                         SEQUENCE LISTING



<110>  Yeda Research and Development Co. Ltd.

       Jaitin, Diego

       Amit, Ido

       Keren-Shaul, Hadas

 

<120>  HIGH THROUGHPUT TRANSCRIPTOME ANALYSIS



<130>  58165



<150>  US 61/750,454

<151>  2013-01-09



<160>  118   



<170>  PatentIn version 3.5



<210>  1

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Exemplary contemplated sequence of the 3' single stranded 

       overhang of the adapter polynucleotide





<220>

<221>  misc_feature

<222>  (4)..(6)

<223>  n is a, c, g, or t



<400>  1

gggnnn                                                                   6





<210>  2

<211>  3

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Exemplary contemplated sequence of the 3' single stranded 

       overhang of the adapter polynucleotide



<400>  2

ttt                                                                      3





<210>  3

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Exemplary contemplated sequence of the 3' single stranded 

       overhang of the adapter polynucleotide





<220>

<221>  misc_feature

<222>  (4)..(6)

<223>  n is a, c, g, or t



<400>  3

tttnnn                                                                   6





<210>  4

<211>  3

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Exemplary contemplated sequence of the 3' single stranded 

       overhang of the adapter polynucleotide





<220>

<221>  misc_feature

<222>  (1)..(1)

<223>  n is a, c, g, or t



<400>  4

ngg                                                                      3





<210>  5

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Exemplary contemplated sequence of the 3' single stranded 

       overhang of the adapter polynucleotide





<220>

<221>  misc_feature

<222>  (1)..(1)

<223>  n is a, c, g, or t



<220>

<221>  misc_feature

<222>  (4)..(6)

<223>  n is a, c, g, or t



<400>  5

nggnnn                                                                   6





<210>  6

<211>  3

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Exemplary contemplated sequence of the 3' single stranded 

       overhang of the adapter polynucleotide





<220>

<221>  misc_feature

<222>  (1)..(1)

<223>  n is a, c, g, or t



<400>  6

ntt                                                                      3





<210>  7

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Exemplary contemplated sequence of the 3' single stranded 

       overhang of the adapter polynucleotide





<220>

<221>  misc_feature

<222>  (1)..(1)

<223>  n is a, c, g, or t



<220>

<221>  misc_feature

<222>  (4)..(6)

<223>  n is a, c, g, or t



<400>  7

nttnnn                                                                   6





<210>  8

<211>  3

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Exemplary contemplated sequence of the 3' single stranded 

       overhang of the adapter polynucleotide



<400>  8

tgg                                                                      3





<210>  9

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Exemplary contemplated sequence of the 3' single stranded 

       overhang of the adapter polynucleotide





<220>

<221>  misc_feature

<222>  (4)..(6)

<223>  n is a, c, g, or t



<400>  9

tggnnn                                                                   6





<210>  10

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  10

tgcggc                                                                   6





<210>  11

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  11

atataa                                                                   6





<210>  12

<211>  86

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Indexed RT primer





<220>

<221>  misc_feature

<222>  (25)..(32)

<223>  Barcode sequence for multiplexing



<220>

<221>  misc_feature

<222>  (86)..(86)

<223>  n is a, c, g, or t



<400>  12

caagcagaag acggcatacg agatnnnnnn nngtgactgg agttcagacg tgtgctcttc       60



cgatcttttt tttttttttt tttttn                                            86





<210>  13

<211>  28

<212>  DNA

<213>  Artificial sequence



<220>

<223>  TRANSeq ligation adapter (Sense strand)





<220>

<221>  misc_feature

<223>  5' C3 Spacer (5SpC3)



<220>

<221>  misc_feature

<222>  (26)..(28)

<223>  n is a, c, g, or t



<400>  13

ctacacgacg ctcttccgat ctgggnnn                                          28





<210>  14

<211>  22

<212>  DNA

<213>  Artificial sequence



<220>

<223>  TRANSeq ligation adapter (Antisense strand)





