LOCUS       sequence-257268-        6571 bp    DNA     circular SYN 15-DEC-2025
DEFINITION  expresses muSOX in mammalian cells.
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 6571)
  AUTHORS   Hartenian EN, Glaunsinger BA
  TITLE     Xrn1 activity broadly represses RNA polymerase II occupancy at 
            mammalian but not viral promoters during herpesvirus infection
  JOURNAL   bioRxiv 585984
REFERENCE   2  (bases 1 to 6571)
  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: "bioRxiv 
            585984"
COMMENT     Sequence Label: pCDEF3-muSOX
FEATURES             Location/Qualifiers
     source          1..6571
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     rep_origin      complement(59..647)
                     /direction=LEFT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     complement(139..158)
                     /label=pBR322ori-F
                     /note="pBR322 origin, forward primer"
     CDS             complement(join(818..1609,1610..1678))
                     /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     1441..1460
                     /label=Amp-R
                     /note="Ampicillin resistance gene, reverse primer"
     promoter        complement(1679..1783)
                     /gene="bla"
                     /label=AmpR promoter
     primer_bind     complement(1858..1877)
                     /label=pRS-marker
                     /note="pRS vectors, use to sequence yeast selectable 
                     marker"
     enhancer        2049..2428
                     /label=CMV enhancer
                     /note="human cytomegalovirus immediate early enhancer"
     promoter        2429..2632
                     /label=CMV promoter
                     /note="human cytomegalovirus (CMV) immediate early 
                     promoter"
     primer_bind     2583..2603
                     /label=CMV-F
                     /note="Human CMV immediate early promoter, forward primer"
     protein_bind    2634..2652
                     /gene="tetO"
                     /label=tet operator
                     /bound_moiety="tetracycline repressor TetR"
                     /note="bacterial operator O2 for the tetR and tetA genes"
     protein_bind    2655..2673
                     /gene="tetO"
                     /label=tet operator
                     /bound_moiety="tetracycline repressor TetR"
                     /note="bacterial operator O2 for the tetR and tetA genes"
     primer_bind     2683..2707
                     /label=LNCX
                     /note="Human CMV promoter, forward primer"
     CDS             2805..2828
                     /codon_start=1
                     /product="peptide that binds Strep-Tactin(R), an engineered
                     form of streptavidin"
                     /label=Strep-Tag II
                     /translation="WSHPQFEK"
     CDS             2865..2888
                     /codon_start=1
                     /product="peptide that binds Strep-Tactin(R), an engineered
                     form of streptavidin"
                     /label=Strep-Tag II
                     /translation="WSHPQFEK"
     primer_bind     complement(4393..4410)
                     /label=BGH-rev
                     /note="Bovine growth hormone terminator, reverse primer. 
                     Also called BGH reverse"
     polyA_signal    4399..4623
                     /label=bGH poly(A) signal
                     /note="bovine growth hormone polyadenylation signal"
     rep_origin      4669..5097
                     /direction=RIGHT
                     /label=f1 ori
                     /note="f1 bacteriophage origin of replication; arrow 
                     indicates direction of (+) strand synthesis"
     primer_bind     complement(4756..4775)
                     /label=F1ori-R
                     /note="F1 origin, reverse primer"
     primer_bind     4966..4987
                     /label=F1ori-F
                     /note="F1 origin, forward primer"
     primer_bind     complement(5106..5126)
                     /label=pBABE 3'
                     /note="SV40 enhancer, reverse primer for pBABE vectors"
     promoter        5111..5440
                     /label=SV40 promoter
                     /note="SV40 enhancer and early promoter"
     rep_origin      5291..5426
                     /label=SV40 ori
                     /note="SV40 origin of replication"
     primer_bind     5353..5372
                     /label=SV40pro-F
                     /note="SV40 promoter/origin, forward primer"
     promoter        5488..5535
                     /label=EM7 promoter
                     /note="synthetic bacterial promoter "
     CDS             5554..5928
                     /codon_start=1
                     /gene="Sh ble from Streptoalloteichus hindustanus"
                     /product="antibiotic-binding protein"
                     /label=BleoR
                     /note="confers resistance to bleomycin, phleomycin, and 
                     Zeocin(TM)"
                     /translation="MAKLTSAVPVLTARDVAGAVEFWTDRLGFSRDFVEDDFAGVVRDD
                     VTLFISAVQDQVVPDNTLAWVWVRGLDELYAEWSEVVSTNFRDASGPAMTEIGEQPWGR
                     EFALRDPAGNCVHFVAEEQD"
     polyA_signal    6058..6179
                     /label=SV40 poly(A) signal
                     /note="SV40 polyadenylation signal"
     primer_bind     complement(6095..6114)
                     /label=SV40pA-R
                     /note="SV40 polyA, reverse primer"
     primer_bind     6149..6168
                     /label=EBV-rev
                     /note="SV40 polyA terminator, reverse primer"
     primer_bind     complement(6228..6244)
                     /label=M13 rev
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     primer_bind     complement(6228..6244)
                     /label=M13 Reverse
                     /note="In lacZ gene. Also called M13-rev"
     primer_bind     complement(6241..6263)
                     /label=M13/pUC Reverse
                     /note="In lacZ gene"
     protein_bind    6252..6268
                     /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(6276..6282,6283..6300,6301..6306))
                     /label=lac promoter
                     /note="promoter for the E. coli lac operon"
     protein_bind    6321..6342
                     /label=CAP binding site
                     /bound_moiety="E. coli catabolite activator protein"
                     /note="CAP binding activates transcription in the presence 
                     of cAMP."
