                         SEQUENCE LISTING

<110>  Vilnius University
 
<120>  CHARACTERIZATION OF PROSTATE CANCER USING DNA METHYLATION ASSAY 
       SYSTEM

<130>  V83-58

<160>  67    

<170>  PatentIn version 3.5

<210>  1
<211>  124
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  PRKCB fully methylated MSP amplicon

<400>  1
taagcgtagt tggacgagcg gtagtagttg ggcgagtgat agtttcggtt tcgcgcgtcg       60

cggtcgttag agtcggcgta ggggaagcgt tcgcggtttc gggtgtagta gcggtcgtcg      120

tttt                                                                   124


<210>  2
<211>  241
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ADAMTS12 fully methylated MSP amplicon

<400>  2
acaacgacta caaaactacc cgcgatctcc ctatactttt ttaaacaaaa aaaaactaaa       60

cacctttttc ccctccctcc tcctaaaaaa aaaataattc aactaacaat atccgctttc      120

gacgaaatat aaaataaacc aaaacgaaaa aacgcaaccc accccgatcc ccacccctcc      180

gcctcccgca taccccgcga cctcgcaacc cgcccgctcg atacatcttc ctcccgaact      240

c                                                                      241


<210>  3
<211>  244
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  NAALAD2 fully methylated MSP amplicon

<400>  3
tatttattat gttcgggtta ttgcgggatt tatagaatgg aagttgttcg ttaataggaa       60

gaatgttttt tttttttgta gggttttttt ttttttatcg agggtttttg gggattatag      120

gtttttagcg ggtagggcgg aggcgtggtt ttgcgaaggt tagcggaggt tatttagagt      180

ttatagtttt ttgttagcgc gttttttgtt tttttgtagt ttcgaagttc gcgaatgtag      240

tagg                                                                   244


<210>  4
<211>  160
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  FILIP1L fully methylated MSP amplicon

<400>  4
cgacctataa acgttacgtc actattctac cttataaaac gctccgcgta tacgacgcta       60

tcgacgaaaa cgccgataac cgcgaaaccc tcgaccgcga cgacgacgca accacacacc      120

ccaactcccg cgaatattcc gaccgtataa acgaaccgta                            160


<210>  5
<211>  246
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ZMIZ1 fully methylated MSP amplicon

<400>  5
tcgtttcgaa aattttttaa atcgagattt aatttggatg tttagtttcg tttttttttt       60

tttttttttt tttttttttc ggtcgaggtt ttttttagtt tagttttttt ttttattttt      120

ttttcgtcgt ggatttttat tagtatgttt atttgggagg attcgttggg gggcgggaga      180

tattcgaagt tatttatcgt tagcgttttt tcggcggttt tttcgggcga tagcgtttcg      240

ggagtt                                                                 246


<210>  6
<211>  169
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  KCTD8 fully methylated MSP amplicon

<400>  6
ctccgcgtac tcctaacgct ctacgccctc gaactaaacg acgcgttcct ccgaccgaaa       60

cgaccccgct caaaattcga aacaacgacg acgtcgacga cgcccgaact ccatcgaaaa      120

aaaaacgcgc gaaaaaaaaa ctccgccgat acgacgacga caataaaaa                  169


<210>  7
<211>  164
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  CCDC181 fully methylated MSP amplicon

<400>  7
cgaaaacgac aaaaatctac gcaaacgcat acaatatcct caaaccaccg acccctcccg       60

acacccatcc cgatacttac gaaaaaccaa taaaactaaa atttctaaaa aaacgactaa      120

aaaatccacg catcactaac gttataaaaa ctcgcgaaat accg                       164


<210>  8
<211>  145
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  PRKCB fully methylated QMSP amplicon

<400>  8
cgtagttggg gttagcggtg ttaagcgtag ttggacgagc ggtagtagtt gggcgagtga       60

tagtttcggt ttcgcgcgtc gcggtcgtta gagtcggcgt aggggaagcg ttcgcggttt      120

cgggtgtagt agcggtcgtc gtttt                                            145


<210>  9
<211>  138
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ADAMTS12 fully methylated QMSP amplicon

<400>  9
tcaactaaca atatccgctt tcgacgaaat ataaaataaa ccaaaacgaa aaaacgcaac       60

ccaccccgat ccccacccct ccgcctcccg cataccccgc gacctcgcaa cccgcccgct      120

cgatacatct tcctcccg                                                    138


<210>  10
<211>  139
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  NAALAD2 fully methylated QMSP amplicon

<400>  10
tgcgaaggtt agcggaggtt atttagagtt tatagttttt tgttagcgcg ttttttgttt       60

ttttgtagtt tcgaagttcg cgaatgtagt aggcgtttta agttcggttt ttaagaagtt      120

atggcggaat ttaggggtc                                                   139


<210>  11
<211>  131
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  CCDC181 fully methylated QMSP amplicon

<400>  11
tatcctcaaa ccaccgaccc ctcccgacac ccatcccgat acttacgaaa aaccaataaa       60

actaaaattt ctaaaaaaac gactaaaaaa tccacgcatc actaacgtta taaaaactcg      120

cgaaataccg c                                                           131


<210>  12
<211>  100
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  MT1E fully methylated QMSP amplicon