<220>

<221>  misc_feature

<223>  5' Phosphorylation



<400>  14

agatcggaag agcgtcgtgt ag                                                22





<210>  15

<211>  58

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Single strand DNA oligonucleotide



<400>  15

aatgatacgg cgaccaccga gatctacact ctttccctac acgacgctct tccgatct         58





<210>  16

<211>  24

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Single strand DNA oligonucleotide



<400>  16

caagcagaag acggcatacg agat                                              24





<210>  17

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  17

tggtag                                                                   6





<210>  18

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  18

agcatg                                                                   6





<210>  19

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  19

atgtgc                                                                   6





<210>  20

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  20

cgagca                                                                   6





<210>  21

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  21

attgct                                                                   6





<210>  22

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  22

gcaact                                                                   6





<210>  23

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  23

aactgg                                                                   6





<210>  24

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  24

gctcaa                                                                   6





<210>  25

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  25

gttggt                                                                   6





<210>  26

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  26

tggacc                                                                   6





<210>  27

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  27

ttatac                                                                   6





<210>  28

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  28

agcgaa                                                                   6





<210>  29

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  29

caagtt                                                                   6





<210>  30

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  30

gatgtg                                                                   6





<210>  31

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  31

ttccga                                                                   6





<210>  32

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  32

atcctt                                                                   6





<210>  33

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  33

gtgtgc                                                                   6





<210>  34

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  34

gccaga                                                                   6





<210>  35

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  35

gctatg                                                                   6





<210>  36

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  36

ctcctg                                                                   6





<210>  37

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  37

ccgaca                                                                   6





<210>  38

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  38

cataat                                                                   6





<210>  39

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  39

ggtagg                                                                   6





<210>  40

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  40

taagta                                                                   6





<210>  41

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  41

ttcttc                                                                   6





<210>  42

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  42

gatcct                                                                   6





<210>  43

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  43

actgtc                                                                   6





<210>  44

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  44

catagg                                                                   6





<210>  45

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  45

aggcga                                                                   6





<210>  46

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  46

cgctat                                                                   6





<210>  47

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  47

ggcgac                                                                   6





<210>  48

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  48

tagaat                                                                   6





<210>  49

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  49

gtaacg                                                                   6





<210>  50

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  50

tcagac                                                                   6





<210>  51

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  51

gcgtaa                                                                   6





<210>  52

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  52

attcaa                                                                   6





<210>  53

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  53

tgtctt                                                                   6





<210>  54

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  54

ttgctg                                                                   6





<210>  55

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  55

gctgga                                                                   6





<210>  56

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  56

ctctgg                                                                   6





<210>  57

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  57

caagga                                                                   6





<210>  58

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  58

taacct                                                                   6





<210>  59

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  59

gatgac                                                                   6





<210>  60

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  60

cgaagg                                                                   6





<210>  61

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  61

ccgaga                                                                   6





<210>  62

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  62

gacaat                                                                   6





<210>  63

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  63

aggttc                                                                   6





<210>  64

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  64

tcatta                                                                   6





<210>  65

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  65

tgcgtt                                                                   6





<210>  66

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  66

gagttg                                                                   6





<210>  67

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  67

ttacag                                                                   6





<210>  68

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  68

tgctta                                                                   6





<210>  69

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  69