     primer_bind     complement(6459..6476)
                     /label=L4440
                     /note="L4440 vector, forward primer"
ORIGIN
        1 tgtgagcaaa aggccagcaa aaggccagga accgtaaaaa ggccgcgttg ctggcgtttt
       61 tccataggct ccgcccccct gacgagcatc acaaaaatcg acgctcaagt cagaggtggc
      121 gaaacccgac aggactataa agataccagg cgtttccccc tggaagctcc ctcgtgcgct
      181 ctcctgttcc gaccctgccg cttaccggat acctgtccgc ctttctccct tcgggaagcg
      241 tggcgctttc tcatagctca cgctgtaggt atctcagttc ggtgtaggtc gttcgctcca
      301 agctgggctg tgtgcacgaa ccccccgttc agcccgaccg ctgcgcctta tccggtaact
      361 atcgtcttga gtccaacccg gtaagacacg acttatcgcc actggcagca gccactggta
      421 acaggattag cagagcgagg tatgtaggcg gtgctacaga gttcttgaag tggtggccta
      481 actacggcta cactagaaga acagtatttg gtatctgcgc tctgctgaag ccagttacct
      541 tcggaaaaag agttggtagc tcttgatccg gcaaacaaac caccgctggt agcggtggtt
      601 tttttgtttg caagcagcag attacgcgca gaaaaaaagg atctcaagaa gatcctttga
      661 tcttttctac ggggtctgac gctcagtgga acgaaaactc acgttaaggg attttggtca
      721 tgagattatc aaaaaggatc ttcacctaga tccttttaaa ttaaaaatga agttttaaat
      781 caatctaaag tatatatgag taaacttggt ctgacagtta ccaatgctta atcagtgagg
      841 cacctatctc agcgatctgt ctatttcgtt catccatagt tgcctgactc cccgtcgtgt
      901 agataactac gatacgggag ggcttaccat ctggccccag tgctgcaatg ataccgcgag
      961 acccacgctc accggctcca gatttatcag caataaacca gccagccgga agggccgagc
     1021 gcagaagtgg tcctgcaact ttatccgcct ccatccagtc tattaattgt tgccgggaag
     1081 ctagagtaag tagttcgcca gttaatagtt tgcgcaacgt tgttgccatt gctacaggca
     1141 tcgtggtgtc acgctcgtcg tttggtatgg cttcattcag ctccggttcc caacgatcaa
     1201 ggcgagttac atgatccccc atgttgtgca aaaaagcggt tagctccttc ggtcctccga
     1261 tcgttgtcag aagtaagttg gccgcagtgt tatcactcat ggttatggca gcactgcata
     1321 attctcttac tgtcatgcca tccgtaagat gcttttctgt gactggtgag tactcaacca
     1381 agtcattctg agaatagtgt atgcggcgac cgagttgctc ttgcccggcg tcaatacggg
     1441 ataataccgc gccacatagc agaactttaa aagtgctcat cattggaaaa cgttcttcgg
     1501 ggcgaaaact ctcaaggatc ttaccgctgt tgagatccag ttcgatgtaa cccactcgtg
     1561 cacccaactg atcttcagca tcttttactt tcaccagcgt ttctgggtga gcaaaaacag
     1621 gaaggcaaaa tgccgcaaaa aagggaataa gggcgacacg gaaatgttga atactcatac
     1681 tcttcctttt tcaatattat tgaagcattt atcagggtta ttgtctcatg agcggataca
     1741 tatttgaatg tatttagaaa aataaacaaa taggggttcc gcgcacattt ccccgaaaag
     1801 tgccacctga cgtcgacgga tcgggagatc tcccgatccc ctatggtgca ctctcagtac
     1861 aatctgctct gatgccgcat agttaagcca gtatctgctc cctgcttgtg tgttggaggt
     1921 cgctgagtag tgcgcgagca aaatttaagc tacaacaagg caaggcttga ccgacaattg
     1981 catgaagaat ctgcttaggg ttaggcgttt tgcgctgctt cgcgatgtac gggccagata
     2041 tacgcgttga cattgattat tgactagtta ttaatagtaa tcaattacgg ggtcattagt
