LOCUS       sequence-343445-        6319 bp    DNA     circular SYN 15-DEC-2025
DEFINITION  HNRNPR knockdown.
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 6319)
  AUTHORS   Guney MH, Nagalekshmi K, McCauley SM, Carbone C, Aydemir O, Luban J
  TITLE     IFIH1 (MDA5) is required for innate immune detection of 
            intron-containing RNA expressed from the HIV-1 provirus.
  JOURNAL   Proc Natl Acad Sci U S A. 2024 Jul 16;121(29):e2404349121. doi: 
            10.1073/pnas.2404349121. Epub 2024 Jul 10.
  PUBMED    38985764
REFERENCE   2  (bases 1 to 6319)
  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: "Proc Natl 
            Acad Sci U S A."; date: "2024-07-16"; volume: "121(29):e2404349121. 
            doi"; pages: " 10.1073/pnas.2404349121. Epub 2024 Jul 10"
COMMENT     Sequence Label: pAPM-miR30-HNRNPR-ts3
FEATURES             Location/Qualifiers
     source          1..6319
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     primer_bind     208..228
                     /label=pBABE 3'
                     /note="SV40 enhancer, reverse primer for pBABE vectors"
     primer_bind     402..421
                     /label=pRS-marker
                     /note="pRS vectors, use to sequence yeast selectable 
                     marker"
     promoter        496..600
                     /gene="bla"
                     /label=AmpR promoter
     CDS             join(601..669,670..1461)
                     /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     complement(819..838)
                     /label=Amp-R
                     /note="Ampicillin resistance gene, reverse primer"
     rep_origin      1632..2220
                     /direction=RIGHT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     2121..2140
                     /label=pBR322ori-F
                     /note="pBR322 origin, forward primer"
     LTR             2291..2471
                     /label=5' LTR (truncated)
                     /note="truncated 5' long terminal repeat (LTR) from HIV-1"
     ncRNA           complement(2605..2619)
                     /label=miR-30a loop
                     /note="loop from the the 71-nt precursor of the human 
                     miR-30a microRNA (Zeng et al., 2002)"
                     /ncRNA_class="miRNA"
     promoter        complement(3334..3741)
                     /label=SFFV promoter
                     /note="spleen focus-forming virus long terminal repeat 
                     (LTR) promoter"
     misc_feature    3878..3995
                     /label=cPPT/CTS
                     /note="central polypurine tract and central termination 
                     sequence of HIV-1"
     CDS             complement(4293..4337)
                     /codon_start=1
                     /product="antigenic peptide corresponding to amino acids 
                     655 to 669 of the HIV envelope protein gp41 (Lutje Hulsik 
                     et al., 2013)"
                     /label=gp41 peptide
                     /note="recognized by the 2H10 single-chain llama nanobody"
                     /translation="KNEQELLELDKWASL"
     misc_feature    4522..4755
                     /label=RRE
                     /note="The Rev response element (RRE) of HIV-1 allows for 
                     Rev-dependent mRNA export from the nucleus to the 
                     cytoplasm."
