                         SEQUENCE LISTING

<110>  The Broad Institute, Inc.
       Massachusetts Institute of Technology
       Zhang, Feng
       Schmid-Burgk, Jonathan
       Nety, Suchita
 
<120>  Programmable Polynucleotide Editors for Enhanced Homologous 
       Recombination

<130>  BROD-4930WP

<150>  US 62/907,498
<151>  2019-09-27

<150>  US 62/952,754
<151>  2019-12-23

<160>  22    

<170>  PatentIn version 3.5

<210>  1
<211>  443
<212>  PRT
<213>  Artificial

<220>
<223>  Synthetic Peptide


<220>
<221>  misc_feature
<222>  (12)..(13)
<223>  Xaa can be any naturally occurring amino acid

<220>
<221>  misc_feature
<222>  (46)..(46)
<223>  Xaa can be any naturally occurring amino acid

<220>
<221>  misc_feature
<222>  (79)..(80)
<223>  Xaa can be any naturally occurring amino acid

<220>
<221>  misc_feature
<222>  (113)..(114)
<223>  Xaa can be any naturally occurring amino acid

<220>
<221>  misc_feature
<222>  (147)..(148)
<223>  Xaa can be any naturally occurring amino acid

<220>
<221>  misc_feature
<222>  (181)..(182)
<223>  Xaa can be any naturally occurring amino acid

<220>
<221>  misc_feature
<222>  (215)..(216)
<223>  Xaa can be any naturally occurring amino acid

<220>
<221>  misc_feature
<222>  (249)..(250)
<223>  Xaa can be any naturally occurring amino acid

<220>
<221>  misc_feature
<222>  (283)..(284)
<223>  Xaa can be any naturally occurring amino acid

<220>
<221>  misc_feature
<222>  (317)..(318)
<223>  Xaa can be any naturally occurring amino acid

<220>
<221>  misc_feature
<222>  (351)..(352)
<223>  Xaa can be any naturally occurring amino acid

<220>
<221>  misc_feature
<222>  (385)..(386)
<223>  Xaa can be any naturally occurring amino acid

<220>
<221>  misc_feature
<222>  (420)..(421)
<223>  Xaa can be any naturally occurring amino acid

<400>  1

Leu Thr Pro Ala Gln Val Val Ala Ile Ala Ser Xaa Xaa Gly Gly Lys 
1               5                   10                  15      


Gln Ala Leu Glu Thr Val Gln Arg Leu Leu Pro Val Leu Cys Gln Asp 
            20                  25                  30          


His Gly Leu Thr Pro Ala Gln Val Val Ala Ile Ala Ser Xaa Gly Gly 
        35                  40                  45              


Lys Gln Ala Leu Glu Thr Val Gln Arg Leu Leu Pro Val Leu Cys Gln 
    50                  55                  60                  


Asp His Gly Leu Thr Pro Asp Gln Val Val Ala Ile Ala Asn Xaa Xaa 
65                  70                  75                  80  


Gly Gly Lys Gln Ala Leu Ala Thr Val Gln Arg Leu Leu Pro Val Leu 
                85                  90                  95      


Cys Gln Asp His Gly Leu Thr Pro Asp Gln Val Val Ala Ile Ala Asn 
            100                 105                 110         


Xaa Xaa Gly Gly Lys Gln Ala Leu Glu Thr Leu Gln Arg Leu Leu Pro 
        115                 120                 125             


Val Leu Cys Gln Asp His Gly Leu Thr Pro Asp Gln Val Val Ala Ile 
    130                 135                 140                 


Ala Asn Xaa Xaa Gly Gly Lys Gln Ala Leu Glu Thr Val Gln Arg Leu 
145                 150                 155                 160 


Leu Pro Val Leu Cys Gln Asp His Gly Leu Thr Pro Asp Gln Val Val 
                165                 170                 175     


Ala Ile Ala Ser Xaa Xaa Gly Gly Lys Gln Ala Leu Ala Thr Val Gln 
            180                 185                 190         


Arg Leu Leu Pro Val Leu Cys Gln Asp His Gly Leu Thr Pro Asp Gln 
        195                 200                 205             


Val Val Ala Ile Ala Ser Xaa Xaa Gly Gly Lys Gln Ala Leu Glu Thr 
    210                 215                 220                 