     2101 tcatagccca tatatggagt tccgcgttac ataacttacg gtaaatggcc cgcctggctg
     2161 accgcccaac gacccccgcc cattgacgtc aataatgacg tatgttccca tagtaacgcc
     2221 aatagggact ttccattgac gtcaatgggt ggagtattta cggtaaactg cccacttggc
     2281 agtacatcaa gtgtatcata tgccaagtac gccccctatt gacgtcaatg acggtaaatg
     2341 gcccgcctgg cattatgccc agtacatgac cttatgggac tttcctactt ggcagtacat
     2401 ctacgtatta gtcatcgcta ttaccatggt gatgcggttt tggcagtaca tcaatgggcg
     2461 tggatagcgg tttgactcac ggggatttcc aagtctccac cccattgacg tcaatgggag
     2521 tttgttttgg caccaaaatc aacgggactt tccaaaatgt cgtaacaact ccgccccatt
     2581 gacgcaaatg ggcggtaggc gtgtacggtg ggaggtctat ataagcagag ctctccctat
     2641 cagtgataga gatctcccta tcagtgatag agatcgtcga cgagctcgtt tagtgaaccg
     2701 tcagatcgcc tggagacgcc atccacgctg ttttgacctc catagaagac accgggaccg
     2761 atccagcctc cggactctag cgtttaaact taagcttacc aatgtggagc cacccccagt
     2821 tcgagaaggg cggcggcagc ggcggcggca gcggcggcgg cagctggagc cacccccagt
     2881 tcgagaaggg ggcggccgca atggaagggt cgattattct ggattttttt gaaaaggatg
     2941 atttgttgga agttctggga aacatggccc gggaaaatca actagaatca ctggcaactc
     3001 ttaatttttc tgcatttata agatcacccc aagttcaaga gctcctggca acatcaaaga
     3061 cttctgtacg tatttctgat atgaggttga cgtactatta ctttctgttt ctcagactta
     3121 atgaatatat tgggaatact gccataatgg gcgtttttaa ggacatgatg cacctgacag
     3181 acaacagtga ggtgtctgcc gtgtatgctg cgtgtcggga cgtgacccca gatataaagt
     3241 atgcagtgtg ccagagaata gaagccctga ctaggggaca gcaggataat gaactatggg
     3301 acattctgcg tgacggcatg atctcatcat ctaaatttca gtgggctgta aaacaacata
     3361 gcatcaacaa gaaactgttt aatccacagc ctataaaggt taatcactat tttgctggtc
     3421 ctctagcctt tgggataaga tgtgaacaaa ctgttaaaaa aattttgagt gagcttattc
     3481 atccaaactt gccaagattt catgattgtg gatttttgcc cagtgcaatt gatggaattt
     3541 ttggagtttc cctggacact gctttcaatg tgtttacaga tagcagcgga cttgtgcact
     3601 ttgaaccaga tagtattgtg tatgaaataa agtccagata taagtaccag ttttcaaaat
     3661 ctgaatttga tggtctggcc aagaaatatt tggatctcta caaaaacccc tgtgaggcaa
     3721 cttttatcaa gttcataaac tgtatttcaa gacccgctgt tgaatatgtt ccacatggaa
     3781 aacttccctc agaaagtgac tatctaatca cccactccat gaactggaaa accagcaaca
     3841 agagaaagcg caaaatcact gatagtcata tctgtcttaa aaaatgtcta cttcacaaca
     3901 tgtatcaaca atcaacagtt tatatcttgt cagacccctc tgagacttct ggaaaaatca
     3961 ccattaaggc atcttttccc atagatgtat ttgtgaatcc tgcacacaac tacttttacc
     4021 aggtggcgct ccaaaatatg gttgttcaag attacattga atttggtcag ggtgtatata
     4081 aaagactagg ccatcagaag aatttcatag catctggatt tttcagaaag agacactttt
     4141 ctgatcctgc tgtttgctcc attggtaatt gtggaaagtt ggatactaca gacgagatac
     4201 cagtggcgct catcatcact cctgttagga ttccatctac tgtgctgcac gagtacctca
     4261 agaaagcaat tgatttttgg aatcagtgtg ctgaggcaaa ctttgaccat atcccatggg
