LOCUS       sequence-269454-        8471 bp    DNA     circular SYN 15-DEC-2025
DEFINITION  Env gene from HIV-1 YU-2 in pcDNA3.1 expression vector.
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 8471)
  AUTHORS   Joshi A, Sedano M, Beauchamp B, Punke EB, Mulla ZD, Meza A, Alozie 
            OK, Mukherjee D, Garg H
  TITLE     HIV-1 Env Glycoprotein Phenotype along with Immune Activation 
            Determines CD4 T Cell Loss in HIV Patients.
  JOURNAL   J Immunol. 2016 Feb 15;196(4):1768-79. doi: 
            10.4049/jimmunol.1501588. Epub 2016 Jan 13.
  PUBMED    26764036
REFERENCE   2  (bases 1 to 8471)
  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"; doi: 
            "10.4049/jimmunol.1501588"; journalName: "J Immunol"; date: 
            "2016-02-15- 15"; volume: "196"; issue: "4"; pages: "1768-79"
COMMENT     Sequence Label: pYU-2-Env
FEATURES             Location/Qualifiers
     source          1..8471
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     enhancer        124..503
                     /label=CMV enhancer
                     /note="human cytomegalovirus immediate early enhancer"
     promoter        504..707
                     /label=CMV promoter
                     /note="human cytomegalovirus (CMV) immediate early 
                     promoter"
     primer_bind     658..678
                     /label=CMV-F
                     /note="Human CMV immediate early promoter, forward primer"
     primer_bind     752..771
                     /label=T7
                     /note="T7 promoter, forward primer"
     promoter        752..770
                     /label=T7 promoter
                     /note="promoter for bacteriophage T7 RNA polymerase"
     misc_feature    2610..2843
                     /label=RRE
                     /note="The Rev response element (RRE) of HIV-1 allows for 
                     Rev-dependent mRNA export from the nucleus to the 
                     cytoplasm."
     CDS             3366..3392
                     /codon_start=1
                     /product="nuclear export signal from the HIV Rev protein 
                     (Fischer et al., 1995)"
                     /label=NES
                     /translation="LPPLERLTL"
     CDS             3858..3899
                     /codon_start=1
                     /product="epitope tag from simian virus 5"
                     /label=V5 tag
                     /translation="GKPIPNPLLGLDST"
     CDS             3909..3926
                     /codon_start=1
                     /product="6xHis affinity tag"
                     /label=6xHis
                     /translation="HHHHHH"
     primer_bind     complement(3949..3966)
                     /label=BGH-rev
                     /note="Bovine growth hormone terminator, reverse primer. 
                     Also called BGH reverse"
     polyA_signal    3955..4179
                     /label=bGH poly(A) signal
                     /note="bovine growth hormone polyadenylation signal"
     rep_origin      4225..4653
                     /direction=RIGHT
                     /label=f1 ori
                     /note="f1 bacteriophage origin of replication; arrow 
                     indicates direction of (+) strand synthesis"
     primer_bind     complement(4312..4331)
                     /label=F1ori-R
                     /note="F1 origin, reverse primer"
     primer_bind     4522..4543
                     /label=F1ori-F
                     /note="F1 origin, forward primer"
     primer_bind     complement(4662..4682)
                     /label=pBABE 3'
                     /note="SV40 enhancer, reverse primer for pBABE vectors"
     promoter        4667..4996
                     /label=SV40 promoter
                     /note="SV40 enhancer and early promoter"
     rep_origin      4847..4982
                     /label=SV40 ori
                     /note="SV40 origin of replication"
     primer_bind     4909..4928
                     /label=SV40pro-F
                     /note="SV40 promoter/origin, forward primer"
     CDS             5063..5857
                     /codon_start=1
                     /gene="aph(3')-II (or nptII)"
                     /product="aminoglycoside phosphotransferase from Tn5"
                     /label=NeoR/KanR
                     /note="confers resistance to neomycin, kanamycin, and G418 
                     (Geneticin(R))"
                     /translation="MIEQDGLHAGSPAAWVERLFGYDWAQQTIGCSDAAVFRLSAQGRP
                     VLFVKTDLSGALNELQDEAARLSWLATTGVPCAAVLDVVTEAGRDWLLLGEVPGQDLLS
                     SHLAPAEKVSIMADAMRRLHTLDPATCPFDHQAKHRIERARTRMEAGLVDQDDLDEEHQ
                     GLAPAELFARLKARMPDGEDLVVTHGDACLPNIMVENGRFSGFIDCGRLGVADRYQDIA
                     LATRDIAEELGGEWADRFLVLYGIAAPDSQRIAFYRLLDEFF"
     primer_bind     complement(5117..5136)
                     /label=Neo-R
                     /note="Neomycin resistance gene, reverse primer"
     primer_bind     5727..5746
                     /label=Neo-F
                     /note="Neomycin resistance gene, forward primer"
     polyA_signal    6033..6154
                     /label=SV40 poly(A) signal
                     /note="SV40 polyadenylation signal"
     primer_bind     complement(6070..6089)
                     /label=SV40pA-R
                     /note="SV40 polyA, reverse primer"
     primer_bind     6124..6143
                     /label=EBV-rev
                     /note="SV40 polyA terminator, reverse primer"
     primer_bind     complement(6203..6219)
                     /label=M13 rev
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     primer_bind     complement(6203..6219)
                     /label=M13 Reverse
                     /note="In lacZ gene. Also called M13-rev"
     primer_bind     complement(6216..6238)
                     /label=M13/pUC Reverse
                     /note="In lacZ gene"
     protein_bind    6227..6243
                     /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(6251..6257,6258..6275,6276..6281))
                     /label=lac promoter
                     /note="promoter for the E. coli lac operon"
     protein_bind    6296..6317
                     /label=CAP binding site
                     /bound_moiety="E. coli catabolite activator protein"
                     /note="CAP binding activates transcription in the presence 
                     of cAMP."
