LOCUS       sequence-345353-        7483 bp    DNA     circular SYN 15-DEC-2025
DEFINITION  encodes AAV-S capsid for efficient gene delivery to the mammalian 
            cochlea.
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 7483)
  AUTHORS   Ivanchenko MV, Hanlon KS, Hathaway DM, Klein AJ, Peters CW, Li Y, 
            Tamvakologos PI, Nammour J, Maguire CA, Corey DP
  TITLE     AAV-S: A versatile capsid variant for transduction of mouse and 
            primate inner ear.
  JOURNAL   Mol Ther Methods Clin Dev. 2021 Mar 29;21:382-398. doi: 
            10.1016/j.omtm.2021.03.019. eCollection 2021 Jun 11.
  PUBMED    33869656
REFERENCE   2  (bases 1 to 7483)
  AUTHORS   .
  TITLE     Direct Submission
  JOURNAL   Exported Dec 15, 2025 from SnapGene Server 8.0.1
            https://www.snapgene.com
COMMENT     SGRef: number: 1; type: "Journal Article"; journalName: "Mol Ther 
            Methods Clin Dev."; date: "2021-03-29"; volume: "21:382-398. doi"; 
            pages: " 10.1016/j.omtm.2021.03.019. eCollection 2021 Jun 11"
COMMENT     Sequence Label: pAAV-S in pAR9 (rep/cap)
FEATURES             Location/Qualifiers
     source          1..7483
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     CDS             3973..3984
                     /codon_start=1
                     /product="WELQut protease recognition and cleavage site"
                     /label=WELQut site
                     /translation="WELQ"
     promoter        complement(4209..4227)
                     /label=T3 promoter
                     /note="promoter for bacteriophage T3 RNA polymerase"
     primer_bind     complement(4248..4264)
                     /label=M13 rev
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     primer_bind     complement(4248..4264)
                     /label=M13 Reverse
                     /note="In lacZ gene. Also called M13-rev"
     primer_bind     complement(4261..4283)
                     /label=M13/pUC Reverse
                     /note="In lacZ gene"
     protein_bind    4272..4288
                     /label=lac operator
                     /bound_moiety="lac repressor encoded by lacI"
                     /note="The lac repressor binds to the lac operator to 
                     inhibit transcription in E. coli. This inhibition can be 
                     relieved by adding lactose or 
                     isopropyl-beta-D-thiogalactopyranoside (IPTG)."
     promoter        complement(join(4296..4302,4303..4320,4321..4326))
                     /label=lac promoter
                     /note="promoter for the E. coli lac operon"
     protein_bind    4341..4362
                     /label=CAP binding site
                     /bound_moiety="E. coli catabolite activator protein"
                     /note="CAP binding activates transcription in the presence 
                     of cAMP."
     primer_bind     complement(4479..4496)
                     /label=L4440
                     /note="L4440 vector, forward primer"
     rep_origin      complement(4650..5238)
