LOCUS       sequence-435428-        4549 bp    DNA     circular SYN 15-DEC-2025
DEFINITION  STARR-seq plasmid driven by minimal mouse Alb promoter; used to 
            measure enhancer activity of a library of DNA sequences on interest.
            Useful for STARR-seq analysis in liver..
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 4549)
  AUTHORS   Chang TY, Waxman DJ
  TITLE     HDI-STARR-seq: Condition-specific enhancer discovery in mouse liver 
            in vivo.
  JOURNAL   BMC Genomics. 2024 Dec 24;25(1):1240. doi: 
            10.1186/s12864-024-11162-9.
  PUBMED    39716078
REFERENCE   2  (bases 1 to 4549)
  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: "BMC 
            Genomics."; date: "2024-12-24"; volume: "25(1):1240. doi"; pages: " 
            10.1186/s12864-024-11162-9"
COMMENT     Sequence Label: pTYC10_pPromALB_STARRseq
FEATURES             Location/Qualifiers
     source          1..4549
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     intron          412..544
                     /label=chimeric intron
                     /note="chimera between introns from human beta-globin and 
                     immunoglobulin heavy chain genes"
     primer_bind     527..546
                     /label=pMT2-F
                     /note="Synthetic intron, forward primer"
     promoter        join(679..684,685..702,703..709)
                     /label=lac UV5 promoter
                     /note="E. coli lac promoter with an ""up"" mutation"
     CDS             763..1422
                     /codon_start=1
                     /gene="cat"
                     /product="chloramphenicol acetyltransferase"
                     /label=CmR
                     /note="confers resistance to chloramphenicol"
                     /translation="MEKKITGYTTVDISQWHRKEHFEAFQSVAQCTYNQTVQLDITAFL
                     KTVKKNKHKFYPAFIHILARLMNAHPEFRMAMKDGELVIWDSVHPCYTVFHEQTETFSS
                     LWSEYHDDFRQFLHIYSQDVACYGENLAYFPKGFIENMFFVSANPWVSFTSFDLNVANM
                     DNFFAPVFTMGKYYTQGDKVLMPLAIQVHHAVCDGFHVGRMLNELQQYCDEWQGGA"
     primer_bind     complement(829..848)
                     /label=CAT-R
                     /note="Chloramphenicol resistance gene, reverse primer"
     CDS             1764..2069
                     /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     1948..1967
                     /label=ccdB-fwd
                     /note="ccdB gene, forward primer"
     polyA_signal    2147..2268
                     /label=SV40 poly(A) signal
                     /note="SV40 polyadenylation signal"
     primer_bind     complement(2158..2177)
                     /label=EBV-rev
                     /note="SV40 polyA terminator, reverse primer"
     primer_bind     2212..2231
                     /label=SV40pA-R
                     /note="SV40 polyA, reverse primer"
     primer_bind     complement(2513..2530)
                     /label=L4440
                     /note="L4440 vector, forward primer"
     rep_origin      complement(2684..3272)
                     /direction=LEFT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     complement(2764..2783)
                     /label=pBR322ori-F
