LOCUS       sequence-261545-        5813 bp    DNA     circular SYN 15-DEC-2025
DEFINITION  Modified STARR-seq plasmid to measure enhancer activity (SCP1 
            promoter; ccdb gene at cloning site).
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 5813)
  AUTHORS   Liu Y, Yu S, Dhiman VK, Brunetti T, Eckart H, White KP
  TITLE     Functional assessment of human enhancer activities using 
            whole-genome STARR-sequencing.
  JOURNAL   Genome Biol. 2017 Nov 20;18(1):219. doi: 10.1186/s13059-017-1345-5.
  PUBMED    29151363
REFERENCE   2  (bases 1 to 5813)
  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: "Genome 
            Biol."; date: "2017-11-20"; volume: "18(1):219. doi"; pages: " 
            10.1186/s13059-017-1345-5"
COMMENT     Sequence Label: pGL4.23-SCP1-ccdB
FEATURES             Location/Qualifiers
     source          1..5813
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     regulatory      184..193
                     /label=Kozak sequence
                     /note="vertebrate consensus sequence for strong initiation 
                     of translation (Kozak, 1987)"
                     /regulatory_class="other"
     CDS             190..1842
                     /codon_start=1
                     /product="firefly luciferase"
                     /label=luciferase
                     /note="synthetic luc2 version of the luciferase gene"
                     /translation="MEDAKNIKKGPAPFYPLEDGTAGEQLHKAMKRYALVPGTIAFTDA
                     HIEVDITYAEYFEMSVRLAEAMKRYGLNTNHRIVVCSENSLQFFMPVLGALFIGVAVAP
                     ANDIYNERELLNSMGISQPTVVFVSKKGLQKILNVQKKLPIIQKIIIMDSKTDYQGFQS
                     MYTFVTSHLPPGFNEYDFVPESFDRDKTIALIMNSSGSTGLPKGVALPHRTACVRFSHA
                     RDPIFGNQIIPDTAILSVVPFHHGFGMFTTLGYLICGFRVVLMYRFEEELFLRSLQDYK
                     IQSALLVPTLFSFFAKSTLIDKYDLSNLHEIASGGAPLSKEVGEAVAKRFHLPGIRQGY
                     GLTETTSAILITPEGDDKPGAVGKVVPFFEAKVVDLDTGKTLGVNQRGELCVRGPMIMS
                     GYVNNPEATNALIDKDGWLHSGDIAYWDEDEHFFIVDRLKSLIKYKGYQVAPAELESIL
                     LQHPNIFDAGVAGLPDDDAGELPAAVVVLEHGKTMTEKEIVDYVASQVTTAKKLRGGVV
                     FVDEVPKGLTGKLDARKIREILIKAKKGGKIAV"
     promoter        join(1905..1910,1911..1928,1929..1935)
                     /label=lac UV5 promoter
                     /note="E. coli lac promoter with an ""up"" mutation"
     CDS             1989..2648
                     /codon_start=1
                     /gene="cat"
                     /product="chloramphenicol acetyltransferase"
                     /label=CmR
                     /note="confers resistance to chloramphenicol"
                     /translation="MEKKITGYTTVDISQWHRKEHFEAFQSVAQCTYNQTVQLDITAFL
                     KTVKKNKHKFYPAFIHILARLMNAHPEFRMAMKDGELVIWDSVHPCYTVFHEQTETFSS
                     LWSEYHDDFRQFLHIYSQDVACYGENLAYFPKGFIENMFFVSANPWVSFTSFDLNVANM
                     DNFFAPVFTMGKYYTQGDKVLMPLAIQVHHAVCDGFHVGRMLNELQQYCDEWQGGA"
     primer_bind     complement(2055..2074)
                     /label=CAT-R
                     /note="Chloramphenicol resistance gene, reverse primer"
     CDS             2990..3295
                     /codon_start=1
                     /gene="ccdB"
                     /product="CcdB, a bacterial toxin that poisons DNA gyrase"
                     /label=ccdB
                     /note="Plasmids containing the ccdB gene cannot be 
                     propagated in standard E. coli strains."