                     /direction=LEFT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     complement(4730..4749)
                     /label=pBR322ori-F
                     /note="pBR322 origin, forward primer"
     CDS             complement(join(5409..6200,6201..6269))
                     /codon_start=1
                     /gene="bla"
                     /product="beta-lactamase"
                     /label=AmpR
                     /note="confers resistance to ampicillin, carbenicillin, and
                     related antibiotics"
                     /translation="MSIQHFRVALIPFFAAFCLPVFAHPETLVKVKDAEDQLGARVGYI
                     ELDLNSGKILESFRPEERFPMMSTFKVLLCGAVLSRIDAGQEQLGRRIHYSQNDLVEYS
                     PVTEKHLTDGMTVRELCSAAITMSDNTAANLLLTTIGGPKELTAFLHNMGDHVTRLDRW
                     EPELNEAIPNDERDTTMPVAMATTLRKLLTGELLTLASRQQLIDWMEADKVAGPLLRSA
                     LPAGWFIADKSGAGERGSRGIIAALGPDGKPSRIVVIYTTGSQATMDERNRQIAEIGAS
                     LIKHW"
     primer_bind     6032..6051
                     /label=Amp-R
                     /note="Ampicillin resistance gene, reverse primer"
     promoter        complement(6270..6374)
                     /gene="bla"
                     /label=AmpR promoter
     primer_bind     6442..6460
                     /label=pBRforEco
                     /note="pBR322 vectors, upsteam of EcoRI site, forward 
                     primer"
     primer_bind     complement(6498..6520)
                     /label=pGEX 3'
                     /note="pGEX vectors, reverse primer"
     primer_bind     6620..6639
                     /label=pRS-marker
                     /note="pRS vectors, use to sequence yeast selectable 
                     marker"
     rep_origin      complement(6706..7161)
                     /direction=LEFT
                     /label=f1 ori
                     /note="f1 bacteriophage origin of replication; arrow 
                     indicates direction of (+) strand synthesis"
     primer_bind     complement(6843..6864)
                     /label=F1ori-F
                     /note="F1 origin, forward primer"
     primer_bind     7055..7074
                     /label=F1ori-R
                     /note="F1 origin, reverse primer"
     primer_bind     7287..7309
                     /label=M13/pUC Forward
                     /note="In lacZ gene"
     primer_bind     7301..7318
                     /label=M13 Forward
                     /note="In lacZ gene. Also called M13-F20 or M13 (-21) 
                     Forward"
     primer_bind     7302..7318
                     /label=M13 fwd
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     primer_bind     7325..7344
                     /label=T7
                     /note="T7 promoter, forward primer"
     promoter        7325..7343
                     /label=T7 promoter
                     /note="promoter for bacteriophage T7 RNA polymerase"
ORIGIN
        1 ttgaacgcgc agccaccacg ccggggtttt acgagattgt gattaaggtc cccagcgacc
       61 ttgacgagca tctgcccggc atttctgaca gctttgtgaa ctgggtggcc gagaaggaat
      121 gggagttgcc gccagattct gacatggatc tgaatctgat tgagcaggca cccctgaccg
