LOCUS       sequence-349205-        6038 bp    DNA     circular SYN 15-DEC-2025
DEFINITION  Expression Recording Islands (XRIs) for recording cellular 
            physiological histories along intracellular protein self-assembly. 
            Contains XRI subunit with HA tag, under UBC promoter..
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 6038)
  AUTHORS   Linghu C, An B, Shpokayte M, Celiker OT, Shmoel N, Zhang R, Zhang C,
            Park D, Park WM, Ramirez S, Boyden ES
  TITLE     Recording of cellular physiological histories along optically 
            readable self-assembling protein chains.
  JOURNAL   Nat Biotechnol. 2023 Jan 2. doi: 10.1038/s41587-022-01586-7.
  PUBMED    36593405
REFERENCE   2  (bases 1 to 6038)
  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: "Nat 
            Biotechnol. 2023 Jan 2. doi: 10.1038/s41587-022-01586-7."
COMMENT     Sequence Label: pAAV-UBC-XRI-HA
FEATURES             Location/Qualifiers
     source          1..6038
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     repeat_region   72..201
                     /label=AAV2 ITR
     promoter        274..672
                     /label=UbC promoter
                     /note="human ubiquitin C promoter"
     CDS             1932..1958
                     /codon_start=1
                     /product="HA (human influenza hemagglutinin) epitope tag"
                     /label=HA
                     /translation="YPYDVPDYA"
     polyA_signal    3090..3297
                     /label=bGH poly(A) signal
                     /note="bovine growth hormone polyadenylation signal"
     repeat_region   3467..3596
                     /label=AAV2 ITR
     rep_origin      complement(3833..4421)
                     /direction=LEFT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     complement(3913..3932)
                     /label=pBR322ori-F
                     /note="pBR322 origin, forward primer"
     CDS             complement(join(4592..5383,5384..5452))
                     /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     5215..5234
                     /label=Amp-R
                     /note="Ampicillin resistance gene, reverse primer"
     promoter        complement(5453..5557)
                     /gene="bla"
                     /label=AmpR promoter
     rep_origin      complement(5583..6038)
                     /direction=LEFT
                     /label=f1 ori
                     /note="f1 bacteriophage origin of replication; arrow 
                     indicates direction of (+) strand synthesis"
     primer_bind     complement(5720..5741)
                     /label=F1ori-F
                     /note="F1 origin, forward primer"
     primer_bind     5932..5951
                     /label=F1ori-R
                     /note="F1 origin, reverse primer"
ORIGIN
        1 cccattcgcc attcaggctg cgcaactgtt gggaagggcg atcggtgcgg gcctcttcgc
       61 tattacgcca gctgcgcgct cgctcgctca ctgaggccgc ccgggcaaag cccgggcgtc
      121 gggcgacctt tggtcgcccg gcctcagtga gcgagcgagc gcgcagagag ggagtggcca
      181 actccatcac taggggttcc ttgtagttaa tgattaaccc gccatgctac ttatctacgt
      241 agccatgctc taggaagatc gtaggttaat taaggcctcc gcgccgggtt ttggcgcctc
      301 ccgcgggcgc ccccctcctc acggcgagcg ctgccacgtc agacgaaggg cgcagcgagc
      361 gtcctgatcc ttccgcccgg acgctcagga cagcggcccg ctgctcataa gactcggcct
      421 tagaacccca gtatcagcag aaggacattt taggacggga cttgggtgac tctagggcac
      481 tggttttctt tccagagagc ggaacaggcg aggaaaagta gtcccttctc ggcgattctg