Val Gln Arg Leu Leu Pro Val Leu Cys Gln Asp His Gly Leu Thr Pro 
225                 230                 235                 240 


Asp Gln Val Val Ala Ile Ala Ser Xaa Xaa Gly Gly Lys Gln Ala Leu 
                245                 250                 255     


Glu Thr Val Gln Arg Val Leu Pro Val Leu Cys Gln Asp His Gly Leu 
            260                 265                 270         


Thr Pro Glu Gln Val Val Ala Ile Ala Ser Xaa Xaa Gly Gly Lys Gln 
        275                 280                 285             


Ala Leu Glu Thr Val Gln Arg Leu Leu Pro Val Leu Cys Gln Ala His 
    290                 295                 300                 


Gly Leu Thr Pro Tyr Gln Val Val Ala Ile Ala Ser Xaa Xaa Gly Ser 
305                 310                 315                 320 


Lys Gln Ala Leu Glu Thr Val Gln Arg Leu Leu Pro Val Leu Cys Gln 
                325                 330                 335     


Asp His Gly Leu Thr Arg Glu Gln Val Val Ala Ile Ala Ser Xaa Xaa 
            340                 345                 350         


Gly Gly Lys Gln Ala Leu Glu Thr Val Gln Arg Leu Leu Pro Val Leu 
        355                 360                 365             


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


Xaa Xaa Gly Gly Lys Gln Ala Leu Glu Gly Ile Gly Glu Gln Leu Leu 
385                 390                 395                 400 


Lys Leu Arg Thr Ala Pro Tyr Gly Leu Ser Thr Ala Gln Val Val Ala 
                405                 410                 415     


Val Ala Ser Xaa Xaa Gly Gly Lys Pro Ala Leu Glu Ala Val Arg Ala 
            420                 425                 430         


Gln Leu Leu Ala Leu Arg Ala Ala Pro Tyr Gly 
        435                 440             


<210>  2
<211>  288
<212>  PRT
<213>  Artificial

<220>
<223>  Synthetic Peptide

<400>  2

Met Asp Pro Ile Arg Ser Arg Thr Pro Ser Pro Ala Arg Glu Leu Leu 
1               5                   10                  15      


Ser Gly Pro Gln Pro Asp Gly Val Gln Pro Thr Ala Asp Arg Gly Val 
            20                  25                  30          


Ser Pro Pro Ala Gly Gly Pro Leu Asp Gly Leu Pro Ala Arg Arg Thr 
        35                  40                  45              


Met Ser Arg Thr Arg Leu Pro Ser Pro Pro Ala Pro Ser Pro Ala Phe 
    50                  55                  60                  


Ser Ala Asp Ser Phe Ser Asp Leu Leu Arg Gln Phe Asp Pro Ser Leu 
65                  70                  75                  80  


Phe Asn Thr Ser Leu Phe Asp Ser Leu Pro Pro Phe Gly Ala His His 
                85                  90                  95      


Thr Glu Ala Ala Thr Gly Glu Trp Asp Glu Val Gln Ser Gly Leu Arg 
            100                 105                 110         


Ala Ala Asp Ala Pro Pro Pro Thr Met Arg Val Ala Val Thr Ala Ala 
        115                 120                 125             


Arg Pro Pro Arg Ala Lys Pro Ala Pro Arg Arg Arg Ala Ala Gln Pro 
    130                 135                 140                 


Ser Asp Ala Ser Pro Ala Ala Gln Val Asp Leu Arg Thr Leu Gly Tyr 
145                 150                 155                 160 


Ser Gln Gln Gln Gln Glu Lys Ile Lys Pro Lys Val Arg Ser Thr Val 
                165                 170                 175     


Ala Gln His His Glu Ala Leu Val Gly His Gly Phe Thr His Ala His 
            180                 185                 190         


Ile Val Ala Leu Ser Gln His Pro Ala Ala Leu Gly Thr Val Ala Val 
        195                 200                 205             


Lys Tyr Gln Asp Met Ile Ala Ala Leu Pro Glu Ala Thr His Glu Ala 
    210                 215                 220                 


Ile Val Gly Val Gly Lys Gln Trp Ser Gly Ala Arg Ala Leu Glu Ala 
225                 230                 235                 240 


Leu Leu Thr Val Ala Gly Glu Leu Arg Gly Pro Pro Leu Gln Leu Asp 
                245                 250                 255     


