LOCUS       sequence-330501-        3265 bp    DNA     circular SYN 15-DEC-2025
DEFINITION  ddPCR gating control for droplets containing all 5 targets (2 in 
            pol).
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 3265)
  AUTHORS   Levy CN, Hughes SM, Roychoudhury P, Reeves DB, Amstuz C, Zhu H, 
            Huang ML, Wei Y, Bull ME, Cassidy NAJ, McClure J, Frenkel LM, Stone 
            M, Bakkour S, Wonderlich ER, Busch MP, Deeks SG, Schiffer JT, Coombs
            RW, Lehman DA, Jerome KR, Hladik F
  TITLE     A highly multiplexed droplet digital PCR assay to measure the intact
            HIV-1 proviral reservoir.
  JOURNAL   Cell Rep Med. 2021 Apr 12;2(4):100243. doi: 
            10.1016/j.xcrm.2021.100243. eCollection 2021 Apr 20.
  PUBMED    33948574
REFERENCE   2  (bases 1 to 3265)
  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: "Cell Rep 
            Med."; date: "2021-04-12"; volume: "2(4):100243. doi"; pages: " 
            10.1016/j.xcrm.2021.100243. eCollection 2021 Apr 20"
COMMENT     Sequence Label: Seattle_IPDA_control_1_001
FEATURES             Location/Qualifiers
     source          1..3265
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     primer_bind     complement(649..665)
                     /label=M13 rev
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     primer_bind     complement(649..665)
                     /label=M13 Reverse
                     /note="In lacZ gene. Also called M13-rev"
     primer_bind     complement(662..684)
                     /label=M13/pUC Reverse
                     /note="In lacZ gene"
     protein_bind    673..689
                     /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(697..703,704..721,722..727))
                     /label=lac promoter
                     /note="promoter for the E. coli lac operon"
     protein_bind    742..763
                     /label=CAP binding site
                     /bound_moiety="E. coli catabolite activator protein"
                     /note="CAP binding activates transcription in the presence 
                     of cAMP."
     primer_bind     complement(880..897)
                     /label=L4440
                     /note="L4440 vector, forward primer"
     rep_origin      complement(1051..1639)
                     /direction=LEFT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     complement(1131..1150)
                     /label=pBR322ori-F
                     /note="pBR322 origin, forward primer"
     CDS             complement(join(1810..2601,2602..2670))
                     /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     2433..2452
                     /label=Amp-R
                     /note="Ampicillin resistance gene, reverse primer"
     promoter        complement(2671..2775)
                     /gene="bla"
                     /label=AmpR promoter
     primer_bind     2843..2861
                     /label=pBRforEco
                     /note="pBR322 vectors, upsteam of EcoRI site, forward 
                     primer"
     primer_bind     complement(2899..2921)
                     /label=pGEX 3'
                     /note="pGEX vectors, reverse primer"
     primer_bind     3021..3040
                     /label=pRS-marker
                     /note="pRS vectors, use to sequence yeast selectable 
                     marker"
     primer_bind     3234..3256
                     /label=M13/pUC Forward
                     /note="In lacZ gene"
     primer_bind     3248..3265
                     /label=M13 Forward
                     /note="In lacZ gene. Also called M13-F20 or M13 (-21) 
                     Forward"
     primer_bind     3249..3265
                     /label=M13 fwd
                     /note="common sequencing primer, one of multiple similar 
                     variants"
ORIGIN
        1 gcaacgcgat gacgatggat agcgattcat cgatgagctg acccgatcgc cgccgccgga
       61 gggttgcgtt tgagacgggc gacagatcca tggggtaccg actagcggag gctagaagga