aacatt                                                                   6





<210>  70

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  70

ccgctg                                                                   6





<210>  71

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  71

ctggtc                                                                   6





<210>  72

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  72

tggata                                                                   6





<210>  73

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  73

acctgt                                                                   6





<210>  74

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  74

tgttgg                                                                   6





<210>  75

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  75

gacggc                                                                   6





<210>  76

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  76

cagata                                                                   6





<210>  77

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  77

cttagt                                                                   6





<210>  78

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  78

aaggcg                                                                   6





<210>  79

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  79

ctaggc                                                                   6





<210>  80

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  80

gcagca                                                                   6





<210>  81

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  81

ttacct                                                                   6





<210>  82

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  82

agttag                                                                   6





<210>  83

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  83

tgttac                                                                   6





<210>  84

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  84

attaca                                                                   6





<210>  85

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  85

gataat                                                                   6





<210>  86

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  86

gcatag                                                                   6





<210>  87

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  87

gtggac                                                                   6





<210>  88

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  88

agacaa                                                                   6





<210>  89

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  89

attgtt                                                                   6





<210>  90

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  90

aggaat                                                                   6





<210>  91

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  91

tccttc                                                                   6





<210>  92

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  92

tagcga                                                                   6





<210>  93

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  93

aactgt                                                                   6





<210>  94

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  94

ctattg                                                                   6





<210>  95

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  95

acggtc                                                                   6





<210>  96

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  96

tgcaga                                                                   6





<210>  97

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  97

tacagt                                                                   6





<210>  98

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  98

tgctgg                                                                   6





<210>  99

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  99

taggtc                                                                   6





<210>  100

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  100

cttgca                                                                   6





<210>  101

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  101

catgct                                                                   6





<210>  102

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  102

atagcg                                                                   6





<210>  103

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  103

gatatc                                                                   6





<210>  104

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  104

gttaca                                                                   6





<210>  105

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  105

cgacct                                                                   6





<210>  106

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  106

ccgcag                                                                   6





<210>  107

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  107

ggctgc                                                                   6





<210>  108

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  108

gattaa                                                                   6





<210>  109

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  109

gcacct                                                                   6





<210>  110

<211>  6

<212>  DNA

<213>  Artificial sequence



<220>

<223>  Barcode sequence



<400>  110

ccacag                                                                   6





<210>  111

<211>  25

<212>  DNA

<213>  Artificial sequence



<220>

<223>  P5 adapter sequence



<400>  111

aatgatacgg cgaccaccga gatct                                             25





<210>  112

<211>  24

<212>  DNA

<213>  Artificial sequence



<220>

<223>  P7 adapter sequence



<400>  112

atctcgtatg ccgtcttctg cttg                                              24





<210>  113

<211>  35

<212>  DNA

<213>  Artificial sequence



<220>

<223>  T7 RNA polymerase promoter sequence



<400>  113

cgattgaggc cggtaatacg actcactata ggggc                                  35





<210>  114

<211>  86

<212>  DNA

<213>  Artificial Sequence



<220>

<223>  Single strand DNA oligonucleotide





<220>

<221>  misc_feature

<222>  (56)..(65)

<223>  n is a, c, g, or t



<220>

<221>  misc_feature

<222>  (56)..(61)

<223>  Barcode sequence



<220>

<221>  misc_feature

<222>  (61)..(65)

<223>  unique molecular identifier



<220>

<221>  misc_feature

<222>  (86)..(86)

<223>  V is A, G or C



<400>  114

cgattgaggc cggtaatacg actcactata ggggcgacgt gtgctcttcc gatctnnnnn       60



nnnnnttttt tttttttttt tttttv                                            86





<210>  115

<211>  22

<212>  DNA

<213>  Artificial Sequence



<220>

<223>  Single strand DNA oligonucleotide





<220>

<221>  misc_feature

<223>  3' blocker (C3 spacer)



<220>

<221>  misc_feature

<223>  5' Phosphorylation



<400>  115

agatcggaag agcgtcgtgt ag                                                22





<210>  116

<211>  22

<212>  DNA

<213>  Artificial Sequence



<220>

<223>  Single strand DNA oligonucleotide



<400>  116

tctagccttc tcgcagcaca tc                                                22





<210>  117

<211>  58

<212>  DNA

<213>  Artificial Sequence



<220>

<223>  Single strand DNA oligonucleotide



<400>  117

aatgatacgg cgaccaccga gatctacact ctttccctac acgacgctct tccgatct         58





<210>  118

<211>  58

<212>  DNA

<213>  Artificial Sequence



<220>

<223>  Single strand DNA oligonucleotide



<400>  118

caagcagaag acggcatacg agatgtgact ggagttcaga cgtgtgctct tccgatct         58





