                         SEQUENCE LISTING

<110>  Quidel Corporation
 
<120>  METHOD FOR DIRECT AMPLIFICATION AND DETECTION OF RNA

<130>  041896-1228/8156.WO00

<140>  Not Yet Assigned
<141>  Concurrently Herewith

<150>  US 63/025,515
<151>  2020-05-15

<160>  4     

<170>  PatentIn version 3.5

<210>  1
<211>  591
<212>  PRT
<213>  Hepatitis C virus

<400>  1

Ser Met Ser Tyr Thr Trp Thr Gly Ala Leu Ile Thr Pro Cys Ala Ala 
1               5                   10                  15      


Glu Glu Ser Lys Leu Pro Ile Asn Ala Leu Ser Asn Ser Leu Leu Arg 
            20                  25                  30          


His His Asn Met Val Tyr Ala Thr Thr Ser Arg Ser Ala Gly Leu Arg 
        35                  40                  45              


Gln Lys Lys Val Thr Phe Asp Arg Leu Gln Val Leu Asp Asp His Tyr 
    50                  55                  60                  


Arg Asp Val Leu Lys Glu Met Lys Ala Lys Ala Ser Thr Val Lys Ala 
65                  70                  75                  80  


Lys Leu Leu Ser Val Glu Glu Ala Cys Lys Leu Thr Pro Pro His Ser 
                85                  90                  95      


Ala Lys Ser Lys Phe Gly Tyr Gly Ala Lys Asp Val Arg Asn Leu Ser 
            100                 105                 110         


Ser Lys Ala Val Asn His Ile His Ser Val Trp Lys Asp Leu Leu Glu 
        115                 120                 125             


Asp Thr Val Thr Pro Ile Asp Thr Thr Ile Met Ala Lys Asn Glu Val 
    130                 135                 140                 


Phe Cys Val Gln Pro Glu Lys Gly Gly Arg Lys Pro Ala Arg Leu Ile 
145                 150                 155                 160 


Val Phe Pro Asp Leu Gly Val Arg Val Cys Glu Lys Met Ala Leu Tyr 
                165                 170                 175     


Asp Val Val Ser Thr Leu Pro Gln Val Val Met Gly Ser Ser Tyr Gly 
            180                 185                 190         


Phe Gln Tyr Ser Pro Gly Gln Arg Val Glu Phe Leu Val Asn Thr Trp 
        195                 200                 205             


Lys Ser Lys Lys Asn Pro Met Gly Phe Ser Tyr Asp Thr Arg Cys Phe 
    210                 215                 220                 


Asp Ser Thr Val Thr Glu Asn Asp Ile Arg Val Glu Glu Ser Ile Tyr 
225                 230                 235                 240 


Gln Cys Cys Asp Leu Ala Pro Glu Ala Arg Gln Ala Ile Lys Ser Leu 
                245                 250                 255     


Thr Glu Arg Leu Tyr Ile Gly Gly Pro Leu Thr Asn Ser Lys Gly Gln 
            260                 265                 270         


Asn Cys Gly Tyr Arg Arg Cys Arg Ala Ser Gly Val Leu Thr Thr Ser 
        275                 280                 285             


Cys Gly Asn Thr Leu Thr Cys Tyr Leu Lys Ala Ser Ala Ala Cys Arg 
    290                 295                 300                 


Ala Ala Lys Leu Gln Asp Cys Thr Met Leu Val Asn Gly Asp Asp Leu 
305                 310                 315                 320 


Val Val Ile Cys Glu Ser Ala Gly Thr Gln Glu Asp Ala Ala Ser Leu 
                325                 330                 335     


Arg Val Phe Thr Glu Ala Met Thr Arg Tyr Ser Ala Pro Pro Gly Asp 
            340                 345                 350         


Pro Pro Gln Pro Glu Tyr Asp Leu Glu Leu Ile Thr Ser Cys Ser Ser 
        355                 360                 365             


Asn Val Ser Val Ala His Asp Ala Ser Gly Lys Arg Val Tyr Tyr Leu 
    370                 375                 380                 


Thr Arg Asp Pro Thr Thr Pro Leu Ala Arg Ala Ala Trp Glu Thr Ala 
385                 390                 395                 400 


Arg His Thr Pro Val Asn Ser Trp Leu Gly Asn Ile Ile Met Tyr Ala 
                405                 410                 415     


Pro Thr Leu Trp Ala Arg Met Ile Leu Met Thr His Phe Phe Ser Ile 
            420                 425                 430         


Leu Leu Ala Gln Glu Gln Leu Glu Lys Ala Leu Asp Cys Gln Ile Tyr 
        435                 440                 445             


