                         SEQUENCE LISTING

<110>  CALIMMUNE, INC.
       CALIMMUNE AUSTRALIA PTY LTD
       NEWSOUTH INNOVATIONS PTY LIMITED
       ST. VINCENT'S HOSPITAL SYDNEY
       SYMONDS, Geoffrey Phillip
       SUZUKI, Kazuo
       KELLEHER, Anthony Dominic
       AHLENSTIEL, Chantelle Lisa Evelyn
 
<120>  GENE THERAPEUTIC FOR THE TREATMENT OF HIV AND USES THEREOF

<130>  Cal-002WO

<150>  US 62/163,332
<151>  2015-05-18

<160>  43    

<170>  PatentIn version 3.5

<210>  1
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  143 to 161 5' LTR U3

<400>  1
gctagtacca gttgagcca                                                    19


<210>  2
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  strain BaL, subtypes B, D, F, H, J, K (143 to 161 5' LTR U3)

<400>  2
gctagtacca gttgagcca                                                    19


<210>  3
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  subtype A (143 to 161 5' LTR U3)

<400>  3
gctagtacca gttgatcca                                                    19


<210>  4
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  subtype C (143 to 161 5' LTR U3)

<400>  4
gctagtgcca gttgaccca                                                    19


<210>  5
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  subtype G (143 to 161 5' LTR U3)

<400>  5
gctagtacca gtggaccca                                                    19


<210>  6
<211>  19
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: RNA duplex sense strand (143 to 161 5' LTR U3)

<400>  6
gcuaguacca guugagcca                                                    19


<210>  7
<211>  19
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: RNA duplex antisense strand (143 to 161 5' LTR U3)

<400>  7
uggcucaacu gguacuagc                                                    19


<210>  8
<211>  57
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: shRNA (143 to 161 5' LTR U3)

<400>  8
gcuaguacca guugagccac ugugaagcca cagaugggug gcucaacugg uacuagc          57


<210>  9
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  136 to 154 5' LTR U3

<400>  9
gctacaagct agtaccagt                                                    19


<210>  10
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  strain SF162, subtypes A, B, F, H, J, K (136 to 154 5' LTR U3)

<400>  10
gcttcaagct agtaccagt                                                    19


<210>  11
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  subtype C (136 to 154 5' LTR U3)

<400>  11
gcttcaagct agtgccagt                                                    19


<210>  12
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  subtype D (136 to 154 5' LTR U3)

<400>  12
gcttcgagct agtaccagt                                                    19


<210>  13
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  subtype G (136 to 154 5' LTR U3)

<400>  13
gcttcaaact agtaccaat                                                    19


<210>  14
<211>  19
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: RNA duplex sense strand (136 to 154 5' LTR U3)

<400>  14
gcuacaagcu aguaccagu                                                    19


<210>  15
<211>  19
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: RNA duplex antisense strand (136 to 154 5' LTR U3)

<400>  15
acugguacua gcuuguagc                                                    19


<210>  16
<211>  57
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: shRNA (136 to 154 5' LTR U3)

<400>  16
gcuucaagcu aguaccaguc ugugaagcca cagaugggac ugguacuagc uugaagc          57


<210>  17
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  205 to 223 5' LTR U3

<400>  17
acaccctatg agcctgcat                                                    19


<210>  18
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  strain SF162, subtypes A, B, H, J, K (205 to 223 5' LTR U3)

<400>  18
acaccctatg agcctgcat                                                    19


<210>  19
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  subtype C and D (205 to 223 5' LTR U3)

<400>  19
acaccctatg agccagcat                                                    19


<210>  20
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  Subtype F (205 to 223 5' LTR U3)

<400>  20
acaccccatg agccaacat                                                    19


<210>  21
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  Subtype G (205 to 223 5' LTR U3)

<400>  21
acaccccatc tgccagcat                                                    19


<210>  22
<211>  19
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: RNA duplex sense strand (205 to 223 5' LTR U3)

<400>  22
acacccugug agccugcau                                                    19


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

<220>
<223>  Synthetic: RNA duplex antisense strand (205 to 223 5' LTR U3)

<400>  23
augcaggcuc acagggugu                                                    19


<210>  24
<211>  57
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: shRNA (205 to 223 5' LTR U3)