                     /translation="MQFKVYTYKRESRYRLFVDVQSDIIDTPGRRMVIPLASARLLSDK
                     VSRELYPVVHIGDESWRMMTTDMASVPVSVIGEEVADLSHRENDIKNAINLMFWGI"
     primer_bind     3174..3193
                     /label=ccdB-fwd
                     /note="ccdB gene, forward primer"
     polyA_signal    3367..3488
                     /label=SV40 poly(A) signal
                     /note="SV40 polyadenylation signal"
     primer_bind     complement(3378..3397)
                     /label=EBV-rev
                     /note="SV40 polyA terminator, reverse primer"
     primer_bind     3432..3451
                     /label=SV40pA-R
                     /note="SV40 polyA, reverse primer"
     primer_bind     complement(3736..3753)
                     /label=L4440
                     /note="L4440 vector, forward primer"
     rep_origin      complement(3907..4495)
                     /direction=LEFT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     complement(3987..4006)
                     /label=pBR322ori-F
                     /note="pBR322 origin, forward primer"
     CDS             complement(join(4695..5486,5487..5555))
                     /codon_start=1
                     /product="beta-lactamase"
                     /label=AmpR
                     /note="confers resistance to ampicillin, carbenicillin, and
                     related antibiotics"
                     /translation="MSIQHFRVALIPFFAAFCLPVFAHPETLVKVKDAEDQLGARVGYI
                     ELDLNSGKILESFRPEERFPMMSTFKVLLCGAVLSRIDAGQEQLGRRIHYSQNDLVEYS
                     PVTEKHLTDGMTVRELCSAAITMSDNTAANLLLTTIGGPKELTAFLHNMGDHVTRLDRW
                     EPELNEAIPNDERDTTMPVAMATTLRKLLTGELLTLASRQQLIDWMEADKVAGPLLRSA
                     LPAGWFIADKSGAGERGSRGIIAALGPDGKPSRIVVIYTTGSQATMDERNRQIAEIGAS
                     LIKHW"
     polyA_signal    5660..5708
                     /note="synthetic polyadenylation signal"
     misc_feature    5722..5813
                     /label=pause site
                     /note="RNA polymerase II transcriptional pause signal from 
                     the human alpha-2 globin gene"
     primer_bind     5762..5781
                     /label=RVprimer3
                     /note="pGL3 vector, forward primer"
ORIGIN
        1 ggcctaactg gccggtacct gagctcgcta gcctcgagga tatcaagatc tggcctcggc
       61 ggccaagctt agacacgtac ttatataagg gggtgggggc gcgttcgtcc tcagtcgcga
      121 tcgaacactc gagccgagca gacgtgccta cggaccgctt ggcaatccgg tactgttggt
      181 aaagccacca tggaagatgc caaaaacatt aagaagggcc cagcgccatt ctacccactc
      241 gaagacggga ccgccggcga gcagctgcac aaagccatga agcgctacgc cctggtgccc
      301 ggcaccatcg cctttaccga cgcacatatc gaggtggaca ttacctacgc cgagtacttc
      361 gagatgagcg ttcggctggc agaagctatg aagcgctatg ggctgaatac aaaccatcgg
      421 atcgtggtgt gcagcgagaa tagcttgcag ttcttcatgc ccgtgttggg tgccctgttc
      481 atcggtgtgg ctgtggcccc agctaacgac atctacaacg agcgcgagct gctgaacagc
      541 atgggcatca gccagcccac cgtcgtattc gtgagcaaga aagggctgca aaagatcctc
      601 aacgtgcaaa agaagctacc gatcatacaa aagatcatca tcatggatag caagaccgac
      661 taccagggct tccaaagcat gtacaccttc gtgacttccc atttgccacc cggcttcaac
      721 gagtacgact tcgtgcccga gagcttcgac cgggacaaaa ccatcgccct gatcatgaac
