LOCUS       sequence-243930-        6860 bp    DNA     circular SYN 15-DEC-2025
DEFINITION  AAV mediated expression of ArchT-tdTomato under the Syn promoter, in
            floxed/reversed (Cre-dependent) manner. tdTomato has codons varied 
            to reduce recombination. Using bGHpA signal..
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 6860)
  AUTHORS   Han X, Chow BY, Zhou H, Klapoetke NC, Chuong A, Rajimehr R, Yang A, 
            Baratta MV, Winkle J, Desimone R, Boyden ES
  TITLE     A high-light sensitivity optical neural silencer: development and 
            application to optogenetic control of non-human primate cortex.
  JOURNAL   Front Syst Neurosci. 2011;5:18. Epub 2011 Apr 13.
  PUBMED    21811444
REFERENCE   2  (bases 1 to 6860)
  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: "Front Syst 
            Neurosci."; date: "2011"; volume: "5"; pages: "18. Epub 2011 Apr 13"
COMMENT     Sequence Label: pAAV-Syn-FLEX-rc [ArchT-tdTomato]
FEATURES             Location/Qualifiers
     source          1..6860
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     rep_origin      complement(182..770)
                     /direction=LEFT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     complement(262..281)
                     /label=pBR322ori-F
                     /note="pBR322 origin, forward primer"
     CDS             complement(join(941..1732,1733..1801))
                     /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     1564..1583
                     /label=Amp-R
                     /note="Ampicillin resistance gene, reverse primer"
     promoter        complement(1802..1906)
                     /gene="bla"
                     /label=AmpR promoter
     rep_origin      complement(1932..2387)
                     /direction=LEFT
                     /label=f1 ori
                     /note="f1 bacteriophage origin of replication; arrow 
                     indicates direction of (+) strand synthesis"
     primer_bind     complement(2069..2090)
                     /label=F1ori-F
                     /note="F1 origin, forward primer"
     primer_bind     2281..2300
                     /label=F1ori-R
                     /note="F1 origin, reverse primer"
     repeat_region   2459..2588
                     /label=AAV2 ITR
     promoter        2691..3138
                     /label=hSyn promoter
                     /note="human synapsin I promoter; confers neuron-specific 
                     expression (Kugler et al., 2003)"
     protein_bind    3154..3187
                     /label=lox2272
                     /bound_moiety="Cre recombinase"
                     /note="Cre-mediated recombination occurs in the 8-bp core 
                     sequence (AAGTATCC) (Shaw et al., 2021). lox2272 sites are 
                     compatible with each other, but incompatible with loxP or 
                     loxN sites (Lee and Saito, 1988)."
     protein_bind    3250..3283
                     /label=loxP
                     /bound_moiety="Cre recombinase"
                     /note="Cre-mediated recombination occurs in the 8-bp core 
                     sequence (ATGTATGC) (Shaw et al., 2021)."
     regulatory      5480..5489
                     /label=Kozak sequence
                     /note="vertebrate consensus sequence for strong initiation 
                     of translation (Kozak, 1987)"
                     /regulatory_class="other"
     protein_bind    complement(5500..5533)
                     /label=lox2272
                     /bound_moiety="Cre recombinase"
                     /note="Cre-mediated recombination occurs in the 8-bp core 
                     sequence (AAGTATCC) (Shaw et al., 2021). lox2272 sites are 
                     compatible with each other, but incompatible with loxP or 
                     loxN sites (Lee and Saito, 1988)."
     protein_bind    complement(5604..5637)
                     /label=loxP
                     /bound_moiety="Cre recombinase"
                     /note="Cre-mediated recombination occurs in the 8-bp core 
                     sequence (ATGTATGC) (Shaw et al., 2021)."