                     /note="pBR322 origin, forward primer"
     CDS             complement(join(3472..4263,4264..4332))
                     /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    4437..4485
                     /note="synthetic polyadenylation signal"
     misc_feature    join(4499..4549,1..41)
                     /label=pause site
                     /note="RNA polymerase II transcriptional pause signal from 
                     the human alpha-2 globin gene"
     primer_bind     join(4539..4549,1..9)
                     /label=RVprimer3
                     /note="pGL3 vector, forward primer"
ORIGIN
        1 ggctgtcccc agtgcaagtg caggtgccag aacatttctc tggcctaact ggccggtacc
       61 tgagctctgc tcaaatggga gacaaagaga ttaagctctt atgtaaaatt tgctgtttta
      121 cataacttta atgaatggac aaagtcttgt gcatgggggt gggggtgggg ttagagggga
      181 acagctccag atggcaaaca tacgcaaggg atttagtcaa acaacttttt ggcaaagatg
      241 gtatgatttt gtaatggggt aggaaccaat gaaatgcgag gtaagtatgg ttaataatct
      301 acagttattg gttaaagaag tatattagag cgagtctttc tgcacacaga tcaccttcct
      361 atcaacccca ctagcctctg gcaaagggcc cggtcgtgag gcactgggca ggtaagtatc
      421 aaggttacaa gacaggttta aggagaccaa tagaaactgg gcttgtcgag acagagaaga
      481 ctcttgcgtt tctgataggc acctattggt cttactgaca tccactttgc ctttctctcc
      541 acaggtgtcc accctgcagg cttaagcatg gctagcaaag gagaagaact cttcactgga
      601 gttgtcccaa ttcttgttga attagattga tctagagcat gcaccggtga tatcgcggcc
      661 gcattaggca ccccaggctt tacactttat gcttccggct cgtataatgt gtggattttg
      721 agttaggatc cgtcgagatt ttcaggagct aaggaagcta aaatggagaa aaaaatcact
      781 ggatatacca ccgttgatat atcccaatgg catcgtaaag aacattttga ggcatttcag
      841 tcagttgctc aatgtaccta taaccagacc gttcagctgg atattacggc ctttttaaag
      901 accgtaaaga aaaataagca caagttttat ccggccttta ttcacattct tgcccgcctg
      961 atgaatgctc atccggaatt ccgtatggca atgaaagacg gtgagctggt gatatgggat
     1021 agtgttcacc cttgttacac cgttttccat gagcaaactg aaacgttttc atcgctctgg
     1081 agtgaatacc acgacgattt ccggcagttt ctacacatat attcgcaaga tgtggcgtgt
     1141 tacggtgaaa acctggccta tttccctaaa gggtttattg agaatatgtt tttcgtctca
     1201 gccaatccct gggtgagttt caccagtttt gatttaaacg tggccaatat ggacaacttc
     1261 ttcgcccccg ttttcaccat gggcaaatat tatacgcaag gcgacaaggt gctgatgccg
     1321 ctggcgattc aggttcatca tgccgtttgt gatggcttcc atgtcggcag aatgcttaat
     1381 gaattacaac agtactgcga tgagtggcag ggcggggcgt aaacgcgtgg atccggctta
     1441 ctaaaagcca gataacagta tgcgtatttg cgcgctgatt tttgcggtat aagaatatat
     1501 actgatatgt atacccgaag tatgtcaaaa agaggtatgc tatgaagcag cgtattacag
     1561 tgacagttga cagcgacagc tatcagttgc tcaaggcata tatgatgtca atatctccgg
     1621 tctggtaagc acaaccatgc agaatgaagc ccgtcgtctg cgtgccgaac gctggaaagc
     1681 ggaaaatcag gaagggatgg ctgaggtcgc ccggtttatt gaaatgaacg gctcttttgc
     1741 tgacgagaac aggggctggt gaaatgcagt ttaaggttta cacctataaa agagagagcc
     1801 gttatcgtct gtttgtggat gtacagagtg atattattga cacgcccggg cgacggatgg
     1861 tgatccccct ggccagtgca cgtctgctgt cagataaagt ctcccgtgaa ctttacccgg
     1921 tggtgcatat cggggatgaa agctggcgca tgatgaccac cgatatggcc agtgtgccgg
     1981 tctccgttat cggggaagaa gtggctgatc tcagccaccg cgaaaatgac atcaaaaacg