      541 cggagggatc tccgtggggc ggtgaacgcc gatgattata taaggacgcg ccgggtgtgg
      601 cacagctagt tccgtcgcag ccgggatttg ggtcgcggtt cttgtttgtg gatcgctgtg
      661 atcgtcactt ggcgactagt gccaccatga ttgactatac tgctgctggt ttcaccctcc
      721 tccaaggtgc acatctgtac gctcctgaag acagaggtat ctgcgatgtg ctggttgcca
      781 acggtaagat catcgctgtg gcctccaaca ttcctagcga catcgttcca aactgcaccg
      841 ttgtcgatct gagcggacag atcctctgtc caggattcat tgatcagcac gtgcacctca
      901 ttggaggagg aggcgaagct ggtcctacta ctagaactcc cgaagtcgca ctgtctcgcc
      961 tcacagaggc aggcgttacc tccgtcgtgg gactcctggg tactgatagc atctctaggc
     1021 accctgagtc tctgctggca aagaccagag ccctcaatga ggagggtatc tccgcttgga
     1081 tgctgactgg tgcttatcac gtcccatctc gcaccattac tggcagcgtg gagaaggacg
     1141 ttgcaatcat cgacagagtg atcggtgtta agtgcgctat ctccgaccac aggagcgctg
     1201 ctcccgacgt ctatcacctg gccaacatgg cagccgagag cagagtcggt ggtctgctcg
     1261 gtggcaagcc aggagttacc gtgttccaca tgggtgactc taagaaggca ctgcaaccca
     1321 tctatgacct gctggagaac tgtgacgtcc caatctccaa gctgctgcct acccacgtca
     1381 acaggaacgt gcctctcttc taccaagctc tggagttcgc aagaaagggt ggcaccatcg
     1441 acatcacctc tagcattgat gaacccgtcg ctccagctga gggaatcgca agggctgtcc
     1501 aagcaggtat cccactggca agggtgacac tcagctctga tggcaacggc tcccagccat
     1561 tcttcgatga tgaaggaaat ctgactcaca ttggcgtggc tggatttgaa actctcctgg
     1621 aaacagttca ggttctggtt aaggactacg acttcagcat ttctgacgct ctcagaccac
     1681 tcacctctag cgtcgctggc ttcctgaacc tgactggtaa aggcgaaatc ctccctggta
     1741 atgacgctga tctgctggtg atgacacccg aactgcgcat tgagcaggtc tatgcaagag
     1801 gaaagctgat ggttaaggac ggaaaggctt gtgtcaaggg cacattcgag actgctggtg
     1861 gctctggagg caccggaggg tctggaggga ctggaggctc tggaggtact ggcggttctg
     1921 gaggtaccgg ttacccatac gatgtgcctg attacgcagg atccggtaag attgaagagg
     1981 gcaaactggt tatctggatc aatggcgata agggctacaa tggcctggca gaggtcggta
     2041 agaagttcga gaaagataca ggcatcaaag ttactgtgga acacccagat aagctggagg
     2101 agaagttccc tcaggtcgca gcaactggcg acggtccaga catcatcttc tgggcacacg
     2161 ataggttcgg tggctatgcc caatctggcc tgctggctga gattactcct gataaggctt
     2221 tccaggacaa gctgtatcca ttcacctggg atgctgtgag atacaatggc aagctgatcg
     2281 cataccctat tgctgtggaa gctctgagcc tgatctacaa caaggacctg ctgcctaatc
     2341 ctcctaagac atgggaagaa atccctgcac tggacaagga actgaaggcc aaaggcaagt
     2401 ccgcactgat gttcaacctg caggagcctt actttacctg gccactgatt gctgccgacg
     2461 gtggttacgc tttcaagtac gagaatggta agtacgacat caaagatgtg ggtgtggaca
     2521 atgctggtgc caaagctggt ctgactttcc tggtggatct gatcaagaac aagcacatga
     2581 atgcagacac tgactattct atcgcagagg ctgctttcaa caaaggcgaa accgcaatga
     2641 ctatcaatgg tccttgggca tggtctaaca tcgacactag caaagtcaac tacggtgtca
     2701 ccgttctgcc aaccttcaag ggtcagccaa gcaaaccttt cgttggcgtg ctgagcgcag
     2761 gtatcaacgc tgcctctcct aacaaagagc tggctaagga gtttctggag aactacctgc
     2821 tgacagacga aggtctggag gcagtgaaca aggacaagcc actgggtgcc gtggctctga
     2881 agagctacga agaagaactg gccaaggacc ctcgcatcgc tgctacaatg gagaacgcac
     2941 agaagggtga gatcatgcca aacatcccac agatgagcgc attctggtat gccgtgagga
     3001 ccgctgttat caacgcagct tctggcagac agaccgtgga tgaagccctg aaagacgcac
     3061 agacctaagc ggccgctcat aaagctcgac tgtgccttct agttgccagc catctgttgt
     3121 ttgcccctcc cccgtgcctt ccttgaccct ggaaggtgcc actcccactg tcctttccta
     3181 ataaaatgag gaaattgcat cgcattgtct gagtaggtgt cattctattc tggggggtgg
     3241 ggtggggcag gacagcaagg gggaggattg ggaagacaat agcaggcatg ctggggatgc