     misc_feature    5670..6258
                     /label=WPRE
                     /note="woodchuck hepatitis virus posttranscriptional 
                     regulatory element"
     primer_bind     complement(5723..5743)
                     /label=WPRE-R
                     /note="WPRE, reverse primer"
     CDS             complement(6141..6152)
                     /codon_start=1
                     /product="Factor Xa recognition and cleavage site"
                     /label=Factor Xa site
                     /translation="IEGR"
     polyA_signal    6299..6506
                     /label=bGH poly(A) signal
                     /note="bovine growth hormone polyadenylation signal"
     repeat_region   6676..6805
                     /label=AAV2 ITR
ORIGIN
        1 cttccgcttc ctcgctcact gactcgctgc gctcggtcgt tcggctgcgg cgagcggtat
       61 cagctcactc aaaggcggta atacggttat ccacagaatc aggggataac gcaggaaaga
      121 acatgtgagc aaaaggccag caaaaggcca ggaaccgtaa aaaggccgcg ttgctggcgt
      181 ttttccatag gctccgcccc cctgacgagc atcacaaaaa tcgacgctca agtcagaggt
      241 ggcgaaaccc gacaggacta taaagatacc aggcgtttcc ccctggaagc tccctcgtgc
      301 gctctcctgt tccgaccctg ccgcttaccg gatacctgtc cgcctttctc ccttcgggaa
      361 gcgtggcgct ttctcatagc tcacgctgta ggtatctcag ttcggtgtag gtcgttcgct
      421 ccaagctggg ctgtgtgcac gaaccccccg ttcagcccga ccgctgcgcc ttatccggta
      481 actatcgtct tgagtccaac ccggtaagac acgacttatc gccactggca gcagccactg
      541 gtaacaggat tagcagagcg aggtatgtag gcggtgctac agagttcttg aagtggtggc
      601 ctaactacgg ctacactaga agaacagtat ttggtatctg cgctctgctg aagccagtta
      661 ccttcggaaa aagagttggt agctcttgat ccggcaaaca aaccaccgct ggtagcggtg
      721 gtttttttgt ttgcaagcag cagattacgc gcagaaaaaa aggatctcaa gaagatcctt
      781 tgatcttttc tacggggtct gacgctcagt ggaacgaaaa ctcacgttaa gggattttgg
      841 tcatgagatt atcaaaaagg atcttcacct agatcctttt aaattaaaaa tgaagtttta
      901 aatcaatcta aagtatatat gagtaaactt ggtctgacag ttaccaatgc ttaatcagtg
      961 aggcacctat ctcagcgatc tgtctatttc gttcatccat agttgcctga ctccccgtcg
     1021 tgtagataac tacgatacgg gagggcttac catctggccc cagtgctgca atgataccgc
     1081 gagacccacg ctcaccggct ccagatttat cagcaataaa ccagccagcc ggaagggccg
     1141 agcgcagaag tggtcctgca actttatccg cctccatcca gtctattaat tgttgccggg
     1201 aagctagagt aagtagttcg ccagttaata gtttgcgcaa cgttgttgcc attgctacag
     1261 gcatcgtggt gtcacgctcg tcgtttggta tggcttcatt cagctccggt tcccaacgat
     1321 caaggcgagt tacatgatcc cccatgttgt gcaaaaaagc ggttagctcc ttcggtcctc
     1381 cgatcgttgt cagaagtaag ttggccgcag tgttatcact catggttatg gcagcactgc
     1441 ataattctct tactgtcatg ccatccgtaa gatgcttttc tgtgactggt gagtactcaa
     1501 ccaagtcatt ctgagaatag tgtatgcggc gaccgagttg ctcttgcccg gcgtcaatac
     1561 gggataatac cgcgccacat agcagaactt taaaagtgct catcattgga aaacgttctt
     1621 cggggcgaaa actctcaagg atcttaccgc tgttgagatc cagttcgatg taacccactc
     1681 gtgcacccaa ctgatcttca gcatctttta ctttcaccag cgtttctggg tgagcaaaaa
     1741 caggaaggca aaatgccgca aaaaagggaa taagggcgac acggaaatgt tgaatactca
     1801 tactcttcct ttttcaatat tattgaagca tttatcaggg ttattgtctc atgagcggat