<400>  24
acacccuaug agccugcauc ugugaagcca cagaugggau gcaggcucau agggugu          57


<210>  25
<211>  51
<212>  RNA
<213>  Unknown

<220>
<223>  shRNA targeting CCR5 receptor

<400>  25
gagcaagcuc aguuuacacc uuguccgacg guguaaacug agcuugcucu u                51


<210>  26
<211>  135
<212>  PRT
<213>  Artificial Sequence

<220>
<223>  Synthetic: C46 HIV fusion inhibitor

<400>  26

Met Gly Ala Gly Ala Thr Gly Arg Ala Met Asp Gly Pro Arg Leu Leu 
1               5                   10                  15      


Leu Leu Leu Leu Leu Gly Val Ser Leu Gly Gly Ala Arg Ser Trp Met 
            20                  25                  30          


Glu Trp Asp Arg Glu Ile Asn Asn Tyr Thr Ser Leu Ile His Ser Leu 
        35                  40                  45              


Ile Glu Glu Ser Gln Asn Gln Gln Glu Lys Asn Glu Gln Glu Leu Leu 
    50                  55                  60                  


Glu Leu Asp Lys Trp Ala Ser Leu Trp Asn Trp Phe Arg Ser Glu Arg 
65                  70                  75                  80  


Lys Cys Cys Val Glu Cys Pro Pro Cys Pro Ala Pro Pro Val Ala Gly 
                85                  90                  95      


Pro Leu Ile Ala Leu Val Thr Ser Gly Ala Leu Leu Ala Val Leu Gly 
            100                 105                 110         


Ile Thr Gly Tyr Phe Leu Met Asn Arg Arg Ser Trp Ser Pro Thr Gly 
        115                 120                 125             


Glu Arg Leu Glu Leu Glu Pro 
    130                 135 


<210>  27
<211>  408
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: C46 HIV fusion inhibitor

<400>  27
atgggagcag gagcaaccgg aagggcaatg gacggaccac ggctgctgct gctgctgctg       60

ctgggcgtga gcctgggcgg cgcccggagc tggatggagt gggaccggga gatcaacaac      120

tacaccagcc tgatccacag cctgatcgag gagagccaga accagcagga gaagaacgag      180

caggagctgc tggagctgga caagtgggcc agcctgtgga actggttccg gagcgagcgg      240

aagtgctgcg tggagtgccc accatgccca gcaccaccag tggcaggacc cctgatcgca      300

ctggtgacca gcggagccct gctggccgtg ctgggcatca caggctactt cctgatgaac      360

cggcggagct ggagccccac cggcgagcgg ctggagctgg agccctga                   408


<210>  28
<211>  493
<212>  PRT
<213>  Homo sapiens


<220>
<221>  misc_feature
<222>  (1)..(493)
<223>  human TRIM5-alpha protein

<400>  28

Met Ala Ser Gly Ile Leu Val Asn Val Lys Glu Glu Val Thr Cys Pro 
1               5                   10                  15      


Ile Cys Leu Glu Leu Leu Thr Gln Pro Leu Ser Leu Asp Cys Gly His 
            20                  25                  30          


Ser Phe Cys Gln Ala Cys Leu Thr Ala Asn His Lys Lys Ser Met Leu 
        35                  40                  45              


Asp Lys Gly Glu Ser Ser Cys Pro Val Cys Arg Ile Ser Tyr Gln Pro 
    50                  55                  60                  


Glu Asn Ile Arg Pro Asn Arg His Val Ala Asn Ile Val Glu Gly Leu 
65                  70                  75                  80  


Arg Glu Val Lys Leu Ser Pro Glu Gly Gln Lys Val Asp His Cys Ala 
                85                  90                  95      


Arg His Gly Glu Lys Leu Leu Leu Phe Cys Gln Glu Asp Gly Lys Val 
            100                 105                 110         


Ile Cys Trp Leu Cys Glu Arg Ser Gln Glu His Arg Gly His His Thr 
        115                 120                 125             


Phe Leu Thr Glu Glu Val Ala Arg Glu Tyr Gln Val Lys Leu Gln Ala 
    130                 135                 140                 


Ala Leu Glu Met Leu Arg Gln Lys Gln Gln Glu Ala Glu Glu Leu Glu 
145                 150                 155                 160 