      181 tggccgagaa gctgcagcgc gactttctga cggaatggcg ccgtgtgagt aaggccccgg
      241 aggccctttt ctttgtgcaa tttgagaagg gagagagcta cttccacatg cacgtgctcg
      301 tggaaaccac cggggtgaaa tccatggttt tgggacgttt cctgagtcag attcgcgaaa
      361 aactgattca gagaatttac cgcgggatcg agccgacttt gccaaactgg ttcgcggtca
      421 caaagaccag aaatggcgcc ggaggcggga acaaggtggt ggatgagtgc tacatcccca
      481 attacttgct ccccaaaacc cagcctgagc tccagtgggc gtggactaat atggaacagt
      541 atttaagcgc ctgtttgaat ctcacggagc gtaaacggtt ggtggcgcag catctgacgc
      601 acgtgtcgca gacgcaggag cagaacaaag agaatcagaa tcccaattct gatgcgccgg
      661 tgatcagatc aaaaacttca gccaggtaca tggagctggt cgggtggctc gtggacaagg
      721 ggattacctc ggagaagcag tggatccagg aggaccaggc ctcatacatc tccttcaatg
      781 cggcctccaa ctcgcggtcc caaatcaagg ctgccttgga caatgcggga aagattatga
      841 gcctgactaa aaccgccccc gactacctgg tgggccagca gcccgtggag gacatttcca
      901 gcaatcggat ttataaaatt ttggaactaa acgggtacga tccccaatat gcggcttccg
      961 tctttctggg atgggccacg aaaaagttcg gcaagaggaa caccatctgg ctgtttgggc
     1021 ctgcaactac cgggaagacc aacatcgcgg aggccatagc ccacactgtg cccttctacg
     1081 ggtgcgtaaa ctggaccaat gagaactttc ccttcaacga ctgtgtcgac aagatggtga
     1141 tctggtggga ggaggggaag atgaccgcca aggtcgtgga gtcggccaaa gccattctcg
     1201 gaggaagcaa ggtgcgcgtg gaccagaaat gcaagtcctc ggcccagata gacccgactc
     1261 ccgtgatcgt cacctccaac accaacatgt gcgccgtgat tgacgggaac tcaacgacct
     1321 tcgaacacca gcagccgttg caagaccgga tgttcaaatt tgaactcacc cgccgtctgg
     1381 atcatgactt tgggaaggtc accaagcagg aagtcaaaga ctttttccgg tgggcaaagg
     1441 atcacgtggt tgaggtggag catgaattct acgtcaaaaa gggtggagcc aagaaaagac
     1501 ccgcccccag tgacgcagat ataagtgagc ccaaacgggt gcgcgagtca gttgcgcagc
     1561 catcgacgtc agacgcggaa gcttcgatca actacgcaga caggtaccaa aacaaatgtt
     1621 ctcgtcacgt gggcatgaat ctgatgctgt ttccctgcag acaatgcgag agaatgaatc
     1681 agaattcaaa tatctgcttc actcacggac agaaagactg tttagagtgc tttcccgtgt
     1741 cagaatctca acccgtttct gtcgtcaaaa aggcgtatca gaaactgtgc tacattcatc
     1801 atatcatggg aaaggtgcca gacgcttgca ctgcctgcga tctggtcaat gtggatttgg
     1861 atgactgcat ctttgaacaa taaatgattt aaatcaggta tggctgccga tggttatctt
     1921 ccagattggc tcgaggacaa ccttagtgaa ggaattcgcg agtggtgggc tttgaaacct
     1981 ggagcccctc aacccaaggc aaatcaacaa catcaagaca acgctcgagg tcttgtgctt
     2041 ccgggttaca aataccttgg acccggcaac ggactcgaca agggggagcc ggtcaacgca
     2101 gcagacgcgg cggccctcga gcacgacaag gcctacgacc agcagctcaa ggccggagac
     2161 aacccgtacc tcaagtacaa ccacgccgac gccgagttcc aggagcggct caaagaagat
     2221 acgtcttttg ggggcaacct cgggcgagca gtcttccagg ccaaaaagag gcttcttgaa
     2281 cctcttggtc tggttgagga agcggctaag acggctcctg gaaagaagag gcctgtagag
     2341 cagtctcctc aggaaccgga ctcctccgcg ggtattggca aatcgggtgc acagcccgct
     2401 aaaaagagac tcaatttcgg tcagactggc gacacagagt cagtcccaga ccctcaacca
     2461 atcggagaac ctcccgcagc cccctcaggt gtgggatctc ttacaatggc ttcaggtggt
     2521 ggcgcaccag tggcagacaa taacgaaggt gccgatggag tgggtagttc ctcgggaaat