     1861 acatatttga atgtatttag aaaaataaac aaataggggt tccgcgcaca tttccccgaa
     1921 aagtgccacc taaattgtaa gcgttaatat tttgttaaaa ttcgcgttaa atttttgtta
     1981 aatcagctca ttttttaacc aataggccga aatcggcaaa atcccttata aatcaaaaga
     2041 atagaccgag atagggttga gtgttgttcc agtttggaac aagagtccac tattaaagaa
     2101 cgtggactcc aacgtcaaag ggcgaaaaac cgtctatcag ggcgatggcc cactacgtga
     2161 accatcaccc taatcaagtt ttttggggtc gaggtgccgt aaagcactaa atcggaaccc
     2221 taaagggagc ccccgattta gagcttgacg gggaaagccg gcgaacgtgg cgagaaagga
     2281 agggaagaaa gcgaaaggag cgggcgctag ggcgctggca agtgtagcgg tcacgctgcg
     2341 cgtaaccacc acacccgccg cgcttaatgc gccgctacag ggcgcgtccc attcgccatt
     2401 caggctgcgc aactgttggg aagggcgatc ggtgcgggcc tcttcgctat tacgccagct
     2461 gcgcgctcgc tcgctcactg aggccgcccg ggcaaagccc gggcgtcggg cgacctttgg
     2521 tcgcccggcc tcagtgagcg agcgagcgcg cagagaggga gtggccaact ccatcactag
     2581 gggttccttg tagttaatga ttaacccgcc atgctactta tctacgtagc catgctctag
     2641 gaagatcgta ggttaattaa gtgtctagac tgcagagggc cctgcgtatg agtgcaagtg
     2701 ggttttagga ccaggatgag gcggggtggg ggtgcctacc tgacgaccga ccccgaccca
     2761 ctggacaagc acccaacccc cattccccaa attgcgcatc ccctatcaga gagggggagg
     2821 ggaaacagga tgcggcgagg cgcgtgcgca ctgccagctt cagcaccgcg gacagtgcct
     2881 tcgcccccgc ctggcggcgc gcgccaccgc cgcctcagca ctgaaggcgc gctgacgtca
     2941 ctcgccggtc ccccgcaaac tccccttccc ggccaccttg gtcgcgtccg cgccgccgcc
     3001 ggcccagccg gaccgcacca cgcgaggcgc gagatagggg ggcacgggcg cgaccatctg
     3061 cgctgcggcg ccggcgactc agcgctgcct cagtctgcgg tgggcagcgg aggagtcgtg
     3121 tcgtgcctga gagcgcagtc gagaagaatt cccataactt cgtataaagt atcctatacg
     3181 aagttatatc aaaataggaa gaccaatgct tcaccatcga cccgaattgc caagcatcac
     3241 catcgaccca taacttcgta taatgtatgc tatacgaagt tatactagct agctcattac
     3301 ttatacagct catccatgcc gtacagaaac agatggtggc gtccttcaga cctctcatac
     3361 tgttccacaa tggtgtagtc ttcattgtgg gatgtgatat ccagcttggt gtccacatag
     3421 taatagccgg gcagctgcac tggtttcttg gccatgtaga tggttttgaa ctccaccagg
     3481 tagtggccgc cgtctttcag cttcagggcc tggtggattt cgcccttcag cactccgtct
     3541 ctaggataca gccgttcagt gctggcctcc caccccattg ttttcttctg catcacgggc
     3601 ccatcgggtg gaaaattggt gccgcgcatt ttgactttgt agatcagagt gccatcctgc
     3661 agagaggagt cctgtgtcac ggtcaccagg cctccatctt caaaattcat cactctctcc
     3721 cacttaaagc cctctgggaa agacagtttc ttgtaatcag gaatgtcagc gggatgcttg
     3781 acataggcct tacttccgta cataaactga ggagacagga tatcccaagc gaaaggcagt
     3841 ggtcctccct tggtcacttt cagcttggca gtctgtgtgc cctcgtaagg cctcccttcg
     3901 ccctctcctt caatctcaaa ttcgtgccca ttcatgctgc cctccatgcg caccttaaac
     3961 ctcatgaact ctttgatcac agccatattg ttatcctcgc ttgaggcggt tccactagac
     4021 cctgagccgg tacttccagt cccatggccc aggaacagat ggtgtctccc ctcgctccgt
     4081 tcatactgct ccacaatagt gtagtcctcg ttgtgtgaag tgatatccag ttttgtgtcc
     4141 acgtaatagt agcctggcag ctgcacaggt ttcttggcca tgtagattgt cttgaactcc
     4201 accaggtaat gtcccccatc tttcagcttc agagcctggt ggatttctcc tttcagcacc
     4261 ccgtcgcgtg gatacagcct ttcggtggag gcctcccatc ccatagtttt cttctgcatc
     4321 acaggtccat cagggggaaa atttgtccct ctcattttca ccttgtagat cagggtccca