Ala Asp Ile Arg Glu Glu Lys Ala Ser Trp Lys Thr Gln Ile Gln Tyr 
                165                 170                 175     


Asp Lys Thr Asn Val Leu Ala Asp Phe Glu Gln Leu Arg Asp Ile Leu 
            180                 185                 190         


Asp Trp Glu Glu Ser Asn Glu Leu Gln Asn Leu Glu Lys Glu Glu Glu 
        195                 200                 205             


Asp Ile Leu Lys Ser Leu Thr Asn Ser Glu Thr Glu Met Val Gln Gln 
    210                 215                 220                 


Thr Gln Ser Leu Arg Glu Leu Ile Ser Asp Leu Glu His Arg Leu Gln 
225                 230                 235                 240 


Gly Ser Val Met Glu Leu Leu Gln Gly Val Asp Gly Val Ile Lys Arg 
                245                 250                 255     


Thr Glu Asn Val Thr Leu Lys Lys Pro Glu Thr Phe Pro Lys Asn Gln 
            260                 265                 270         


Arg Arg Val Phe Arg Ala Pro Asp Leu Lys Gly Met Leu Glu Val Phe 
        275                 280                 285             


Arg Glu Leu Thr Asp Val Arg Arg Tyr Trp Val Asp Val Thr Val Ala 
    290                 295                 300                 


Pro Asn Asn Ile Ser Cys Ala Val Ile Ser Glu Asp Lys Arg Gln Val 
305                 310                 315                 320 


Ser Ser Pro Lys Pro Gln Ile Ile Tyr Gly Ala Arg Gly Thr Arg Tyr 
                325                 330                 335     


Gln Thr Phe Val Asn Phe Asn Tyr Cys Thr Gly Ile Leu Gly Ser Gln 
            340                 345                 350         


Ser Ile Thr Ser Gly Lys Ser Tyr Trp Glu Val Asp Val Ser Lys Lys 
        355                 360                 365             


Thr Ala Trp Ile Leu Gly Val Cys Ala Gly Phe Gln Pro Asp Ala Met 
    370                 375                 380                 


Cys Asn Ile Glu Lys Asn Glu Asn Tyr Gln Pro Asn Tyr Gly Tyr Trp 
385                 390                 395                 400 


Val Ile Gly Leu Glu Glu Gly Val Lys Cys Ser Ala Phe Gln Asp Ser 
                405                 410                 415     


Ser Phe His Thr Pro Ser Val Pro Phe Ile Val Pro Leu Ser Val Leu 
            420                 425                 430         


Ile Cys Pro Asp Arg Val Gly Val Phe Leu Asp Tyr Glu Ala Cys Thr 
        435                 440                 445             


Val Ser Phe Phe Asn Ile Thr Asn His Gly Phe Leu Ile Tyr Lys Phe 
    450                 455                 460                 


Ser His Cys Ser Phe Ser Gln Pro Val Phe Pro Tyr Leu Asn Pro Arg 
465                 470                 475                 480 


Lys Cys Gly Val Pro Met Thr Leu Cys Ser Pro Ser Ser 
                485                 490             


<210>  29
<211>  1482
<212>  DNA
<213>  Homo sapiens


<220>
<221>  misc_feature
<222>  (1)..(1482)
<223>  human TRIM5-alpha protein nucleic acid sequence

<400>  29
atggcttctg gaatcctggt taatgtaaag gaggaggtga cctgccccat ctgcctggaa       60