     4321 ggcagctttc ggatgttgca agaaaaccca taacccccta atctagaggg cccgtttaaa
     4381 cccgctgatc agcctcgact gtgccttcta gttgccagcc atctgttgtt tgcccctccc
     4441 ccgtgccttc cttgaccctg gaaggtgcca ctcccactgt cctttcctaa taaaatgagg
     4501 aaattgcatc gcattgtctg agtaggtgtc attctattct ggggggtggg gtggggcagg
     4561 acagcaaggg ggaggattgg gaagacaata gcaggcatgc tggggatgcg gtgggctcta
     4621 tggcttctga ggcggaaaga accagctggg gctctagggg gtatccccac gcgccctgta
     4681 gcggcgcatt aagcgcggcg ggtgtggtgg ttacgcgcag cgtgaccgct acacttgcca
     4741 gcgccctagc gcccgctcct ttcgctttct tcccttcctt tctcgccacg ttcgccggct
     4801 ttccccgtca agctctaaat cgggggctcc ctttagggtt ccgatttagt gctttacggc
     4861 acctcgaccc caaaaaactt gattagggtg atggttcacg tagtgggcca tcgccctgat
     4921 agacggtttt tcgccctttg acgttggagt ccacgttctt taatagtgga ctcttgttcc
     4981 aaactggaac aacactcaac cctatctcgg tctattcttt tgatttataa gggattttgc
     5041 cgatttcggc ctattggtta aaaaatgagc tgatttaaca aaaatttaac gcgaattaat
     5101 tctgtggaat gtgtgtcagt tagggtgtgg aaagtcccca ggctccccag caggcagaag
     5161 tatgcaaagc atgcatctca attagtcagc aaccaggtgt ggaaagtccc caggctcccc
     5221 agcaggcaga agtatgcaaa gcatgcatct caattagtca gcaaccatag tcccgcccct
     5281 aactccgccc atcccgcccc taactccgcc cagttccgcc cattctccgc cccatggctg
     5341 actaattttt tttatttatg cagaggccga ggccgcctct gcctctgagc tattccagaa
     5401 gtagtgagga ggcttttttg gaggcctagg cttttgcaaa aagctcccgg gagcttgtat
     5461 atccattttc ggatctgatc agcacgtgtt gacaattaat catcggcata gtatatcggc
     5521 atagtataat acgacaaggt gaggaactaa accatggcca agttgaccag tgccgttccg
     5581 gtgctcaccg cgcgcgacgt cgccggagcg gtcgagttct ggaccgaccg gctcgggttc
     5641 tcccgggact tcgtggagga cgacttcgcc ggtgtggtcc gggacgacgt gaccctgttc
     5701 atcagcgcgg tccaggacca ggtggtgccg gacaacaccc tggcctgggt gtgggtgcgc
     5761 ggcctggacg agctgtacgc cgagtggtcg gaggtcgtgt ccacgaactt ccgggacgcc
     5821 tccgggccgg ccatgaccga gatcggcgag cagccgtggg ggcgggagtt cgccctgcgc
     5881 gacccggccg gcaactgcgt gcacttcgtg gccgaggagc aggactgaca cgtgctacga
     5941 gatttcgatt ccaccgccgc cttctatgaa aggttgggct tcggaatcgt tttccgggac
     6001 gccggctgga tgatcctcca gcgcggggat ctcatgctgg agttcttcgc ccaccccaac
     6061 ttgtttattg cagcttataa tggttacaaa taaagcaata gcatcacaaa tttcacaaat
     6121 aaagcatttt tttcactgca ttctagttgt ggtttgtcca aactcatcaa tgtatcttat
     6181 catgtctgta taccgtcgac ctctagctag agcttggcgt aatcatggtc atagctgttt
     6241 cctgtgtgaa attgttatcc gctcacaatt ccacacaaca tacgagccgg aagcataaag
     6301 tgtaaagcct ggggtgccta atgagtgagc taactcacat taattgcgtt gcgctcactg
     6361 cccgctttcc agtcgggaaa cctgtcgtgc cagctgcatt aatgaatcgg ccaacgcgcg
     6421 gggagaggcg gtttgcgtat tgggcgctct tccgcttcct cgctcactga ctcgctgcgc
     6481 tcggtcgttc ggctgcggcg agcggtatca gctcactcaa aggcggtaat acggttatcc
     6541 acagaatcag gggataacgc aggaaagaac a
//