     2581 tggcattgcg attcccaatg gctgggggac agagtcatca ccaccagcac ccgaacctgg
     2641 gccctgccca cctacaacaa tcacctctac aagcaaatct ccaacagcac atctggagga
     2701 tcttcaaatg acaacgccta cttcggctac agcaccccct gggggtattt tgacttcaac
     2761 agattccact gccacttctc accacgtgac tggcagcgac tcatcaacaa caactgggga
     2821 ttccggccta agcgactcaa cttcaagctc ttcaacattc aggtcaaaga ggttacggac
     2881 aacaatggag tcaagaccat cgccaataac cttaccagca cggtccaggt cttcacggac
     2941 tcagactatc agctcccgta cgtgctcggg tcggctcacg agggctgcct cccgccgttc
     3001 ccagcggacg ttttcatgat tcctcagtac gggtatctga cgcttaatga tggaagccag
     3061 gccgtgggtc gttcgtcctt ttactgcctg gaatatttcc cgtcgcaaat gctaagaacg
     3121 ggtaacaact tccagttcag ctacgagttt gagaacgtac ctttccatag cagctacgct
     3181 cacagccaaa gcctggaccg actaatgaat ccactcatcg accaatactt gtactatctc
     3241 tcaaagacta ttaacggttc tggacagaat caacaaacgc taaaattcag tgtggccgga
     3301 cccagcaaca tggctgtcca gggaagaaac tacatacctg gacccagcta ccgacaacaa
     3361 cgtgtctcaa ccactgtgac tcaaaacaac aacagcgaat ttgcttggcc tggagcttct
     3421 tcttgggctc tcaatggacg taatagcttg atgaatcctg gacctgctat ggccagccac
     3481 aaagaaggag aggaccgttt ctttcctttg tctggatctt taatttttgg caaacaagga
     3541 actggaagag acaacgtgga tgcggacaaa gtcatgataa ccaacgaaga agaaattaaa
     3601 actactaacc cggtagcaac ggagtcctat ggacaagtgg ccacaaacca ccagagtgcc
     3661 caatctacta cgctttatag tcctgcacag gcgcagaccg gctgggttca aaaccaagga
     3721 atacttccgg gtatggtttg gcaggacaga gatgtgtacc tgcaaggacc catttgggcc
     3781 aaaattcctc acacggacgg caactttcac ccttctccgc tgatgggagg gtttggaatg
     3841 aagcacccgc ctcctcagat cctcatcaaa aacacacctg tacctgcgga tcctccaacg
     3901 gccttcaaca aggacaagct gaactctttc atcacccagt attctactgg ccaagtcagc
     3961 gtggagatcg agtgggagct gcagaaggaa aacagcaagc gctggaaccc ggagatccag
     4021 tacacttcca actattacaa gtctaataat gttgaatttg ctgttaatac tgaaggtgta
     4081 tatagtgaac cccgccccat tggcaccaga tacctgactc gtaatctgta attacgtgtt
     4141 aatcaataaa ccggttgatt cgtttcagtt gaactttggt gtcgcggccg ctcgataagc
     4201 ttttgttccc tttagtgagg gttaatttcg agcttggcgt aatcatggtc atagctgttt
     4261 cctgtgtgaa attgttatcc gctcacaatt ccacacaaca tacgagccgg aagcataaag
     4321 tgtaaagcct ggggtgccta atgagtgagc taactcacat taattgcgtt gcgctcactg
     4381 cccgctttcc agtcgggaaa cctgtcgtgc cagctgcatt aatgaatcgg ccaacgcgcg
     4441 gggagaggcg gtttgcgtat tgggcgctct tccgcttcct cgctcactga ctcgctgcgc
     4501 tcggtcgttc ggctgcggcg agcggtatca gctcactcaa aggcggtaat acggttatcc
     4561 acagaatcag gggataacgc aggaaagaac atgtgagcaa aaggccagca aaaggccagg
     4621 aaccgtaaaa aggccgcgtt gctggcgttt ttccataggc tccgcccccc tgacgagcat
     4681 cacaaaaatc gacgctcaag tcagaggtgg cgaaacccga caggactata aagataccag
     4741 gcgtttcccc ctggaagctc cctcgtgcgc tctcctgttc cgaccctgcc gcttaccgga
     4801 tacctgtccg cctttctccc ttcgggaagc gtggcgcttt ctcatagctc acgctgtagg
     4861 tatctcagtt cggtgtaggt cgttcgctcc aagctgggct gtgtgcacga accccccgtt
     4921 cagcccgacc gctgcgcctt atccggtaac tatcgtcttg agtccaaccc ggtaagacac
     4981 gacttatcgc cactggcagc agccactggt aacaggatta gcagagcgag gtatgtaggc