      781 agtagtggca gtaccggatt gcccaagggc gtagccctac cgcaccgcac cgcttgtgtc
      841 cgattcagtc atgcccgcga ccccatcttc ggcaaccaga tcatccccga caccgctatc
      901 ctcagcgtgg tgccatttca ccacggcttc ggcatgttca ccacgctggg ctacttgatc
      961 tgcggctttc gggtcgtgct catgtaccgc ttcgaggagg agctattctt gcgcagcttg
     1021 caagactata agattcaatc tgccctgctg gtgcccacac tatttagctt cttcgctaag
     1081 agcactctca tcgacaagta cgacctaagc aacttgcacg agatcgccag cggcggggcg
     1141 ccgctcagca aggaggtagg tgaggccgtg gccaaacgct tccacctacc aggcatccgc
     1201 cagggctacg gcctgacaga aacaaccagc gccattctga tcacccccga aggggacgac
     1261 aagcctggcg cagtaggcaa ggtggtgccc ttcttcgagg ctaaggtggt ggacttggac
     1321 accggtaaga cactgggtgt gaaccagcgc ggcgagctgt gcgtccgtgg ccccatgatc
     1381 atgagcggct acgttaacaa ccccgaggct acaaacgctc tcatcgacaa ggacggctgg
     1441 ctgcacagcg gcgacatcgc ctactgggac gaggacgagc acttcttcat cgtggaccgg
     1501 ctgaagagcc tgatcaaata caagggctac caggtagccc cagccgaact ggagagcatc
     1561 ctgctgcaac accccaacat cttcgacgcc ggggtcgccg gcctgcccga cgacgatgcc
     1621 ggcgagctgc ccgccgcagt cgtcgtgctg gaacacggta aaaccatgac cgagaaggag
     1681 atcgtggact atgtggccag ccaggttaca accgccaaga agctgcgcgg tggtgttgtg
     1741 ttcgtggacg aggtgcctaa aggactgacc ggcaagttgg acgcccgcaa gatccgcgag
     1801 attctcatta aggccaagaa gggcggcaag atcgccgtgt aataattcta gagtcggggc
     1861 gggcatgcac cggtgatatc gcggccgcat taggcacccc aggctttaca ctttatgctt
     1921 ccggctcgta taatgtgtgg attttgagtt aggatccgtc gagattttca ggagctaagg
     1981 aagctaaaat ggagaaaaaa atcactggat ataccaccgt tgatatatcc caatggcatc
     2041 gtaaagaaca ttttgaggca tttcagtcag ttgctcaatg tacctataac cagaccgttc
     2101 agctggatat tacggccttt ttaaagaccg taaagaaaaa taagcacaag ttttatccgg
     2161 cctttattca cattcttgcc cgcctgatga atgctcatcc ggaattccgt atggcaatga
     2221 aagacggtga gctggtgata tgggatagtg ttcacccttg ttacaccgtt ttccatgagc
     2281 aaactgaaac gttttcatcg ctctggagtg aataccacga cgatttccgg cagtttctac
     2341 acatatattc gcaagatgtg gcgtgttacg gtgaaaacct ggcctatttc cctaaagggt
     2401 ttattgagaa tatgtttttc gtctcagcca atccctgggt gagtttcacc agttttgatt
     2461 taaacgtggc caatatggac aacttcttcg cccccgtttt caccatgggc aaatattata
     2521 cgcaaggcga caaggtgctg atgccgctgg cgattcaggt tcatcatgcc gtttgtgatg
     2581 gcttccatgt cggcagaatg cttaatgaat tacaacagta ctgcgatgag tggcagggcg
     2641 gggcgtaaac gcgtggatcc ggcttactaa aagccagata acagtatgcg tatttgcgcg
     2701 ctgatttttg cggtataaga atatatactg atatgtatac ccgaagtatg tcaaaaagag
     2761 gtatgctatg aagcagcgta ttacagtgac agttgacagc gacagctatc agttgctcaa
     2821 ggcatatatg atgtcaatat ctccggtctg gtaagcacaa ccatgcagaa tgaagcccgt
     2881 cgtctgcgtg ccgaacgctg gaaagcggaa aatcaggaag ggatggctga ggtcgcccgg
     2941 tttattgaaa tgaacggctc ttttgctgac gagaacaggg gctggtgaaa tgcagtttaa
     3001 ggtttacacc tataaaagag agagccgtta tcgtctgttt gtggatgtac agagtgatat
     3061 tattgacacg cccgggcgac ggatggtgat ccccctggcc agtgcacgtc tgctgtcaga
     3121 taaagtctcc cgtgaacttt acccggtggt gcatatcggg gatgaaagct ggcgcatgat
     3181 gaccaccgat atggccagtg tgccggtctc cgttatcggg gaagaagtgg ctgatctcag
     3241 ccaccgcgaa aatgacatca aaaacgccat taacctgatg ttctggggaa tataaatgtc