     misc_feature    5252..5377
                     /label=HIV-1 Psi
                     /note="packaging signal of human immunodeficiency virus 
                     type 1"
     LTR             5424..5604
                     /label=5' LTR (truncated)
                     /note="truncated 5' long terminal repeat (LTR) from HIV-1"
     promoter        complement(5622..5820)
                     /label=CMV promoter
                     /note="human cytomegalovirus (CMV) immediate early 
                     promoter"
     primer_bind     complement(5647..5667)
                     /label=CMV-F
                     /note="Human CMV immediate early promoter, forward primer"
     enhancer        5822..6201
                     /label=CMV enhancer
                     /note="human cytomegalovirus immediate early enhancer"
     promoter        complement(join(6213..6319,1..223))
                     /label=SV40 promoter
                     /note="SV40 enhancer and early promoter"
     rep_origin      join(6227..6319,1..43)
                     /label=SV40 ori
                     /note="SV40 origin of replication"
     primer_bind     complement(6281..6300)
                     /label=SV40pro-F
                     /note="SV40 promoter/origin, forward primer"
ORIGIN
        1 ggggcggaga atgggcggaa ctgggcggag ttaggggcgg gatgggcgga gttaggggcg
       61 ggactatggt tgctgactaa ttgagatgca tgctttgcat acttctgcct gctggggagc
      121 ctggggactt tccacacctg gttgctgact aattgagatg catgctttgc atacttctgc
      181 ctgctgggga gcctggggac tttccacacc ctaactgaca cacattccac agcgcgtata
      241 tctggcccgt acatcgcgaa gcagcgcaaa acgcctaacc ctaagcagat tcttcatgca
      301 attgtcggtc aagccttgcc ttgttgtagc ttaaattttg ctcgcgcact actcagcgac
      361 ctccaacaca caagcaggga gcagatactg gcttaactat gcggcatcag agcagattgt
      421 actgagagtg caccataggg gatcgggaga tctcccgatc cgtcgacgtc aggtggcact
      481 tttcggggaa atgtgcgcgg aacccctatt tgtttatttt tctaaataca ttcaaatatg
      541 tatccgctca tgagacaata accctgataa atgcttcaat aatattgaaa aaggaagagt
      601 atgagtattc aacatttccg tgtcgccctt attccctttt ttgcggcatt ttgccttcct
      661 gtttttgctc acccagaaac gctggtgaaa gtaaaagatg ctgaagatca gttgggtgca
      721 cgagtgggtt acatcgaact ggatctcaac agcggtaaga tccttgagag ttttcgcccc
      781 gaagaacgtt ttccaatgat gagcactttt aaagttctgc tatgtggcgc ggtattatcc
      841 cgtattgacg ccgggcaaga gcaactcggt cgccgcatac actattctca gaatgacttg
      901 gttgagtact caccagtcac agaaaagcat cttacggatg gcatgacagt aagagaatta
      961 tgcagtgctg ccataaccat gagtgataac actgcggcca acttacttct gacaacgatc
     1021 ggaggaccga aggagctaac cgcttttttg cacaacatgg gggatcatgt aactcgcctt
     1081 gatcgttggg aaccggagct gaatgaagcc ataccaaacg acgagcgtga caccacgatg
     1141 cctgtagcaa tggcaacaac gttgcgcaaa ctattaactg gcgaactact tactctagct
     1201 tcccggcaac aattaataga ctggatggag gcggataaag ttgcaggacc acttctgcgc
     1261 tcggcccttc cggctggctg gtttattgct gataaatctg gagccggtga gcgtgggtct
     1321 cgcggtatca ttgcagcact ggggccagat ggtaagccct cccgtatcgt agttatctac
     1381 acgacgggga gtcaggcaac tatggatgaa cgaaatagac agatcgctga gataggtgcc