ctcctgacac aacccctgag cctggactgc ggccacagct tctgccaagc atgcctcact      120

gcaaaccaca agaagtccat gctagacaaa ggagagagta gctgccctgt gtgccggatc      180

agttaccagc ctgagaacat acggcctaat cggcatgtag ccaacatagt ggagaagctc      240

agggaggtca agttgagccc agaggggcag aaagttgatc attgtgcacg ccatggagag      300

aaacttctac tcttctgtca ggaggacggg aaggtcattt gctggctttg tgagcggtct      360

caggagcacc gtggtcacca cacgttcctc acagaggagg ttgcccggga gtaccaagtg      420

aagctccagg cagctctgga gatgctgagg cagaagcagc aggaagctga agagttagaa      480

gctgacatca gagaagagaa agcttcctgg aagactcaaa tacagtatga caaaaccaac      540

gtcttggcag attttgagca actgagagac atcctggact gggaggagag caatgagctg      600

caaaacctgg agaaggagga ggaagacatt ctgaaaagcc ttacgaactc tgaaactgag      660

atggtgcagc agacccagtc cctgagagag ctcatctcag atctggagca tcggctgcag      720

gggtcagtga tggagctgct tcagggtgtg gatggcgtca taaaaaggac ggagaacgtg      780

accttgaaga agccagaaac ttttccaaaa aatcaaagga gagtgtttcg agctcctgat      840

ctgaaaggaa tgctagaagt gtttagagag ctgacagatg tccgacgcta ctgggttgat      900

gtgacagtgg ctccaaacaa catttcatgt gctgtcattt ctgaagataa gagacaagtg      960

agctctccga aaccacagat aatatatggg gcacgaggga caagatacca gacatttgtg     1020

aatttcaatt attgtactgg catcctgggc tctcaaagta tcacatcagg gaaacattac     1080

tgggaggtag acgtgtccaa gaaaactgct tggatcctgg gggtatgtgc tggcttccaa     1140

cctgatgcaa tgtgtaatat tgaaaaaaat gaaaattatc aacctaaata cggctactgg     1200

gttatagggt tagaggaagg agttaaatgt agtgctttcc aggatagttc cttccatact     1260

ccttctgttc ctttcattgt gcccctctct gtgattattt gtcctgatcg tgttggagtt     1320

ttcctagact atgaggcttg cactgtctca ttcttcaata tcacaaacca tggatttctc     1380

atctataagt tttctcagtg ttctttttct cagcctgtat ttccatattt aaatcctaga     1440

aaatgtggag tccccatgac tctgtgctca ccaagctctt ga                        1482


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

<220>
<223>  Synthetic: HIV-gag sense primer

<400>  30
agtgggggga catcaagcag ccatgcaaat                                        30


<210>  31
<211>  28
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: HIV-gag antisense primer

<400>  31
tactagtagt tcctgctatg tcacttcc                                          28


<210>  32
<211>  29
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: HIV-gag detection probe


<220>
<221>  misc_feature
<223>  5' FAM / 3' TAMRA

<400>  32
atcaatgagg aagctgcaga atgggatag                                         29


<210>  33
<211>  25
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: Beta-actin sense primer

<400>  33
tcacccacac tgtgcccatc tacga                                             25


<210>  34
<211>  25
<212>  DNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: Beta-actin anti-sense primer

<400>  34
cagcggaacc gctcattgcc aatgg                                             25


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

<220>
<223>  Synthetic: Beta-actin detection probe


<220>
<221>  misc_feature
<223>  5' FAM / 3' TAMRA

<400>  35
atgccctccc ccatgccatc ctgcg                                             25


<210>  36
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  350 to 368 5' LTR U3-PromA

<400>  36
gggactttcc gctggggac                                                    19


<210>  37
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  Strain NL4.3, subtypes A, B, D, F, H, J, K (350 to 368 5LTR 
       U3-PromA)

<400>  37
gggactttcc gctggggac                                                    19


<210>  38
<211>  18
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(18)
<223>  Subtype C (350 to 368 5LTR U3-PromA)

<400>  38
gggactttcc actggggc                                                     18


<210>  39
<211>  19
<212>  DNA
<213>  HIV-1


<220>
<221>  misc_feature
<222>  (1)..(19)
<223>  Subtype G (350 to 368 5LTR U3-PromA)

<400>  39
gggactttcc gcctgggac                                                    19


<210>  40
<211>  19
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: RNA duplex sense strand (350 to 368 5 LTR U3-PromA)

<400>  40
gggacuuucc gcuggggac                                                    19


<210>  41
<211>  19
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: RNA duplex antisense strand (350 to 368 5 LTR 
       U3-PromA)

<400>  41
guccccagcg gaaaguccc                                                    19


<210>  42
<211>  57
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: shRNA (350 to 368 5LTR U3-PromA)

<400>  42
gggacuuucc gcuggggacc ugugaagcca cagauggggu ccccagcgga aaguccc          57


<210>  43
<211>  19
<212>  RNA
<213>  Artificial Sequence

<220>
<223>  Synthetic: shRNA Loop sequence

<400>  43
cugugaagcc acagauggg                                                    19