     5041 ggtgctacag agttcttgaa gtggtggcct aactacggct acactagaag aacagtattt
     5101 ggtatctgcg ctctgctgaa gccagttacc ttcggaaaaa gagttggtag ctcttgatcc
     5161 ggcaaacaaa ccaccgctgg tagcggtggt ttttttgttt gcaagcagca gattacgcgc
     5221 agaaaaaaag gatctcaaga agatcctttg atcttttcta cggggtctga cgctcagtgg
     5281 aacgaaaact cacgttaagg gattttggtc atgagattat caaaaaggat cttcacctag
     5341 atccttttaa attaaaaatg aagttttaaa tcaatctaaa gtatatatga gtaaacttgg
     5401 tctgacagtt accaatgctt aatcagtgag gcacctatct cagcgatctg tctatttcgt
     5461 tcatccatag ttgcctgact ccccgtcgtg tagataacta cgatacggga gggcttacca
     5521 tctggcccca gtgctgcaat gataccgcga gacccacgct caccggctcc agatttatca
     5581 gcaataaacc agccagccgg aagggccgag cgcagaagtg gtcctgcaac tttatccgcc
     5641 tccatccagt ctattaattg ttgccgggaa gctagagtaa gtagttcgcc agttaatagt
     5701 ttgcgcaacg ttgttgccat tgctacaggc atcgtggtgt cacgctcgtc gtttggtatg
     5761 gcttcattca gctccggttc ccaacgatca aggcgagtta catgatcccc catgttgtgc
     5821 aaaaaagcgg ttagctcctt cggtcctccg atcgttgtca gaagtaagtt ggccgcagtg
     5881 ttatcactca tggttatggc agcactgcat aattctctta ctgtcatgcc atccgtaaga
     5941 tgcttttctg tgactggtga gtactcaacc aagtcattct gagaatagtg tatgcggcga
     6001 ccgagttgct cttgcccggc gtcaatacgg gataataccg cgccacatag cagaacttta
     6061 aaagtgctca tcattggaaa acgttcttcg gggcgaaaac tctcaaggat cttaccgctg
     6121 ttgagatcca gttcgatgta acccactcgt gcacccaact gatcttcagc atcttttact
     6181 ttcaccagcg tttctgggtg agcaaaaaca ggaaggcaaa atgccgcaaa aaagggaata
     6241 agggcgacac ggaaatgttg aatactcata ctcttccttt ttcaatatta ttgaagcatt
     6301 tatcagggtt attgtctcat gagcggatac atatttgaat gtatttagaa aaataaacaa
     6361 ataggggttc cgcgcacatt tccccgaaaa gtgccacctg acgtctaaga aaccattatt
     6421 atcatgacat taacctataa aaataggcgt atcacgaggc cctttcgtct cgcgcgtttc
     6481 ggtgatgacg gtgaaaacct ctgacacatg cagctcccgg agacggtcac agcttgtctg
     6541 taagcggatg ccgggagcag acaagcccgt cagggcgcgt cagcgggtgt tggcgggtgt
     6601 cggggctggc ttaactatgc ggcatcagag cagattgtac tgagagtgca ccatatgcgg
     6661 tgtgaaatac cgcacagatg cgtaaggaga aaataccgca tcaggaaatt gtaagcgtta
     6721 atattttgtt aaaattcgcg ttaaattttt gttaaatcag ctcatttttt aaccaatagg
     6781 ccgaaatcgg caaaatccct tataaatcaa aagaatagac cgagataggg ttgagtgttg
     6841 ttccagtttg gaacaagagt ccactattaa agaacgtgga ctccaacgtc aaagggcgaa
     6901 aaaccgtcta tcagggcgat ggcccactac gtgaaccatc accctaatca agttttttgg
     6961 ggtcgaggtg ccgtaaagca ctaaatcgga accctaaagg gagcccccga tttagagctt
     7021 gacggggaaa gccggcgaac gtggcgagaa aggaagggaa gaaagcgaaa ggagcgggcg
     7081 ctagggcgct ggcaagtgta gcggtcacgc tgcgcgtaac caccacaccc gccgcgctta
     7141 atgcgccgct acagggcgcg tccattcgcc attcaggctg cgcaactgtt gggaagggcg
     7201 atcggtgcgg gcctcttcgc tattacgcca gctggcgaaa gggggatgtg ctgcaaggcg
     7261 attaagttgg gtaacgccag ggttttccca gtcacgacgt tgtaaaacga cggccagtga
     7321 attgtaatac gactcactat agggcgaatt cgagctcggt acccctagag gtcctgtatt
     7381 agaggtcacg tgagtgtttt gcgacatttt gcgacaccat gtggtcacgc tgggtattta
     7441 agcccgagtg agcacgcagg gtctccattt tgaagcggga ggt
//