     3301 aggctccctt atacacagcc agtctgcagg atatcgtcga ccatatgccg cttcgagcag
     3361 acatgataag atacattgat gagtttggac aaaccacaac tagaatgcag tgaaaaaaat
     3421 gctttatttg tgaaatttgt gatgctattg ctttatttgt aaccattata agctgcaata
     3481 aacaagttaa caacaacaat tgcattcatt ttatgtttca ggttcagggg gaggtgtggg
     3541 aggtttttta aagcaagtaa aacctctaca aatgtggtaa aatcgataag gatccgtcga
     3601 ccgatgccct tgagagcctt caacccagtc agctccttcc ggtgggcgcg gggcatgact
     3661 atcgtcgccg cacttatgac tgtcttcttt atcatgcaac tcgtaggaca ggtgccggca
     3721 gcgctcttcc gcttcctcgc tcactgactc gctgcgctcg gtcgttcggc tgcggcgagc
     3781 ggtatcagct cactcaaagg cggtaatacg gttatccaca gaatcagggg ataacgcagg
     3841 aaagaacatg tgagcaaaag gccagcaaaa ggccaggaac cgtaaaaagg ccgcgttgct
     3901 ggcgtttttc cataggctcc gcccccctga cgagcatcac aaaaatcgac gctcaagtca
     3961 gaggtggcga aacccgacag gactataaag ataccaggcg tttccccctg gaagctccct
     4021 cgtgcgctct cctgttccga ccctgccgct taccggatac ctgtccgcct ttctcccttc
     4081 gggaagcgtg gcgctttctc atagctcacg ctgtaggtat ctcagttcgg tgtaggtcgt
     4141 tcgctccaag ctgggctgtg tgcacgaacc ccccgttcag cccgaccgct gcgccttatc
     4201 cggtaactat cgtcttgagt ccaacccggt aagacacgac ttatcgccac tggcagcagc
     4261 cactggtaac aggattagca gagcgaggta tgtaggcggt gctacagagt tcttgaagtg
     4321 gtggcctaac tacggctaca ctagaagaac agtatttggt atctgcgctc tgctgaagcc
     4381 agttaccttc ggaaaaagag ttggtagctc ttgatccggc aaacaaacca ccgctggtag
     4441 cggtggtttt tttgtttgca agcagcagat tacgcgcaga aaaaaaggat ctcaagaaga
     4501 tcctttgatc ttttctacgg ggtctgacgc tcagtggaac gaaaactcac gttaagggat
     4561 tttggtcatg agattatcaa aaaggatctt cacctagatc cttttaaatt aaaaatgaag
     4621 ttttaaatca atctaaagta tatatgagta aacttggtct gacagcggcc gcaaatgcta
     4681 aaccactgca gtggttacca gtgcttgatc agtgaggcac cgatctcagc gatctgccta
     4741 tttcgttcgt ccatagtggc ctgactcccc gtcgtgtaga tcactacgat tcgtgagggc
     4801 ttaccatcag gccccagcgc agcaatgatg ccgcgagagc cgcgttcacc ggcccccgat
     4861 ttgtcagcaa tgaaccagcc agcagggagg gccgagcgaa gaagtggtcc tgctactttg
     4921 tccgcctcca tccagtctat gagctgctgt cgtgatgcta gagtaagaag ttcgccagtg
     4981 agtagtttcc gaagagttgt ggccattgct actggcatcg tggtatcacg ctcgtcgttc
     5041 ggtatggctt cgttcaactc tggttcccag cggtcaagcc gggtcacatg atcacccata
     5101 ttatgaagaa atgcagtcag ctccttaggg cctccgatcg ttgtcagaag taagttggcc
     5161 gcggtgttgt cgctcatggt aatggcagca ctacacaatt ctcttaccgt catgccatcc
     5221 gtaagatgct tttccgtgac cggcgagtac tcaaccaagt cgttttgtga gtagtgtata
     5281 cggcgaccaa gctgctcttg cccggcgtct atacgggaca acaccgcgcc acatagcagt
     5341 actttgaaag tgctcatcat cgggaatcgt tcttcggggc ggaaagactc aaggatcttg
     5401 ccgctattga gatccagttc gatatagccc actcttgcac ccagttgatc ttcagcatct
     5461 tttactttca ccagcgtttc ggggtgtgca aaaacaggca agcaaaatgc cgcaaagaag
     5521 ggaatgagtg cgacacgaaa atgttggatg ctcatactcg tcctttttca atattattga
     5581 agcatttatc agggttacta gtacgtctct caaggataag taagtaatat taaggtacgg
     5641 gaggtattgg acaggccgca ataaaatatc tttattttca ttacatctgt gtgttggttt
     5701 tttgtgtgaa tcgatagtac taacatacgc tctccatcaa aacaaaacga aacaaaacaa
     5761 actagcaaaa taggctgtcc ccagtgcaag tgcaggtgcc agaacatttc tct
//