     primer_bind     complement(6434..6451)
                     /label=L4440
                     /note="L4440 vector, forward primer"
     rep_origin      complement(6605..7193)
                     /direction=LEFT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     complement(6685..6704)
                     /label=pBR322ori-F
                     /note="pBR322 origin, forward primer"
     CDS             complement(join(7364..8155,8156..8224))
                     /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     7987..8006
                     /label=Amp-R
                     /note="Ampicillin resistance gene, reverse primer"
     promoter        complement(8225..8329)
                     /gene="bla"
                     /label=AmpR promoter
     primer_bind     complement(8404..8423)
                     /label=pRS-marker
                     /note="pRS vectors, use to sequence yeast selectable 
                     marker"
ORIGIN
        1 agtagtgcgc gagcaaaatt taagctacaa caaggcaagg cttgaccgac aattgcatga
       61 agaatctgct tagggttagg cgttttgcgc tgcttcgcga tgtacgggcc agatatacgc
      121 gttgacattg attattgact agttattaat agtaatcaat tacggggtca ttagttcata
      181 gcccatatat ggagttccgc gttacataac ttacggtaaa tggcccgcct ggctgaccgc
      241 ccaacgaccc ccgcccattg acgtcaataa tgacgtatgt tcccatagta acgccaatag
      301 ggactttcca ttgacgtcaa tgggtggagt atttacggta aactgcccac ttggcagtac
      361 atcaagtgta tcatatgcca agtacgcccc ctattgacgt caatgacggt aaatggcccg
      421 cctggcatta tgcccagtac atgaccttat gggactttcc tacttggcag tacatctacg
      481 tattagtcat cgctattacc atggtgatgc ggttttggca gtacatcaat gggcgtggat
      541 agcggtttga ctcacgggga tttccaagtc tccaccccat tgacgtcaat gggagtttgt
      601 tttggcacca aaatcaacgg gactttccaa aatgtcgtaa caactccgcc ccattgacgc
      661 aaatgggcgg taggcgtgta cggtgggagg tctatataag cagagctctc tggctaacta
      721 gagaacccac tgcttactgg cttatcgaaa ttaatacgac tcactatagg gagacccaag
      781 ctggctagtt aagcttggta ccgagctcgg atccagtacc cttcaccgat caagctttag
      841 gcatctccta tggcaggaag aagcggagac agcgacgaag acctcctcag gacagtcaga
      901 ctcatcaaag ttctctatca aagcagtaag tagtacatgt aatgcaatct ttacaagtat
      961 tagcaatagt agcattagta gtagcaacaa taatagcaat agttgtgtgg accatagtat
     1021 tcatagaata taggaaaata ttaagacaaa ggaaaataga caggttaatt aatagaataa
     1081 cagaaagagc agaagacagt ggcaatgaga gcgacggaga tcaggaagaa ttatcagcac
     1141 ttgtggaaag ggggcacctt gctccttggg atgttgatga tctgtagtgc tgcagaacaa
     1201 ttgtgggtca cagtctatta tggggtacct gtgtggaaag aagcaaccac cactctattt
     1261 tgtgcatcag atgctaaagc atatgataca gaggtacata atgtttgggc cacacatgcc
     1321 tgtgtaccca cagaccccaa cccacaagaa gtaaaattgg aaaatgtgac agaaaatttt
     1381 aacatgtgga aaaataacat ggtagaacaa atgcatgagg atataatcag tttatgggat
     1441 caaagcctaa agccatgtgt aaaattaact ccactctgtg ttactttaaa ttgcactgat
     1501 ttaaggaatg ctactaatac cactagtagt agctgggaaa cgatggagaa aggagaaata