Gly Ala Cys Tyr Ser Ile Glu Pro Leu Asp Leu Pro Gln Ile Ile Glu 
    450                 455                 460                 


Arg Leu His Gly Leu Ser Ala Phe Ser Leu His Ser Tyr Ser Pro Gly 
465                 470                 475                 480 


Glu Ile Asn Arg Val Ala Ser Cys Leu Arg Lys Leu Gly Val Pro Pro 
                485                 490                 495     


Leu Arg Val Trp Arg His Arg Ala Arg Ser Val Arg Ala Arg Leu Leu 
            500                 505                 510         


Ser Gln Gly Gly Arg Ala Ala Thr Cys Gly Lys Tyr Leu Phe Asn Trp 
        515                 520                 525             


Ala Val Lys Thr Lys Leu Lys Leu Thr Pro Ile Pro Ala Ala Ser Arg 
    530                 535                 540                 


Leu Asp Leu Ser Gly Trp Phe Val Ala Gly Tyr Ser Gly Gly Asp Ile 
545                 550                 555                 560 


Tyr His Ser Leu Ser Arg Ala Arg Pro Arg Trp Phe Met Leu Cys Leu 
                565                 570                 575     


Leu Leu Leu Ser Val Gly Val Gly Ile Tyr Leu Leu Pro Asn Arg 
            580                 585                 590     


<210>  2
<211>  1776
<212>  DNA
<213>  Hepatitis C virus

<400>  2
tcaatgtcct acacatggac aggcgccttg atcacgccat gcgctgcgga ggaaagcaag       60

ctgcccatca acgcgttgag caactctttg ctgcgccacc ataacatggt ttatgccaca      120

acatctcgca gcgcaggcct gcggcagaag aaggtcacct ttgacagact gcaagtcctg      180

gacgaccact accgggacgt gctcaaggag atgaaggcga aggcgtccac agttaaggct      240

aaactcctat ccgtagagga agcctgcaag ctgacgcccc cacattcggc caaatccaag      300

tttggctatg gggcaaagga cgtccggaac ctatccagca aggccgttaa ccacatccac      360

tccgtgtgga aggacttgct ggaagacact gtgacaccaa ttgacaccac catcatggca      420

aaaaatgagg ttttctgtgt ccaaccagag aaaggaggcc gtaagccagc ccgccttatc      480

gtattcccag atctgggagt ccgtgtatgc gagaagatgg ccctctatga tgtggtctcc      540

acccttcctc aggtcgtgat gggctcctca tacggattcc agtactctcc tgggcagcga      600

gtcgagttcc tggtgaatac ctggaaatca aagaaaaacc ccatgggctt ttcatatgac      660

actcgctgtt tcgactcaac ggtcaccgag aacgacatcc gtgttgagga gtcaatttac      720

caatgttgtg acttggcccc cgaagccaga caggccataa aatcgctcac agagcggctt      780

tatatcgggg gtcctctgac taattcaaaa gggcagaact gcggttatcg ccggtgccgc      840

gcgagcggcg tgctgacgac tagctgcggt aacaccctca catgttactt gaaggcctct      900

gcagcctgtc gagctgcgaa gctccaggac tgcacgatgc tcgtgaacgg agacgacctc      960

gtcgttatct gtgaaagcgc gggaacccaa gaggacgcgg cgagcctacg agtcttcacg     1020

gaggctatga ctaggtactc cgcccccccc ggggacccgc cccaaccaga atacgacttg     1080

gagctgataa catcatgttc ctccaatgtg tcggtcgccc acgatgcatc aggcaaaagg     1140

gtgtactacc tcacccgtga tcccaccacc cccctagcac gggctgcgtg ggagacagct     1200

agacacactc cagttaactc ctggctaggc aacattatta tgtatgcgcc cactttgtgg     1260

gcaaggatga ttctgatgac tcacttcttc tccatccttc tagcgcagga gcaacttgaa     1320

aaagccctgg actgccagat ctacggggcc tgttactcca ttgagccact tgacctacct     1380

cagatcattg aacgactcca tggccttagc gcattttcac tccatagtta ctctccaggt     1440

gagatcaata gggtggcttc atgcctcagg aaacttgggg taccaccctt gcgagtctgg     1500

agacatcggg ccaggagcgt ccgcgctagg ctactgtccc agggagggag ggccgccact     1560

tgtggcaaat acctcttcaa ctgggcagta aaaaccaaac ttaaactcac tccaatcccg     1620

gctgcgtccc ggctggactt gtccggctgg ttcgttgctg gttacagcgg gggagacata     1680

tatcacagcc tgtctcgtgc ccgaccccgt tggttcatgc tgtgcctact cctactttct     1740

gtaggggtag gcatctacct gctccccaac cgatga                               1776


<210>  3
<211>  577
<212>  PRT
<213>  Artificial Sequence

<220>
<223>  Synthetic

<400>  3

Met His His His His His His Ser Met Ser Tyr Thr Trp Thr Gly Ala 
1               5                   10                  15      