     1441 tcactgatta agcattggta actgtcagac caagtttact catatatact ttagattgat
     1501 ttaaaacttc atttttaatt taaaaggatc taggtgaaga tcctttttga taatctcatg
     1561 accaaaatcc cttaacgtga gttttcgttc cactgagcgt cagaccccgt agaaaagatc
     1621 aaaggatctt cttgagatcc tttttttctg cgcgtaatct gctgcttgca aacaaaaaaa
     1681 ccaccgctac cagcggtggt ttgtttgccg gatcaagagc taccaactct ttttccgaag
     1741 gtaactggct tcagcagagc gcagatacca aatactgttc ttctagtgta gccgtagtta
     1801 ggccaccact tcaagaactc tgtagcaccg cctacatacc tcgctctgct aatcctgtta
     1861 ccagtggctg ctgccagtgg cgataagtcg tgtcttaccg ggttggactc aagacgatag
     1921 ttaccggata aggcgcagcg gtcgggctga acggggggtt cgtgcacaca gcccagcttg
     1981 gagcgaacga cctacaccga actgagatac ctacagcgtg agctatgaga aagcgccacg
     2041 cttcccgaag ggagaaaggc ggacaggtat ccggtaagcg gcagggtcgg aacaggagag
     2101 cgcacgaggg agcttccagg gggaaacgcc tggtatcttt atagtcctgt cgggtttcgc
     2161 cacctctgac ttgagcgtcg atttttgtga tgctcgtcag gggggcggag cctatggaaa
     2221 aacgccagca acgcggcctt tttacggttc ctggcctttt gctggccttt tgctcacatg
     2281 aaacgggccc tgctagagat tttccacact gactaaaagg gtctgaggga tctctagtta
     2341 ccagagtcac acaacagacg ggcacacact acttgaagca ctcaaggcaa gctttattga
     2401 ggcttaagca gtgggttccc tagttagcca gagagctccc aggctcagat ctggtctaac
     2461 cagagagacc cagtacagtc cggatgcagt tagcccttcc agtcccccct tttcttttaa
     2521 aaagtggcta agatctacag ctgccgaatt ctagcccctt gaagtccgag gcagtaggca
     2581 ggcaaacaac agactttttg tatacatctg tggcttcact atacaaaaag tctgttgttt
     2641 gctcgctcac tgtcaacagc aatatacctt ctcgagcctt ctgttgggtt aagaaggcgg
     2701 ccgcggcgat cgctcaggcg ccgggtttgc gtgtcatgca ccaggtccta ggtccttcgg
     2761 ggacctccac atctgcggtc acagtaaagc ccagccgttc atagaagggc aggtttcgtg
     2821 gagcagaggt ctccagaaat gcagggactc cagctcgttc tgcagcctcc actcctggca
     2881 ggaccacagc acttcccagt cctttgccct gatggtcagg agagaccccc acggtagcca
     2941 ggaaccatgc tggttcctta ggcctgtgtg gggccagcag tccctccatc tgctgctgtg
     3001 ctgccagcct ggagccgctc agttctgcca ttctagggcc gatctctgca aagacagctc
     3061 cggcttccac gctctctggt gtggtccaga cagccacagc tgctccatcg tctgcgaccc
     3121 agaccttccc aatgtccagg cccactcggg tcaggaacag ttcctgcagc tcagtcactc
     3181 tctcgatatg ccgatctggg tccacagtgt ggcgtgtggc agggtaatcg gcaaaagcgg
     3241 cggccagtgt tctcacagcc cttgggacat catctcttgt agccagcctc acggtaggtt
     3301 tgtattcggt catggcggca cgcgttctag acccccgggc gactcagtct gtcggaggac
     3361 tggcgcgccg agtgaggggt tgtgagctct tttatagagc tcgggaagca gaagcgcgcg
     3421 aacagaagcg agaagcaggc tgattggtta attcaaataa ggcgcagggt catttcaggt
     3481 ccttggggga gcctggaaac atctgatggg tcttaagaaa ctgctgaggg ttgggccata
     3541 tctggggacc atctgttctt ggcctcgggc cggggccgaa actgcggtga ccatctgttc
     3601 ttggccccgg gccggggccg aaactgctca ccgcagatat cctgtttggc ccaacgttag
     3661 ctattttcat gtacccgccc ttgatctgaa cttctctatt cttggtttgg tatttttcca
     3721 tgccttgcaa aatggcgtta ctgcagctag cttgccaaac ctacaggtgg ggtctttcat
     3781 tccccccttt ttctggagac taaataaaat cttttatttt atcggggctg cagttaatta
     3841 accaaactgg atctctgctg tccctgtaat aaacccgaaa attttgaatt tttgtaattt