<400>  12
ggaggagggt ggaaggtaat ttcggggaaa ttgggaaagg cggtttggat ttcgggaata       60

tcgcgtattt gcgggggtat agttttattc gagcgaacgg                            100


<210>  13
<211>  74
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  APC fully methylated QMSP amplicon

<400>  13
gaaccaaaac gctccccatt cccgtcgaaa acccgccgat taactaaata taaacgcacg       60

taaccgacat ataa                                                         74


<210>  14
<211>  75
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  RASSF1 fully methylated QMSP amplicon

<400>  14
cccgtacttc gctaacttta aacgctaaca aacgcgaacc gaacgaaacc acaaaacgaa       60

ccccgacttc aacgc                                                        75


<210>  15
<211>  133
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ACTB reference QMSP amplicon

<400>  15
aaccaataaa acctactcct cccttaaaaa ttacaaaaac cacaacctaa taaaaaaaat       60

aaccaccacc caacacacaa taacaaacac aaattcacaa tccaaaaaac ttactaaacc      120

tcctccatca cca                                                         133


<210>  16
<211>  19
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  PRKCB methylated sense primer

<400>  16
taagcgtagt tggacgagc                                                    19


<210>  17
<211>  20
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  PRKCB methylated antisense primer

<400>  17
aaaacgacga ccgctactac                                                   20


<210>  18
<211>  22
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  PRKCB unmethylated sense primer

<400>  18
tgttaagtgt agttggatga gt                                                22


<210>  19
<211>  23
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  PRKCB unmethylated antisense primer

<400>  19
aaaacaacaa ccactactac acc                                               23


<210>  20
<211>  22
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ADAMTS12 methylated sense primer

<400>  20
gagttcggga ggaagatgta tc                                                22


<210>  21
<211>  22
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ADAMTS12 methylated antisense primer

<400>  21
acaacgacta caaaactacc cg                                                22


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

<220>
<223>  ADAMTS12 unmethylated sense primer

<400>  22
gagtttggga ggaagatgta tt                                                22


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

<220>
<223>  ADAMTS12 unmethylated antisense primer

<400>  23
aaacaacaac tacaaaacta cca                                               23


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

<220>
<223>  NAALAD2 methylated sense primer

<400>  24
tatttattat gttcgggtta ttgc                                              24


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

<220>
<223>  NAALAD2 methylated antisense primer

<400>  25
cctactacat tcgcgaactt c                                                 21


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

<220>
<223>  NAALAD2 unmethylated sense primer

<400>  26
gttatttatt atgtttgggt tattgt                                            26


<210>  27
<211>  23
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  NAALAD2 unmethylated antisense primer

<400>  27
cctactacat tcacaaactt caa                                               23


<210>  28
<211>  20
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  FILIP1L methylated sense primer

<400>  28
tacggttcgt ttatacggtc                                                   20


<210>  29
<211>  21
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  FILIP1L methylated antisense primer

<400>  29
cgacctataa acgttacgtc a                                                 21


<210>  30
<211>  25
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  FILIP1L unmethylated sense primer

<400>  30
ggaattatgg tttgtttata tggtt                                             25


<210>  31
<211>  24
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  FILIP1L unmethylated antisense primer

<400>  31
cccaacctat aaacattaca tcac                                              24


<210>  32
<211>  23
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ZMIZ1 methylated sense primer

<400>  32
tcgtttcgaa aattttttaa atc                                               23


<210>  33
<211>  18
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ZMIZ1 methylated antisense primer

<400>  33
aactcccgaa acgctatc                                                     18


<210>  34
<211>  27
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ZMIZ1 unmethylated sense primer

<400>  34
tgtagtttgt tttgaaaatt ttttaaa                                           27


<210>  35
<211>  21
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ZMIZ1 unmethylated antisense primer

<400>  35
aactcccaaa acactatcac c                                                 21


<210>  36
<211>  22
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  KCTD8 methylated sense primer

<400>  36
tttttattgt cgtcgtcgta tc                                                22


<210>  37
<211>  18
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  KCTD8 methylated antisense primer

<400>  37
ctccgcgtac tcctaacg                                                     18


<210>  38
<211>  25
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  KCTD8 unmethylated sense primer

<400>  38
gtttttttat tgttgttgtt gtatt                                             25


<210>  39
<211>  21
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  KCTD8 unmethylated antisense primer

<400>  39
accctccaca tactcctaac a                                                 21


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

<220>
<223>  CCDC181 methylated sense primer

<400>  40
cggtatttcg cgagttttta taac                                              24


<210>  41
<211>  21
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  CCDC181 methylated antisense primer

<400>  41
cgaaaacgac aaaaatctac g                                                 21


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

<220>
<223>  CCDC181 unmethylated sense primer

<400>  42
tagtggtatt ttgtgagttt ttataat                                           27


<210>  43
<211>  24
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  CCDC181 unmethylated antisense primer