Leu Ile Thr Pro Cys Ala Ala Glu Glu Ser Lys Leu Pro Ile Asn Ala 
            20                  25                  30          


Leu Ser Asn Ser Leu Leu Arg His His Asn Met Val Tyr Ala Thr Thr 
        35                  40                  45              


Ser Arg Ser Ala Gly Leu Arg Gln Lys Lys Val Thr Phe Asp Arg Leu 
    50                  55                  60                  


Gln Val Leu Asp Asp His Tyr Arg Asp Val Leu Lys Glu Met Lys Ala 
65                  70                  75                  80  


Lys Ala Ser Thr Val Lys Ala Lys Leu Leu Ser Val Glu Glu Ala Cys 
                85                  90                  95      


Lys Leu Thr Pro Pro His Ser Ala Lys Ser Lys Phe Gly Tyr Gly Ala 
            100                 105                 110         


Lys Asp Val Arg Asn Leu Ser Ser Lys Ala Val Asn His Ile His Ser 
        115                 120                 125             


Val Trp Lys Asp Leu Leu Glu Asp Thr Val Thr Pro Ile Asp Thr Thr 
    130                 135                 140                 


Ile Met Ala Lys Asn Glu Val Phe Cys Val Gln Pro Glu Lys Gly Gly 
145                 150                 155                 160 


Arg Lys Pro Ala Arg Leu Ile Val Phe Pro Asp Leu Gly Val Arg Val 
                165                 170                 175     


Cys Glu Lys Met Ala Leu Tyr Asp Val Val Ser Thr Leu Pro Gln Val 
            180                 185                 190         


Val Met Gly Ser Ser Tyr Gly Phe Gln Tyr Ser Pro Gly Gln Arg Val 
        195                 200                 205             


Glu Phe Leu Val Asn Thr Trp Lys Ser Lys Lys Asn Pro Met Gly Phe 
    210                 215                 220                 


Ser Tyr Asp Thr Arg Cys Phe Asp Ser Thr Val Thr Glu Asn Asp Ile 
225                 230                 235                 240 


Arg Val Glu Glu Ser Ile Tyr Gln Cys Cys Asp Leu Ala Pro Glu Ala 
                245                 250                 255     


Arg Gln Ala Ile Lys Ser Leu Thr Glu Arg Leu Tyr Ile Gly Gly Pro 
            260                 265                 270         


Leu Thr Asn Ser Lys Gly Gln Asn Cys Gly Tyr Arg Arg Cys Arg Ala 
        275                 280                 285             


Ser Gly Val Leu Thr Thr Ser Cys Gly Asn Thr Leu Thr Cys Tyr Leu 
    290                 295                 300                 


Lys Ala Ser Ala Ala Cys Arg Ala Ala Lys Leu Gln Asp Cys Thr Met 
305                 310                 315                 320 


Leu Val Asn Gly Asp Asp Leu Val Val Ile Cys Glu Ser Ala Gly Thr 
                325                 330                 335     


Gln Glu Asp Ala Ala Ser Leu Arg Val Phe Thr Glu Ala Met Thr Arg 
            340                 345                 350         


Tyr Ser Ala Pro Pro Gly Asp Pro Pro Gln Pro Glu Tyr Asp Leu Glu 
        355                 360                 365             


Leu Ile Thr Ser Cys Ser Ser Asn Val Ser Val Ala His Asp Ala Ser 
    370                 375                 380                 


Gly Lys Arg Val Tyr Tyr Leu Thr Arg Asp Pro Thr Thr Pro Leu Ala 
385                 390                 395                 400 


Arg Ala Ala Trp Glu Thr Ala Arg His Thr Pro Val Asn Ser Trp Leu 
                405                 410                 415     


Gly Asn Ile Ile Met Tyr Ala Pro Thr Leu Trp Ala Arg Met Ile Leu 
            420                 425                 430         


Met Thr His Phe Phe Ser Ile Leu Leu Ala Gln Glu Gln Leu Glu Lys 
        435                 440                 445             


Ala Leu Asp Cys Gln Ile Tyr Gly Ala Cys Tyr Ser Ile Glu Pro Leu 
    450                 455                 460                 