     1561 aaaaactgct ctttcaatat caccacaagc ataagagata aggtacagaa agaatatgca
     1621 cttttttata accttgatgt agtaccaata gataatgcta gctataggtt gataagttgt
     1681 aacacctcag tcattacaca ggcctgtcca aaggtatcct ttgagccaat tcccatacat
     1741 tattgtgccc cggctggttt tgcgattcta aaatgtaatg ataaaaagtt caatggaaca
     1801 ggaccatgta caaatgtcag cacagtacaa tgtacacatg gaattaggcc agtagtatca
     1861 actcaactgc tgttaaatgg cagtctagca gaagaagaga tagtaattag atctgaaaat
     1921 ttcacaaaca atgctaaaac tataatagta cagctgaacg aatctgtagt aattaattgt
     1981 acaagaccca acaacaatac aagaaaaagt ataaatatag gaccagggag agcattgtat
     2041 acaacaggag aaataatagg agatataaga caagcacatt gtaaccttag taaaacacaa
     2101 tgggaaaaca ctttagaaca gatagctata aaattaaaag aacaatttgg gaataataaa
     2161 acaataatct ttaatccatc ctcaggaggg gacccagaaa ttgtaacaca cagttttaat
     2221 tgtggagggg aatttttcta ctgtaattca acacaactgt ttacttggaa tgatactaga
     2281 aagttaaata acactggaag aaatatcaca ctcccatgta gaataaaaca aattataaat
     2341 atgtggcagg aagtaggaaa agcaatgtat gcccctccca tcagaggaca aattagatgt
     2401 tcatcaaata ttacagggct gctattaaca agagatggtg gtaaggacac gaacgggact
     2461 gagatcttca gacctggagg aggagatatg agggacaatt ggagaagtga attatataaa
     2521 tataaagtag taaaaattga accattagga gtagcaccca ccaaggcaaa gagaagagtg
     2581 gtgcagagag aaaaaagagc agtgggacta ggagctttgt tccttgggtt cttgggagca
     2641 gcaggaagca ctatgggcgc agcgtcaata acgctgacgg tacaggccag acaattattg
     2701 tctggtatag tgcaacagca gaacaatctg ctgagggcta ttgaggcgca acagcacctg
     2761 ttgcaactca cagtctgggg catcaagcag ctccaggcaa gagtcctggc tgtggaaaga
     2821 tacctaaggg atcaacagct cctagggatt tggggttgct ctggaaaact catttgcacc
     2881 actactgtgc cttggaatac tagttggagt aataaatctc tgaatgaaat ttgggataac
     2941 atgacttgga tgaagtggga aagagaaatt gacaattaca cacacataat atactcctta
     3001 attgaacaat cgcagaacca acaagaaaag aatgaacaag aattattggc attagataaa
     3061 tgggcaagtt tgtggaattg gtttgacata acaaaatggc tgtggtatat aaaaatattc
     3121 ataatgatag taggaggctt gataggttta agaatagttt ttgttgtact ttctatagtg
     3181 aatagagtta ggcagggata ctcaccatta tcgtttcaga cccacctccc agctcagagg
     3241 ggacccgaca ggcccgacgg aatcgaagaa gaaggtggag agagagacag agacagatcc
     3301 ggtccattag tggatggctt cttagcaatt atctgggtcg acctacggag cctgtgcctt
     3361 ttcagctacc accgcttgag agacttactc ttgattgtaa cgaggattgt ggaacttctg
     3421 ggacgcaggg ggtggggagt cctcaaatat tggtggaatc tcctccagta ttggattcag
     3481 gaactaaaga atagtgctgt tagcttgctc aacgccacag ctatagcagt agctgaggga
     3541 acagataggg ttatagaaat attacaaaga gcttttagag ctgttcttca catacctgta
     3601 agaataagac agggcttgga aagagctttg ctataagatg ggtggcaagt ggtcaaaacg
     3661 tagtatggct ggatggccta ctgtaaggga aagaatgaga cgagccgagc cagcagcaga
     3721 aagaatgaga cgagctgagc cagcagcaga tggggtggga gcagtatctc gagacggatc
     3781 cagctaaggg tcaagacaat tctgcagata tccagcacag tggcggccgc tcgagtctag