Thr Gly Gln Leu Leu Lys Ile Ala Lys Arg Gly Gly Val Thr Ala Val 
            260                 265                 270         


Glu Ala Val His Ala Trp Arg Asn Ala Leu Thr Gly Ala Pro Leu Asn 
        275                 280                 285             


<210>  3
<211>  183
<212>  PRT
<213>  Artificial

<220>
<223>  Synthetic Peptide

<400>  3

Arg Pro Ala Leu Glu Ser Ile Val Ala Gln Leu Ser Arg Pro Asp Pro 
1               5                   10                  15      


Ala Leu Ala Ala Leu Thr Asn Asp His Leu Val Ala Leu Ala Cys Leu 
            20                  25                  30          


Gly Gly Arg Pro Ala Leu Asp Ala Val Lys Lys Gly Leu Pro His Ala 
        35                  40                  45              


Pro Ala Leu Ile Lys Arg Thr Asn Arg Arg Ile Pro Glu Arg Thr Ser 
    50                  55                  60                  


His Arg Val Ala Asp His Ala Gln Val Val Arg Val Leu Gly Phe Phe 
65                  70                  75                  80  


Gln Cys His Ser His Pro Ala Gln Ala Phe Asp Asp Ala Met Thr Gln 
                85                  90                  95      


Phe Gly Met Ser Arg His Gly Leu Leu Gln Leu Phe Arg Arg Val Gly 
            100                 105                 110         


Val Thr Glu Leu Glu Ala Arg Ser Gly Thr Leu Pro Pro Ala Ser Gln 
        115                 120                 125             


Arg Trp Asp Arg Ile Leu Gln Ala Ser Gly Met Lys Arg Ala Lys Pro 
    130                 135                 140                 


Ser Pro Thr Ser Thr Gln Thr Pro Asp Gln Ala Ser Leu His Ala Phe 
145                 150                 155                 160 


Ala Asp Ser Leu Glu Arg Asp Leu Asp Ala Pro Ser Pro Met His Glu 
                165                 170                 175     


Gly Asp Gln Thr Arg Ala Ser 
            180             


<210>  4
<211>  11
<212>  PRT
<213>  Human immunodeficiency virus

<400>  4

Tyr Gly Arg Lys Lys Arg Arg Gln Arg Arg Arg 
1               5                   10      


<210>  5
<211>  9
<212>  PRT
<213>  Artificial

<220>
<223>  Homing endonuclease

<400>  5

Leu Ala Gly Leu Ile Asp Ala Asp Gly 
1               5                   


<210>  6
<211>  15
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  6

Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser 
1               5                   10                  15  


<210>  7
<211>  4
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  7

Gly Gly Gly Ser 
1               


<210>  8
<211>  5
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  8

Gly Gly Gly Gly Ser 
1               5   


<210>  9
<211>  9
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  9

Gly Gly Ser Gly Gly Ser Gly Gly Ser 
1               5                   


<210>  10
<211>  10
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  10

Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser 
1               5                   10  


<210>  11
<211>  20
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  11

Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly 
1               5                   10                  15      


Gly Gly Gly Ser 
            20  


<210>  12
<211>  25
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  12

Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly 
1               5                   10                  15      


Gly Gly Gly Ser Gly Gly Gly Gly Ser 
            20                  25  


<210>  13
<211>  30
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  13

Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly 
1               5                   10                  15      


Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser 
            20                  25                  30  


<210>  14
<211>  35
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  14

Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly 
1               5                   10                  15      


Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly 
            20                  25                  30          


Gly Gly Ser 
        35  


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

<220>
<223>  GlySer Linker

<400>  15

Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly 
1               5                   10                  15      


Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly 
            20                  25                  30          


Gly Gly Ser Gly Gly Gly Gly Ser 
        35                  40  


<210>  16
<211>  45
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  16

Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly 
1               5                   10                  15      


Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly 
            20                  25                  30          


Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser 
        35                  40                  45  


<210>  17
<211>  50
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  17

Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly 
1               5                   10                  15      


Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly 
            20                  25                  30          


Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly 
        35                  40                  45              


Gly Ser 
    50  


<210>  18
<211>  55
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  18

Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly 
1               5                   10                  15      


Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly 
            20                  25                  30          


Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly 
        35                  40                  45              