Asp Leu Pro Gln Ile Ile Glu Arg Leu His Gly Leu Ser Ala Phe Ser 
465                 470                 475                 480 


Leu His Ser Tyr Ser Pro Gly Glu Ile Asn Arg Val Ala Ser Cys Leu 
                485                 490                 495     


Arg Lys Leu Gly Val Pro Pro Leu Arg Val Trp Arg His Arg Ala Arg 
            500                 505                 510         


Ser Val Arg Ala Arg Leu Leu Ser Gln Gly Gly Arg Ala Ala Thr Cys 
        515                 520                 525             


Gly Lys Tyr Leu Phe Asn Trp Ala Val Lys Thr Lys Leu Lys Leu Thr 
    530                 535                 540                 


Pro Ile Pro Ala Ala Ser Arg Leu Asp Leu Ser Gly Trp Phe Val Ala 
545                 550                 555                 560 


Gly Tyr Ser Gly Gly Asp Ile Tyr His Ser Leu Ser Arg Ala Arg Pro 
                565                 570                 575     


Arg 
    


<210>  4
<211>  1746
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Synthetic

<400>  4
catatgcacc accaccacca ccactcaatg agttatacat ggactggagc actgattacc       60

ccgtgcgcgg cggaagaaag caaactgccg atcaacgcgc tgagcaacag cctgctgcgt      120

caccacaaca tggtgtatgc gaccaccagc cgtagcgcgg gtctgcgtca gaagaaagtg      180

accttcgacc gcctgcaagt tctggacgat cactatcgtg atgttctgaa agagatgaag      240

gcgaaagcga gcaccgtgaa ggcgaaactg ctgagcgttg aggaagcgtg caagctgacc      300

ccgccgcaca gcgcgaagag caaatttggt tacggcgcga aagacgtgcg taacctgagc      360

agcaaggcgg tgaaccacat ccacagcgtt tggaaagacc tgctggagga taccgttacc      420

ccgatcgata ccaccattat ggcgaagaac gaggtgttct gcgttcagcc ggaaaaaggt      480

ggccgtaagc cggcgcgtct gattgtgttt ccggacctgg gcgtgcgtgt ttgcgaaaaa      540

atggcgctgt atgatgtggt tagcaccctg ccgcaagtgg ttatgggtag cagctacggc      600

ttccagtata gcccgggtca acgtgtggag tttctggtta acacctggaa gagcaagaaa      660

aacccgatgg gcttcagcta cgacacccgt tgctttgata gcaccgtgac cgaaaacgac      720

atccgtgttg aggaaagcat ttatcaatgc tgcgatctgg cgccggaggc gcgtcaagcg      780

atcaaaagcc tgaccgaacg tctgtacatt ggtggcccgc tgaccaacag caagggtcag      840

aactgcggct atcgtcgttg ccgtgcgagc ggtgttctga ccaccagctg cggcaacacc      900

ctgacctgct acctgaaagc gagcgcggcg tgccgtgcgg cgaagctgca ggactgcacc      960

atgctggtga acggtgacga tctggtggtt atctgcgaga gcgcgggtac ccaagaagat     1020

gcggcgagcc tgcgtgtttt caccgaagcg atgacccgtt acagcgctcc gccgggtgac     1080

ccgccgcaac cggagtatga tctggaactg attaccagct gcagcagcaa cgtgagcgtt     1140

gcgcacgacg cgagcggcaa acgtgtgtac tatctgaccc gtgatccgac caccccgctg     1200

gcgcgtgcgg cgtgggaaac cgcgcgtcac accccggtta acagctggct gggtaacatc     1260

attatgtacg cgccgaccct gtgggcgcgt atgatcctga tgacccactt ctttagcatt     1320

ctgctggcgc aggagcaact ggaaaaggcg ctggactgcc agatctacgg cgcgtgctat     1380

agcattgagc cgctggatct gccgcaaatc attgaacgtc tgcacggtct gagcgcgttc     1440

agcctgcaca gctacagccc gggcgaaatc aaccgtgtgg cgagctgcct gcgtaaactg     1500

ggtgtgccgc cgctgcgtgt ttggcgtcac cgtgcgcgta gcgttcgtgc gcgtctgctg     1560

agccagggtg gccgtgcggc gacctgcggc aagtacctgt tcaactgggc ggtgaagacc     1620

aaactgaagc tgaccccgat tccggcggcg agccgtctgg acctgagcgg ctggttcgtt     1680

gcgggttata gcggcggcga catttaccat agcctgagcc gtgcgcgtcc gcgttaatga     1740

aagctt                                                                1746