     3841 agggcccgcg gttcgaaggt aagcctatcc ctaaccctct cctcggtctc gattctacgc
     3901 gtaccggtca tcatcaccat caccattgag tttaaacccg ctgatcagcc tcgactgtgc
     3961 cttctagttg ccagccatct gttgtttgcc cctcccccgt gccttccttg accctggaag
     4021 gtgccactcc cactgtcctt tcctaataaa atgaggaaat tgcatcgcat tgtctgagta
     4081 ggtgtcattc tattctgggg ggtggggtgg ggcaggacag caagggggag gattgggaag
     4141 acaatagcag gcatgctggg gatgcggtgg gctctatggc ttctgaggcg gaaagaacca
     4201 gctggggctc tagggggtat ccccacgcgc cctgtagcgg cgcattaagc gcggcgggtg
     4261 tggtggttac gcgcagcgtg accgctacac ttgccagcgc cctagcgccc gctcctttcg
     4321 ctttcttccc ttcctttctc gccacgttcg ccggctttcc ccgtcaagct ctaaatcggg
     4381 ggctcccttt agggttccga tttagtgctt tacggcacct cgaccccaaa aaacttgatt
     4441 agggtgatgg ttcacgtagt gggccatcgc cctgatagac ggtttttcgc cctttgacgt
     4501 tggagtccac gttctttaat agtggactct tgttccaaac tggaacaaca ctcaacccta
     4561 tctcggtcta ttcttttgat ttataaggga ttttgccgat ttcggcctat tggttaaaaa
     4621 atgagctgat ttaacaaaaa tttaacgcga attaattctg tggaatgtgt gtcagttagg
     4681 gtgtggaaag tccccaggct ccccagcagg cagaagtatg caaagcatgc atctcaatta
     4741 gtcagcaacc aggtgtggaa agtccccagg ctccccagca ggcagaagta tgcaaagcat
     4801 gcatctcaat tagtcagcaa ccatagtccc gcccctaact ccgcccatcc cgcccctaac
     4861 tccgcccagt tccgcccatt ctccgcccca tggctgacta atttttttta tttatgcaga
     4921 ggccgaggcc gcctctgcct ctgagctatt ccagaagtag tgaggaggct tttttggagg
     4981 cctaggcttt tgcaaaaagc tcccgggagc ttgtatatcc attttcggat ctgatcaaga
     5041 gacaggatga ggatcgtttc gcatgattga acaagatgga ttgcacgcag gttctccggc
     5101 cgcttgggtg gagaggctat tcggctatga ctgggcacaa cagacaatcg gctgctctga
     5161 tgccgccgtg ttccggctgt cagcgcaggg gcgcccggtt ctttttgtca agaccgacct
     5221 gtccggtgcc ctgaatgaac tgcaggacga ggcagcgcgg ctatcgtggc tggccacgac
     5281 gggcgttcct tgcgcagctg tgctcgacgt tgtcactgaa gcgggaaggg actggctgct
     5341 attgggcgaa gtgccggggc aggatctcct gtcatctcac cttgctcctg ccgagaaagt
     5401 atccatcatg gctgatgcaa tgcggcggct gcatacgctt gatccggcta cctgcccatt
     5461 cgaccaccaa gcgaaacatc gcatcgagcg agcacgtact cggatggaag ccggtcttgt
     5521 cgatcaggat gatctggacg aagagcatca ggggctcgcg ccagccgaac tgttcgccag
     5581 gctcaaggcg cgcatgcccg acggcgagga tctcgtcgtg acccatggcg atgcctgctt
     5641 gccgaatatc atggtggaaa atggccgctt ttctggattc atcgactgtg gccggctggg
     5701 tgtggcggac cgctatcagg acatagcgtt ggctacccgt gatattgctg aagagcttgg
     5761 cggcgaatgg gctgaccgct tcctcgtgct ttacggtatc gccgctcccg attcgcagcg
     5821 catcgccttc tatcgccttc ttgacgagtt cttctgagcg ggactctggg gttcgcgaaa
     5881 tgaccgacca agcgacgccc aacctgccat cacgagattt cgattccacc gccgccttct
     5941 atgaaaggtt gggcttcgga atcgttttcc gggacgccgg ctggatgatc ctccagcgcg
     6001 gggatctcat gctggagttc ttcgcccacc ccaacttgtt tattgcagct tataatggtt
     6061 acaaataaag caatagcatc acaaatttca caaataaagc atttttttca ctgcattcta
     6121 gttgtggttt gtccaaactc atcaatgtat cttatcatgt ctgtataccg tcgacctcta