     4381 tcctgcaggg agctgtcctg ggtcacagtc accaggcctc cgtcctcgaa gttcatcact
     4441 ctttcccact taaacccctc ggggaagctc agtttcttat aatcgggaat gtcagctgga
     4501 tgtttcacat aggccttgga gccgtacata aactgtgggc tcaggatgtc ccaagcgaat
     4561 ggcagaggcc cgccctttgt cactttcagc ttggctgtct gggtgccctc gtagggccgt
     4621 ccctctcctt ctccctcaat ttcgaactcg tggccgttca tgcttccttc cattctcacc
     4681 ttaaaccgca tgaactcttt gatcacttcc tcgcccttac tcactgctac taccggtcgg
     4741 ggctcggggg cctcggtgtc gcccaggatg gccctgctcc tcagcaggat gaagccgaag
     4801 cccactttgg cggtcacgtc cagcaccatg aacagcaggg tctcgattcc cagtcccacc
     4861 actccagctc cctcggttcc gatgatccac aggatggggt aggcggtcca cagcaccagc
     4921 accagggcgg tcagggtgtt gaaggtgcta gccacctctg gtcccctctc cttagcagca
     4981 gccctcaggc tggtagccag gaagtacagc accacgatca tgcagatggt gctgaacagc
     5041 caccagctgt acctagccag tggggtgtgg ctcagggcgc cgatcaggcc ggtcacgatc
     5101 atcagggcgt ccactcccac cagggttccg atgctcaccc tgtccacctt agccagcagg
     5161 gccaggtcga gcagaagcaa aggggtggtg aacagccagt cggcgtatct ggcgtagtag
     5221 atgtccagca cctcgccggc cacggtcacc tcggtcaggc cgatgccgaa gaacatgctc
     5281 aggtaggcgg cgctggcgat gccgggcacc aggattgtga tgctgtagta ctccctggcc
     5341 tccttgtcgg tcacgcccca gcccttcacg atgaagtaga aggtgccgat cagcatcagc
     5401 agggttccga ttcccagcca cagggtctct ggccttccgt cgcccagcag gtcgtatcct
     5461 gcctgcagag cgatggggtc catggtggcg gtacctagta taacttcgta taggatactt
     5521 tatacgaagt tatcattggg attcttccta ttttgatcca agcatcacca tcgaccctct
     5581 agtccagatc tcaccatcga cccataactt cgtatagcat acattatacg aagttatgtc
     5641 cctcgaagag gttcgcgaag cttatcgata atcaacctct ggattacaaa atttgtgaaa
     5701 gattgactgg tattcttaac tatgttgctc cttttacgct atgtggatac gctgctttaa
     5761 tgcctttgta tcatgctatt gcttcccgta tggctttcat tttctcctcc ttgtataaat
     5821 cctggttgct gtctctttat gaggagttgt ggcccgttgt caggcaacgt ggcgtggtgt
     5881 gcactgtgtt tgctgacgca acccccactg gttggggcat tgccaccacc tgtcagctcc
     5941 tttccgggac tttcgctttc cccctcccta ttgccacggc ggaactcatc gccgcctgcc
     6001 ttgcccgctg ctggacaggg gctcggctgt tgggcactga caattccgtg gtgttgtcgg
     6061 ggaaatcatc gtcctttcct tggctgctcg cctgtgttgc cacctggatt ctgcgcggga
     6121 cgtccttctg ctacgtccct tcggccctca atccagcgga ccttccttcc cgcggcctgc
     6181 tgccggctct gcggcctctt ccgcgtcttc gccttcgccc tcagacgagt cggatctccc
     6241 tttgggccgc ctccccgcat cgataccgtc gacccgggcg gccgctcata aagctcgact
     6301 gtgccttcta gttgccagcc atctgttgtt tgcccctccc ccgtgccttc cttgaccctg
     6361 gaaggtgcca ctcccactgt cctttcctaa taaaatgagg aaattgcatc gcattgtctg
     6421 agtaggtgtc attctattct ggggggtggg gtggggcagg acagcaaggg ggaggattgg
     6481 gaagacaata gcaggcatgc tggggatgcg gtccggactg tacaattgca ttcattttat
     6541 gtttcaggtt cagggggaga tgtgggaggt tttttaaagc aagtaaaacc tctacaaatg
     6601 tggtaaaatc gataaggatc ttcctagagc atggctacgt agataagtag catggcgggt
     6661 taatcattaa ctacaaggaa cccctagtga tggagttggc cactccctct ctgcgcgctc
     6721 gctcgctcac tgaggccggg cgaccaaagg tcgcccgacg cccgggcttt gcccgggcgg
     6781 cctcagtgag cgagcgagcg cgcagctgca ttaatgaatc ggccaacgcg cggggagagg
     6841 cggtttgcgt attgggcgct
//
