LOCUS       DRH031_pAAV_SIO_        5904 bp DNA     circular SYN 24-APR-2021
DEFINITION  synthetic circular DNA.
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 5904)
  AUTHORS   Jordane Dimidschstein
  TITLE     Direct Submission
  JOURNAL   Exported Jul 30, 2024 from SnapGene 7.2.1
            https://www.snapgene.com
COMMENT     150603_Minis_Clones 4 and 9 : sequencing is 100% ok
FEATURES             Location/Qualifiers
     source          1..5904
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     source          708..723
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     source          764..2185
                     /chromosome="3"
                     /map="3p24.2"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /organism="Homo sapiens"
     source          2144..2158
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     repeat_region   1..141
                     /label=AAV2 ITR
                     /note="inverted terminal repeat of adeno-associated virus 
                     serotype 2"
     promoter        156..701
                     /label=nEF promoter
     promoter        188..399
                     /label=EF-1-alpha core promoter
                     /note="core promoter for human elongation factorEF-1-alpha"
     primer_bind     complement(360..379)
                     /label=P053_nEFpromoter_through5primeITR_R
     LTR             412..680
                     /label=5' LTR (truncated)
                     /note="truncated 5' long terminal repeat (LTR) 
                     fromhumanT-cell leukemia virus (HTLV) type 1"
     primer_bind     531..552
                     /label=P052_nEFpromoter_F
     misc_feature    708..723
                     /label=Thrb_barcode
     protein_bind    724..757
                     /label=lox71
                     /bound_moiety="Cre recombinase"
                     /note="loxP mutant. Cre-mediated recombination occurs 
                     inthe8-bp core sequence (GCATACAT)."
     misc_feature    724..757
                     /label=LoxP-71_LE
     gene            complement(764..2185)
                     /gene="THRB"
                     /gene_synonym="C-ERBA-2; C-ERBA-BETA; 
                     ERBA2;GRTH;NR1A2;PRTH; THR1; THRB1; THRB2"
                     /label=thyroid hormone receptor beta
                     /label=THRB_mRNA
                     /db_xref="GeneID:7068"
                     /db_xref="HGNC:HGNC:11799"
                     /db_xref="MIM:190160"
     CDS             complement(764..2185)
                     /codon_start=1
                     /gene="THRB"
                     /gene_synonym="C-ERBA-2; C-ERBA-BETA; 
                     ERBA2;GRTH;NR1A2;PRTH; THR1; THRB1; THRB2"
                     /product="thyroid hormone receptor beta isoform a"
                     /label=THRB
                     /note="isoform a is encoded by transcript variant4;oncogene
                     ERBA2; thyroid hormone nuclear receptor beta variant 1; 
                     nuclear receptor subfamily 1 group A member 2; thyroid 
                     hormone receptor, beta (erythroblastic leukemia viral 
                     (v-erb-a) oncogene homolog 2, avian)"
                     /db_xref="CCDS:CCDS2641.1"
                     /db_xref="GeneID:7068"
                     /db_xref="HGNC:HGNC:11799"
                     /db_xref="MIM:190160"
                     /protein_id="NP_001239563.1"
                     /translation="MDLYDDDDKGGGGSTPNSMTENGLTAWDKPKHCPDREHDWKLVGM
                     SEACLHRKSHSERRSTLKNEQSSPHLIQTTWTSSIFHLDHDDVNDQSVSSAQTFQTEEK
                     KCKGYIPSYLDKDELCVVCGDKATGYHYRCITCEGCKGFFRRTIQKNLHPSYSCKYEGK
                     CVIDKVTRNQCQECRFKKCIYVGMATDLVLDDSKRLAKRKLIEENREKRRREELQKSIG
                     HKPEPTDEEWELIKTVTEAHVATNAQGSHWKQKRKFLPEDIGQAPIVNAPEGGKVDLEA
                     FSHFTKIITPAITRVVDFAKKLPMFCELPCEDQIILLKGCCMEIMSLRAAVRYDPESET
                     LTLNGEMAVTRGQLKNGGLGVVSDAIFDLGMSLSSFNLDDTEVALLQAVLLMSSDRPGL
                     ACVERIEKYQDSFLLAFEHYINYRKHHVTHFWPKLLMKVTDLRMIGACHASRFLHMKVE
                     CPTELFPPLFLEVFED"
     exon            764..1002
                     /gene="THRB"
                     /gene_synonym="C-ERBA-2; C-ERBA-BETA; 
                     ERBA2;GRTH;NR1A2;PRTH; THR1; THRB1; THRB2"
                     /inference="alignment:same species:2.1.0"
     primer_bind     785..804
                     /label=P042_Thrb_3_R
     primer_bind     785..804
                     /label=P042_Thrb_3_R
     primer_bind     complement(849..868)
                     /label=P043_Thrb_4_F
     primer_bind     complement(849..868)
                     /label=P043_Thrb_4_F
     exon            1003..1261
                     /gene="THRB"
                     /gene_synonym="C-ERBA-2; C-ERBA-BETA; 
                     ERBA2;GRTH;NR1A2;PRTH; THR1; THRB1; THRB2"
                     /inference="alignment:same species:2.1.0"
     misc_feature    1135..1137
                     /label=DN_deleted
     exon            1262..1408
                     /gene="THRB"
                     /gene_synonym="C-ERBA-2; C-ERBA-BETA; 
                     ERBA2;GRTH;NR1A2;PRTH; THR1; THRB1; THRB2"
                     /inference="alignment:same species:2.1.0"
     primer_bind     complement(1387..1407)