     6181 gctagagctt ggcgtaatca tggtcatagc tgtttcctgt gtgaaattgt tatccgctca
     6241 caattccaca caacatacga gccggaagca taaagtgtaa agcctggggt gcctaatgag
     6301 tgagctaact cacattaatt gcgttgcgct cactgcccgc tttccagtcg ggaaacctgt
     6361 cgtgccagct gcattaatga atcggccaac gcgcggggag aggcggtttg cgtattgggc
     6421 gctcttccgc ttcctcgctc actgactcgc tgcgctcggt cgttcggctg cggcgagcgg
     6481 tatcagctca ctcaaaggcg gtaatacggt tatccacaga atcaggggat aacgcaggaa
     6541 agaacatgtg agcaaaaggc cagcaaaagg ccaggaaccg taaaaaggcc gcgttgctgg
     6601 cgtttttcca taggctccgc ccccctgacg agcatcacaa aaatcgacgc tcaagtcaga
     6661 ggtggcgaaa cccgacagga ctataaagat accaggcgtt tccccctgga agctccctcg
     6721 tgcgctctcc tgttccgacc ctgccgctta ccggatacct gtccgccttt ctcccttcgg
     6781 gaagcgtggc gctttctcat agctcacgct gtaggtatct cagttcggtg taggtcgttc
     6841 gctccaagct gggctgtgtg cacgaacccc ccgttcagcc cgaccgctgc gccttatccg
     6901 gtaactatcg tcttgagtcc aacccggtaa gacacgactt atcgccactg gcagcagcca
     6961 ctggtaacag gattagcaga gcgaggtatg taggcggtgc tacagagttc ttgaagtggt
     7021 ggcctaacta cggctacact agaagaacag tatttggtat ctgcgctctg ctgaagccag
     7081 ttaccttcgg aaaaagagtt ggtagctctt gatccggcaa acaaaccacc gctggtagcg
     7141 gtggtttttt tgtttgcaag cagcagatta cgcgcagaaa aaaaggatct caagaagatc
     7201 ctttgatctt ttctacgggg tctgacgctc agtggaacga aaactcacgt taagggattt
     7261 tggtcatgag attatcaaaa aggatcttca cctagatcct tttaaattaa aaatgaagtt
     7321 ttaaatcaat ctaaagtata tatgagtaaa cttggtctga cagttaccaa tgcttaatca
     7381 gtgaggcacc tatctcagcg atctgtctat ttcgttcatc catagttgcc tgactccccg
     7441 tcgtgtagat aactacgata cgggagggct taccatctgg ccccagtgct gcaatgatac
     7501 cgcgagaccc acgctcaccg gctccagatt tatcagcaat aaaccagcca gccggaaggg
     7561 ccgagcgcag aagtggtcct gcaactttat ccgcctccat ccagtctatt aattgttgcc
     7621 gggaagctag agtaagtagt tcgccagtta atagtttgcg caacgttgtt gccattgcta
     7681 caggcatcgt ggtgtcacgc tcgtcgtttg gtatggcttc attcagctcc ggttcccaac
     7741 gatcaaggcg agttacatga tcccccatgt tgtgcaaaaa agcggttagc tccttcggtc
     7801 ctccgatcgt tgtcagaagt aagttggccg cagtgttatc actcatggtt atggcagcac
     7861 tgcataattc tcttactgtc atgccatccg taagatgctt ttctgtgact ggtgagtact
     7921 caaccaagtc attctgagaa tagtgtatgc ggcgaccgag ttgctcttgc ccggcgtcaa
     7981 tacgggataa taccgcgcca catagcagaa ctttaaaagt gctcatcatt ggaaaacgtt
     8041 cttcggggcg aaaactctca aggatcttac cgctgttgag atccagttcg atgtaaccca
     8101 ctcgtgcacc caactgatct tcagcatctt ttactttcac cagcgtttct gggtgagcaa
     8161 aaacaggaag gcaaaatgcc gcaaaaaagg gaataagggc gacacggaaa tgttgaatac
     8221 tcatactctt cctttttcaa tattattgaa gcatttatca gggttattgt ctcatgagcg
     8281 gatacatatt tgaatgtatt tagaaaaata aacaaatagg ggttccgcgc acatttcccc
     8341 gaaaagtgcc acctgacgtc gacggatcgg gagatctccc gatcccctat ggtgcactct
     8401 cagtacaatc tgctctgatg ccgcatagtt aagccagtat ctgctccctg cttgtgtgtt
     8461 ggaggtcgct g
//