     3901 gtttttgtaa ttctttagtt tgtatgtctg ttgctattat gtctactatt ctttcccctg
     3961 cactgtaccc cccaatcccc ccttttcttt taaaattgtg gatgaatact gccatttgtc
     4021 tgcagaattg gcgcacgcag tgccgatccg ttcactaatc gaatggatct gtctctgtct
     4081 ctctctccac cttcttcttc tattccttcg ggcctgtcgg gtcccctcgg ggttgggagg
     4141 tgggtctgaa acgataatgg tgaatatccc tgcctaactc tattcactat agaaagtaca
     4201 gcaaaaacta ttcttaaacc taccaagcct cctactatca ttatgaataa ttttatatac
     4261 cacagccaat ttgttatgtt aaaccaattc cacaaacttg cccatttatc taattccaat
     4321 aattcttgtt cattcttttc ttgctggttt tgcgattctt caattaagga gtgtattaag
     4381 cttgtgtaat tgttaatttc tctgtcccac tccatccaag tcgtgtgatt ccaaatctgt
     4441 tccagagatt tattactcca actagcattc caaggcacag cagtggtgca aatgagtttt
     4501 ccagagcaac cccaaatccc caggagctgt tgatccttta ggtatctttc cacagccagg
     4561 attcttgcct ggagctgctt gatgccccag actgtgagtt gcaacagatg ctgttgcgcc
     4621 tcaatagccc tcagcaaatt gttctgctgc tgcactatac cagacaataa ttgtctggcc
     4681 tgtaccgtca gcgtcattga cgctgcgccc atagtgcttc ctgctgctcc caagaaccca
     4741 aggaacaaag ctcctattcc cactgctctt ttttctctct gcaccactct tctctttgcc
     4801 ttggtgggtg ctactcctaa tggttcaatt tttactactt tatatttata taattcactt
     4861 ctccaattgt ccctcatatc tcctcctcca ggtctgaaga tcagcggccg gccgcttgct
     4921 gtgcggtggt cttacttttg ttttgctctt cctctatctt gtctaaagct tccttggtgt
     4981 cttttatctc tatcctttga tgcacacaat agagggttgc tactgtatta tataatgatc
     5041 taagttcttc tgatcctgtc tgaagggatg gttgtagctg tcccagtatt tgtctacagc
     5101 cttctgatgt ttctaacagg ccaggattaa ctgcgaatcg ttctagctcc ctgcttgccc
     5161 atactatatg ttttaattta tattttttct ttccccctgg ccttaaccga attttttccc
     5221 atcgcgatct aattctcccc cgcttaatac tgacgctctc gcacccatct ctctccttct
     5281 agcctccgct agtcaaaatt tttggcgtac tcaccagtcg ccgcccctcg cctcttgccg
     5341 tgcgcgcttc agcaagccga gtcctgcgtc gagagagctc ctctggtttc cctttcgctt
     5401 tcaagtccct gttcgggcgc cactgctaga gattttccac actgactaaa agggtctgag
     5461 ggatctctag ttaccagagt ctcacaacag acgggcacac actacttgaa gcactcaagg
     5521 caagctttat tgaggcttaa gcagtgggtt ccctagttag ccagagagct cccaggctca
     5581 gatctggtct aaccagagag acccagtaca ggcaaaacgc gctgcttata tagacctccc
     5641 accgtacacg cctaccgccc atttgcgtca atggggcgga gttgttacga cattttggaa
     5701 agtcccgttg attttggtgc caaaacaaac tcccattgac gtcaatgggg tggagacttg
     5761 gaaatccccg tgagtcaaac cgctatccac gcccattgat gtactgccaa aaccgcatca
     5821 ccatggtaat agcgatgact aatacgtaga tgtactgcca agtaggaaag tcccataagg
     5881 tcatgtactg ggcataatgc caggcgggcc atttaccgtc attgacgtca atagggggcg
     5941 tacttggcat atgatacact tgatgtactg ccaagtgggc agtttaccgt aaatactcca
     6001 cccattgacg tcaatggaaa gtccctattg gcgttactat gggaacatac gtcattattg
     6061 acgtcaatgg gcgggggtcg ttgggcggtc agccaggcgg gccatttacc gtaagttatg
     6121 taacgcggaa ctccatatat gggctatgaa ctaatgaccc cgtaattgat tactattaat
     6181 aactagtcaa taatcaatgt caacgcgagc tttttgcaaa agcctaggcc tccaaaaaag
     6241 cctcctcact acttctggaa tagctcagag gcagaggcgg cctcggcctc tgcataaata
     6301 aaaaaaatta gtcagccat
//