      121 gagagatggg tgcgagagcg tcagtattaa gcgggggaga attagggtac catgcattcc
      181 tttagcttcc ctcagatcac tctttggcaa cgacccctcg tcacaataaa gatagggggg
      241 caattaaagg aagctctatt agatacagga gcagatgata cagtaatgca tttaattaaa
      301 gagatccact ttggaaagga ccagcaaagc tcctctggaa aggtgaaggg gcagtagtaa
      361 tacaagataa tagtgacata aaagtagtgt taattaacct gcaggtttgt ttcataacaa
      421 aaggcttagg catctcctat ggcaggaaga agcggagaca gcgacgaaga gctcctcacc
      481 tgcagggtcg actgttcctt gggttcttgg gagcagcagg aagcactatg ggcgcagcgt
      541 caatgacgct gacggtacag gccagacaat tattgtctgg tatagtgcgt cgacccatgg
      601 atcagttctg gaccagcgag ctgtgctgcg actcgtggcg taatcatggt catagctgtt
      661 tcctgtgtga aattgttatc cgctcacaat tccacacaac atacgagccg gaagcataaa
      721 gtgtaaagcc tggggtgcct aatgagtgag ctaactcaca ttaattgcgt tgcgctcact
      781 gcccgctttc cagtcgggaa acctgtcgtg ccagctgcat taatgaatcg gccaacgcgc
      841 ggggagaggc ggtttgcgta ttgggcgctc ttccgcttcc tcgctcactg actcgctgcg
      901 ctcggtcgtt cggctgcggc gagcggtatc agctcactca aaggcggtaa tacggttatc
      961 cacagaatca ggggataacg caggaaagaa catgtgagca aaaggccagc aaaaggccag
     1021 gaaccgtaaa aaggccgcgt tgctggcgtt tttccatagg ctccgccccc ctgacgagca
     1081 tcacaaaaat cgacgctcaa gtcagaggtg gcgaaacccg acaggactat aaagatacca
     1141 ggcgtttccc cctggaagct ccctcgtgcg ctctcctgtt ccgaccctgt cgcttaccgg
     1201 atacctgtcc gcctttctcc cttcgggaag cgtggcgctt tctcatagct cacgctgtag
     1261 gtatctcagt tcggtgtagg tcgttcgctc caagctgggc tgtgtgcacg aaccccccgt
     1321 tcagcccgac cgctgcgcct tatccggtaa ctatcgtctt gagtccaacc cggtaagaca
     1381 cgacttatcg ccactggcag cagccactgg taacaggatt agcagagcga ggtatgtagg
     1441 cggtgctaca gagttcttga agtggtggcc taactacggc tacactagaa gaacagtatt
     1501 tggtatctgc gctctgctga agccagttac cttcggaaaa agagttggta gctcttgatc
     1561 cggcaaacaa accaccgctg gtagcggtgg tttttttgtt tgcaagcagc agattacgcg
     1621 cagaaaaaaa ggatctcaag aagatccttt gatcttttct acggggtctg acgctcagtg
     1681 gaacgaaaac tcacgttaag ggattttggt catgagatta tcaaaaagga tcttcaccta
     1741 gatcctttta aattaaaaat gaagttttaa atcaatctaa agtatatatg agtaaacttg
     1801 gtctgacagt taccaatgct taatcagtga ggcacctatc tcagcgatct gtctatttcg
     1861 ttcatccata gttgcctgac tccccgtcgt gtagataact acgatacggg agggcttacc
     1921 atctggcccc agtgctgcaa tgataccgcg agacccacgc tcaccggctc cagatttatc
     1981 agcaataaac cagccagccg gaagggccga gcgcagaagt ggtcctgcaa ctttatccgc
     2041 ctccatccag tctattaatt gttgccggga agctagagta agtagttcgc cagttaatag
     2101 tttgcgcaac gttgttgcca ttgctacagg catcgtggtg tcacgctcgt cgtttggtat
     2161 ggcttcattc agctccggtt cccaacgatc aaggcgagtt acatgatccc ccatgttgtg
     2221 caaaaaagcg gttagctcct tcggtcctcc gatcgttgtc agaagtaagt tggccgcagt
     2281 gttatcactc atggttatgg cagcactgca taattctctt actgtcatgc catccgtaag
     2341 atgcttttct gtgactggtg agtactcaac caagtcattc tgagaatagt gtatgcggcg
     2401 accgagttgc tcttgcccgg cgtcaatacg ggataatacc gcgccacata gcagaacttt
     2461 aaaagtgctc atcattggaa aacgttcttc ggggcgaaaa ctctcaagga tcttaccgct
     2521 gttgagatcc agttcgatgt aacccactcg tgcacccaac tgatcttcag catcttttac
     2581 tttcaccagc gtttctgggt gagcaaaaac aggaaggcaa aatgccgcaa aaaagggaat
     2641 aagggcgaca cggaaatgtt gaatactcat actctacctt tttcaatatt attgaagcat
     2701 ttatcagggt tattgtctca tgagcggata catatttgaa tgtatttaga aaaataaaca
     2761 aataggggtt ccgcgcacat ttccccgaaa agtgccacct gacgtctaag aaaccattat
     2821 tatcatgaca ttaacctata aaaataggcg tatcacgagg ccctttcgtc tcgcgcgttt
     2881 cggtgatgac ggtgaaaacc tctgacacat gcagctcccg gagacggtca cagcttgtct
     2941 gtaagcggat gccgggagca gacaagcccg tcagggcgcg tcagcgggtg ttggcgggtg
     3001 tcggggctgg cttaactatg cggcatcaga gcagattgta ctgagagtgc accaaatgcg
     3061 gtgtgaaata ccgcacagat gcgtaaggag aaaataccgc atcaggcgcc attcgccatt
     3121 caggctgcgc aactgttggg aagggcgatc ggtgcgggcc tcatcgctat tacgccagct
     3181 ggcgaaaggg ggatgtgctg caaggcgatt aagttgggta acgccagggt tttcccagtc
     3241 acgacgttgt aaaacgacgg ccagt
//