<400>  43
acaaaaacaa caaaaatcta caca                                              24


<210>  44
<211>  20
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  PRKCB methylated sense primer

<400>  44
cgtagttggg gttagcggtg                                                   20


<210>  45
<211>  21
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  PRKCB methylated antisense primer

<400>  45
aaaacgacga ccgctactac a                                                 21


<210>  46
<211>  23
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  PRKCB hydrolysis probe


<220>
<221>  misc_feature
<222>  (1)..(1)
<223>  JOE

<220>
<221>  misc_feature
<222>  (23)..(23)
<223>  BHQ1 (black hole quencher 1)

<400>  46
ttagagtcgg cgtaggggaa gcg                                               23


<210>  47
<211>  21
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ADAMTS12 methylated sense primer

<400>  47
cgggaggaag atgtatcgag c                                                 21


<210>  48
<211>  23
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ADAMTS12 methylated antisense primer

<400>  48
tcaactaaca atatccgctt tcg                                               23


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

<220>
<223>  ADAMTS12 hydrolysis probe


<220>
<221>  misc_feature
<222>  (1)..(1)
<223>  CY5

<220>
<221>  misc_feature
<222>  (27)..(27)
<223>  BHQ3 (black hole quencher 3)

<400>  49
tttcgttttg gtttatttta tatttcg                                           27


<210>  50
<211>  19
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  NAALAD2 methylated sense primer

<400>  50
tgcgaaggtt agcggaggt                                                    19


<210>  51
<211>  21
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  NAALAD2 methylated antisense primer

<400>  51
gacccctaaa ttccgccata a                                                 21


<210>  52
<211>  23
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  NAALAD2 hydrolysis probe


<220>
<221>  misc_feature
<222>  (1)..(1)
<223>  FAM

<220>
<221>  misc_feature
<222>  (23)..(23)
<223>  BHQ1 (black hole quencher 1)

<400>  52
gaagttcgcg aatgtagtag gcg                                               23


<210>  53
<211>  22
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  CCDC181 methylated sense primer

<400>  53
gcggtatttc gcgagttttt at                                                22


<210>  54
<211>  19
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  CCDC181 methylated antisense primer

<400>  54
tatcctcaaa ccaccgacc                                                    19


<210>  55
<211>  22
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  CCDC181 hydrolysis probe


<220>
<221>  misc_feature
<222>  (1)..(1)
<223>  FAM

<220>
<221>  misc_feature
<222>  (22)..(22)
<223>  BHQ1 (black hole quencher 1)

<400>  55
agtatcggga tgggtgtcgg ga                                                22


<210>  56
<211>  20
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  MT1E methylated sense primer

<400>  56
ggaggagggt ggaaggtaat                                                   20


<210>  57
<211>  21
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  MT1E methylated antisense primer

<400>  57
ccgttcgctc gaataaaact a                                                 21


<210>  58
<211>  24
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  MT1E hydrolysis probe


<220>
<221>  misc_feature
<222>  (1)..(1)
<223>  JOE

<220>
<221>  misc_feature
<222>  (24)..(24)
<223>  BHQ1 (black hole quencher 1)

<400>  58
atttcgggaa tatcgcgtat ttgc                                              24


<210>  59
<211>  19
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  APC methylated sense primer

<400>  59
gaaccaaaac gctccccat                                                    19


<210>  60
<211>  27
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  APC methylated antisense primer

<400>  60
ttatatgtcg gttacgtgcg tttatat                                           27


<210>  61
<211>  22
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  APC hydrolysis probe


<220>
<221>  misc_feature
<222>  (1)..(1)
<223>  CY5

<220>
<221>  misc_feature
<222>  (22)..(22)
<223>  BHQ3 (black hole quencher 3)

<400>  61
cccgtcgaaa acccgccgat ta                                                22


<210>  62
<211>  18
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  RASSF1 methylated sense primer

<400>  62
gcgttgaagt cggggttc                                                     18


<210>  63
<211>  24
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  RASSF1 methylated antisense primer

<400>  63
cccgtacttc gctaacttta aacg                                              24


<210>  64
<211>  24
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  RASSF1 hydrolysis probe


<220>
<221>  misc_feature
<222>  (1)..(1)
<223>  FAM

<220>
<221>  misc_feature
<222>  (24)..(24)
<223>  BHQ1 (black hole quencher 1) or TAMRA

<400>  64
acaaacgcga accgaacgaa acca                                              24


<210>  65
<211>  25
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ACTB reference sense primer

<400>  65
tggtgatgga ggaggtttag taagt                                             25


<210>  66
<211>  27
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ACTB reference antisense primer

<400>  66
aaccaataaa acctactcct cccttaa                                           27


<210>  67
<211>  30
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  ACTB hydrolysis probe


<220>
<221>  misc_feature
<222>  (1)..(1)
<223>  FAM

<220>
<221>  misc_feature
<222>  (30)..(30)
<223>  BHQ1 (black hole quencher 1) or TAMRA

<400>  67
accaccaccc aacacacaat aacaaacaca                                        30