     3301 ggtccggact gtacaattgc attcatttta tgtttcaggt tcagggggag atgtgggagg
     3361 ttttttaaag caagtaaaac ctctacaaat gtggtaaaat cgataaggat cttcctagag
     3421 catggctacg tagataagta gcatggcggg ttaatcatta actacaagga acccctagtg
     3481 atggagttgg ccactccctc tctgcgcgct cgctcgctca ctgaggccgg gcgaccaaag
     3541 gtcgcccgac gcccgggctt tgcccgggcg gcctcagtga gcgagcgagc gcgcagctgc
     3601 attaatgaat cggccaacgc gcggggagag gcggtttgcg tattgggcgc tcttccgctt
     3661 cctcgctcac tgactcgctg cgctcggtcg ttcggctgcg gcgagcggta tcagctcact
     3721 caaaggcggt aatacggtta tccacagaat caggggataa cgcaggaaag aacatgtgag
     3781 caaaaggcca gcaaaaggcc aggaaccgta aaaaggccgc gttgctggcg tttttccata
     3841 ggctccgccc ccctgacgag catcacaaaa atcgacgctc aagtcagagg tggcgaaacc
     3901 cgacaggact ataaagatac caggcgtttc cccctggaag ctccctcgtg cgctctcctg
     3961 ttccgaccct gccgcttacc ggatacctgt ccgcctttct cccttcggga agcgtggcgc
     4021 tttctcatag ctcacgctgt aggtatctca gttcggtgta ggtcgttcgc tccaagctgg
     4081 gctgtgtgca cgaacccccc gttcagcccg accgctgcgc cttatccggt aactatcgtc
     4141 ttgagtccaa cccggtaaga cacgacttat cgccactggc agcagccact ggtaacagga
     4201 ttagcagagc gaggtatgta ggcggtgcta cagagttctt gaagtggtgg cctaactacg
     4261 gctacactag aagaacagta tttggtatct gcgctctgct gaagccagtt accttcggaa
     4321 aaagagttgg tagctcttga tccggcaaac aaaccaccgc tggtagcggt ggtttttttg
     4381 tttgcaagca gcagattacg cgcagaaaaa aaggatctca agaagatcct ttgatctttt
     4441 ctacggggtc tgacgctcag tggaacgaaa actcacgtta agggattttg gtcatgagat
     4501 tatcaaaaag gatcttcacc tagatccttt taaattaaaa atgaagtttt aaatcaatct
     4561 aaagtatata tgagtaaact tggtctgaca gttaccaatg cttaatcagt gaggcaccta
     4621 tctcagcgat ctgtctattt cgttcatcca tagttgcctg actccccgtc gtgtagataa
     4681 ctacgatacg ggagggctta ccatctggcc ccagtgctgc aatgataccg cgagacccac
     4741 gctcaccggc tccagattta tcagcaataa accagccagc cggaagggcc gagcgcagaa
     4801 gtggtcctgc aactttatcc gcctccatcc agtctattaa ttgttgccgg gaagctagag
     4861 taagtagttc gccagttaat agtttgcgca acgttgttgc cattgctaca ggcatcgtgg
     4921 tgtcacgctc gtcgtttggt atggcttcat tcagctccgg ttcccaacga tcaaggcgag
     4981 ttacatgatc ccccatgttg tgcaaaaaag cggttagctc cttcggtcct ccgatcgttg
     5041 tcagaagtaa gttggccgca gtgttatcac tcatggttat ggcagcactg cataattctc
     5101 ttactgtcat gccatccgta agatgctttt ctgtgactgg tgagtactca accaagtcat
     5161 tctgagaata gtgtatgcgg cgaccgagtt gctcttgccc ggcgtcaata cgggataata
     5221 ccgcgccaca tagcagaact ttaaaagtgc tcatcattgg aaaacgttct tcggggcgaa
     5281 aactctcaag gatcttaccg ctgttgagat ccagttcgat gtaacccact cgtgcaccca
     5341 actgatcttc agcatctttt actttcacca gcgtttctgg gtgagcaaaa acaggaaggc
     5401 aaaatgccgc aaaaaaggga ataagggcga cacggaaatg ttgaatactc atactcttcc
     5461 tttttcaata ttattgaagc atttatcagg gttattgtct catgagcgga tacatatttg
     5521 aatgtattta gaaaaataaa caaatagggg ttccgcgcac atttccccga aaagtgccac
     5581 ctaaattgta agcgttaata ttttgttaaa attcgcgtta aatttttgtt aaatcagctc
     5641 attttttaac caataggccg aaatcggcaa aatcccttat aaatcaaaag aatagaccga
     5701 gatagggttg agtgttgttc cagtttggaa caagagtcca ctattaaaga acgtggactc
     5761 caacgtcaaa gggcgaaaaa ccgtctatca gggcgatggc ccactacgtg aaccatcacc
     5821 ctaatcaagt tttttggggt cgaggtgccg taaagcacta aatcggaacc ctaaagggag
     5881 cccccgattt agagcttgac ggggaaagcc ggcgaacgtg gcgagaaagg aagggaagaa
     5941 agcgaaagga gcgggcgcta gggcgctggc aagtgtagcg gtcacgctgc gcgtaaccac
     6001 cacacccgcc gcgcttaatg cgccgctaca gggcgcgt
//