Gly Ser Gly Gly Gly Gly Ser 
    50                  55  


<210>  19
<211>  60
<212>  PRT
<213>  Artificial

<220>
<223>  GlySer Linker

<400>  19

Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly 
1               5                   10                  15      


Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly 
            20                  25                  30          


Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly 
        35                  40                  45              


Gly Ser Gly Gly Gly Gly Ser Gly Gly Gly Gly Ser 
    50                  55                  60  


<210>  20
<211>  32
<212>  PRT
<213>  Artificial

<220>
<223>  Linker

<400>  20

Leu Glu Pro Gly Glu Lys Pro Tyr Lys Cys Pro Glu Cys Gly Lys Ser 
1               5                   10                  15      


Phe Ser Gln Ser Gly Ala Leu Thr Arg His Gln Arg Thr His Thr Arg 
            20                  25                  30          


<210>  21
<211>  20
<212>  PRT
<213>  Artificial

<220>
<223>  Linker

<400>  21

Pro Lys Lys Lys Arg Lys Val Glu Ala Ser Ser Pro Lys Lys Arg Lys 
1               5                   10                  15      


Val Glu Ala Ser 
            20  


<210>  22
<211>  341
<212>  PRT
<213>  Artificial

<220>
<223>  Reverse transcriptase

<400>  22

Met Lys Thr Tyr Asn Asn Leu Phe Pro Glu Ile Tyr Ser Phe Asp Asn 
1               5                   10                  15      


Leu His Asp Ala Tyr Val Arg Ala Arg Arg Gly Lys Arg His Gln Ala 
            20                  25                  30          


Asp Val Leu Arg Phe Glu Gln Asn Leu Glu Gly Glu Leu Ile Gln Leu 
        35                  40                  45              


Gln Asn Glu Leu Ile Trp Arg Glu Tyr Glu Thr Gly Pro Tyr Arg Arg 
    50                  55                  60                  


Phe His Val His Glu Pro Lys Lys Arg Leu Val Ala Ala Leu Pro Phe 
65                  70                  75                  80  


Arg Asp Arg Val Val Gln His Ser Leu Ile Ala Ala Ile Glu Pro Ile 
                85                  90                  95      


Trp Glu Ser Arg Phe Ile Asp Gln Ser Tyr Ala Cys Arg Pro Gly Arg 
            100                 105                 110         


Gly Val His Arg Gly Ala Asp Lys Ala Gln Gln Trp Leu Arg Glu Val 
        115                 120                 125             


Arg Ala Thr His Gly Arg Val Tyr Ala Leu Lys Ala Asp Val Ala Gly 
    130                 135                 140                 


Tyr Phe Ala Ser Ile Asp His Asp Val Leu Arg Thr Gln Leu Glu Arg 
145                 150                 155                 160 


Arg Ile Ala Cys Arg Pro Thr Leu Tyr Leu Leu Leu Gly Ile Ile Glu 
                165                 170                 175     


Thr Trp His Pro Gly Leu Pro Ile Gly Asn Leu Thr Ser Gln Leu Cys 
            180                 185                 190         


Ala Asn Ile Tyr Leu His Asp Phe Asp Val Phe Ala Lys Gln His Val 
        195                 200                 205             


Gly Ala Arg Arg Tyr Met Arg Tyr Met Asp Asp Trp Leu Ile Val Asp 
    210                 215                 220                 


His Asp Lys Ala Arg Leu His Ala Gln Arg Arg Val Leu Glu Asp Trp 
225                 230                 235                 240 


Leu His Asp Asn Leu Arg Leu Gln Leu Asn Asn Lys Thr Gln Ile Phe 
                245                 250                 255     


Pro Val Ser Pro Arg His Gly Arg Gly Leu Asp Phe Leu Gly Tyr Arg 
            260                 265                 270         


Ile Trp Pro Thr His Arg Lys Ile Arg Lys Asn Ser Val Lys Arg Met 
        275                 280                 285             


Gln Lys Lys Leu Arg Ala Leu Glu Arg Arg Tyr Ala Ala Gly Asp Ile 
    290                 295                 300                 


Asp Leu Val Asp Ile Glu Pro Val Ile Gln Ser Trp Val Ala His Ala 
305                 310                 315                 320 


Ser His Ala Ser Ser Tyr Gln Ile Arg Arg Ala Val Leu Glu Arg Ala 
                325                 330                 335     


Val Phe Lys Arg Gln 
            340     