     2041 ccattaacct gatgttctgg ggaatataaa tgtcaggctc ccttatacac agccagtctg
     2101 caggatatcg tcgacgaatt cggccggccg cttcgagcag acatgataag atacattgat
     2161 gagtttggac aaaccacaac tagaatgcag tgaaaaaaat gctttatttg tgaaatttgt
     2221 gatgctattg ctttatttgt aaccattata agctgcaata aacaagttaa caacaacaat
     2281 tgcattcatt ttatgtttca ggttcagggg gaggtgtggg aggtttttta aagcaagtaa
     2341 aacctctaca aatgtggtaa aatcgataag gatccgaccg atgcccttga gagccttcaa
     2401 cccagtcagc tccttccggt gggcgcgggg catgactatc gtcgccgcac ttatgactgt
     2461 cttctttatc atgcaactcg taggacaggt gccggcagcg ctcttccgct tcctcgctca
     2521 ctgactcgct gcgctcggtc gttcggctgc ggcgagcggt atcagctcac tcaaaggcgg
     2581 taatacggtt atccacagaa tcaggggata acgcaggaaa gaacatgtga gcaaaaggcc
     2641 agcaaaaggc caggaaccgt aaaaaggccg cgttgctggc gtttttccat aggctccgcc
     2701 cccctgacga gcatcacaaa aatcgacgct caagtcagag gtggcgaaac ccgacaggac
     2761 tataaagata ccaggcgttt ccccctggaa gctccctcgt gcgctctcct gttccgaccc
     2821 tgccgcttac cggatacctg tccgcctttc tcccttcggg aagcgtggcg ctttctcata
     2881 gctcacgctg taggtatctc agttcggtgt aggtcgttcg ctccaagctg ggctgtgtgc
     2941 acgaaccccc cgttcagccc gaccgctgcg ccttatccgg taactatcgt cttgagtcca
     3001 acccggtaag acacgactta tcgccactgg cagcagccac tggtaacagg attagcagag
     3061 cgaggtatgt aggcggtgct acagagttct tgaagtggtg gcctaactac ggctacacta
     3121 gaagaacagt atttggtatc tgcgctctgc tgaagccagt taccttcgga aaaagagttg
     3181 gtagctcttg atccggcaaa caaaccaccg ctggtagcgg tggttttttt gtttgcaagc
     3241 agcagattac gcgcagaaaa aaaggatctc aagaagatcc tttgatcttt tctacggggt
     3301 ctgacgctca gtggaacgaa aactcacgtt aagggatttt ggtcatgaga ttatcaaaaa
     3361 ggatcttcac ctagatcctt ttaaattaaa aatgaagttt taaatcaatc taaagtatat
     3421 atgagtaaac ttggtctgac agcggccgca aatgctaaac cactgcagtg gttaccagtg
     3481 cttgatcagt gaggcaccga tctcagcgat ctgcctattt cgttcgtcca tagtggcctg
     3541 actccccgtc gtgtagatca ctacgattcg tgagggctta ccatcaggcc ccagcgcagc
     3601 aatgatgccg cgagagccgc gttcaccggc ccccgatttg tcagcaatga accagccagc
     3661 agggagggcc gagcgaagaa gtggtcctgc tactttgtcc gcctccatcc agtctatgag
     3721 ctgctgtcgt gatgctagag taagaagttc gccagtgagt agtttccgaa gagttgtggc
     3781 cattgctact ggcatcgtgg tatcacgctc gtcgttcggt atggcttcgt tcaactctgg
     3841 ttcccagcgg tcaagccggg tcacatgatc acccatatta tgaagaaatg cagtcagctc
     3901 cttagggcct ccgatcgttg tcagaagtaa gttggccgcg gtgttgtcgc tcatggtaat
     3961 ggcagcacta cacaattctc ttaccgtcat gccatccgta agatgctttt ccgtgaccgg
     4021 cgagtactca accaagtcgt tttgtgagta gtgtatacgg cgaccaagct gctcttgccc
     4081 ggcgtctata cgggacaaca ccgcgccaca tagcagtact ttgaaagtgc tcatcatcgg
     4141 gaatcgttct tcggggcgga aagactcaag gatcttgccg ctattgagat ccagttcgat
     4201 atagcccact cttgcaccca gttgatcttc agcatctttt actttcacca gcgtttcggg
     4261 gtgtgcaaaa acaggcaagc aaaatgccgc aaagaaggga atgagtgcga cacgaaaatg
     4321 ttggatgctc atactcgtcc tttttcaata ttattgaagc atttatcagg gttactagta
     4381 cgtctctcaa ggataagtaa gtaatattaa ggtacgggag gtattggaca ggccgcaata
     4441 aaatatcttt attttcatta catctgtgtg ttggtttttt gtgtgaatcg atagtactaa
     4501 catacgctct ccatcaaaac aaaacgaaac aaaacaaact agcaaaata
//
