  (20)..(21)
<223>  two 9-carbon non-nucleotide linkers are between nt 20 and 21

<220>
<221>  misc_structure
<222>  (43)..(43)
<223>  3' terminal C is covalently joined in 3' to 5' orientation and

<400>  66
ctgagatcgt cgcatatgac aaaccgttgt ggtctcccta tac                       43


<210>  67
<211>  27
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  promoter
<222>  (1)..(27)

<400>  67
aatttaatac gactcactat agggaga                                         27


<210>  68
<211>  28
<212>  DNA
<213>  Artificial

<220>
<223>  Synthetic oligonucleotide


<220>
<221>  promoter
<222>  (1)..(28)

<400>  68
gaaattaata cgactcacta tagggaga                                        28