                     /label=P041_Thrb_2_F
     primer_bind     1387..1407
                     /label=P044_Thrb_5_R
     primer_bind     complement(1387..1407)
                     /label=P041_Thrb_2_F
     exon            1409..1614
                     /gene="THRB"
                     /gene_synonym="C-ERBA-2; C-ERBA-BETA; 
                     ERBA2;GRTH;NR1A2;PRTH; THR1; THRB1; THRB2"
                     /inference="alignment:same species:2.1.0"
     exon            1615..1762
                     /gene="THRB"
                     /gene_synonym="C-ERBA-2; C-ERBA-BETA; 
                     ERBA2;GRTH;NR1A2;PRTH; THR1; THRB1; THRB2"
                     /inference="alignment:same species:2.1.0"
     exon            1763..1863
                     /gene="THRB"
                     /gene_synonym="C-ERBA-2; C-ERBA-BETA; 
                     ERBA2;GRTH;NR1A2;PRTH; THR1; THRB1; THRB2"
                     /inference="alignment:same species:2.1.0"
     exon            1864..2124
                     /gene="THRB"
                     /gene_synonym="C-ERBA-2; C-ERBA-BETA; 
                     ERBA2;GRTH;NR1A2;PRTH; THR1; THRB1; THRB2"
                     /inference="alignment:same species:2.1.0"
     primer_bind     1933..1953
                     /label=P040_Thrb_1_R
     primer_bind     1933..1953
                     /label=P040_Thrb_1_R
     primer_bind     complement(2090..2109)
                     /label=P039_Thrb_0_F
     primer_bind     complement(2090..2109)
                     /label=P039_Thrb_0_F
     exon            2125..2185
                     /gene="THRB"
                     /gene_synonym="C-ERBA-2; C-ERBA-BETA; 
                     ERBA2;GRTH;NR1A2;PRTH; THR1; THRB1; THRB2"
                     /inference="alignment:same species:2.1.0"
     misc_feature    2144..2158
                     /label=spacer
     CDS             complement(2159..2182)
                     /codon_start=1
                     /label=Xpress tag
                     /translation="DLYDDDDK"
     misc_feature    2186..2191
                     /label=kozak
     misc_feature    complement(2192..2225)
                     /label=LoxP-KR3_RE
     misc_feature    2250..2838
                     /label=WPRE
                     /note="woodchuck hepatitis 
                     virusposttranscriptionalregulatory element"
     primer_bind     complement(2323..2342)
                     /label=P024_WPRE3_R
     primer_bind     complement(2323..2342)
                     /label=P024_WPRE3_R
     primer_bind     2615..2633
                     /label=P019_WPRE3_through3primeITR_F
     primer_bind     2615..2633
                     /label=P019_WPRE3_through3primeITR_F
     CDS             complement(2721..2732)
                     /codon_start=1
                     /product="Factor Xa recognition and cleavage site"
                     /label=Factor Xa site
                     /translation="IEGR"
     misc_feature    2863..2878
                     /label=Thrb_barcode
     primer_bind     2938..2959
                     /label=P050_SV40pA_through3primeITR_F
     polyA_signal    3007..3088
                     /label=SV40 polyadenylation signal
                     /label=SV40 poly(A) signal
     repeat_region   3167..3307
                     /label=AAV2 ITR
                     /note="inverted terminal repeat of adeno-associated virus 
                     serotype 2"
     rep_origin      3382..3837
                     /direction=RIGHT
                     /label=F1 Origin
                     /note="f1 bacteriophage origin of 
                     replication;arrowindicates direction of (+) strand 
                     synthesis"
     primer_bind     complement(3469..3488)
                     /label=P015_AAV_F1Ori_through3primeITR_R
     primer_bind     complement(3469..3488)
                     /label=P015_AAV_F1Ori_through3primeITR_R
     primer_bind     3471..3490
                     /label=P031_scAAV_F1Ori_F
     primer_bind     3471..3490
                     /label=P031_scAAV_F1Ori_F
     primer_bind     complement(3579..3599)
                     /label=P057_AAV_F1Ori_through3primeITR_2_R
     primer_bind     3599..3618
                     /label=P008_scAAV_F1Ori_2
     primer_bind     3599..3618
                     /label=P008_scAAV_F1Ori_2
     primer_bind     4027..4046
                     /label=P010_scAAV_AmpR2
     primer_bind     4027..4046
                     /label=P010_scAAV_AmpR2
     primer_bind     4079..4098
                     /label=P028_scAAV_AmpR_2_v2
     primer_bind     4079..4098
                     /label=P028_scAAV_AmpR_2_v2
     promoter        4119..4223
                     /gene="bla"
                     /label=bla promoter
                     /label=AmpR promoter
     CDS             4224..5084
                     /codon_start=1
                     /gene="bla"
                     /product="beta-lactamase"
                     /label=bla
                     /label=AmpR
                     /note="confers resistance to ampicillin, carbenicillin, and
                     related antibiotics"
                     /translation="MSIQHFRVALIPFFAAFCLPVFAHPETLVKVKDAEDQLGARVGYI
                     ELDLNSGKILESFRPEERFPMMSTFKVLLCGAVLSRIDAGQEQLGRRIHYSQNDLVEYS
                     PVTEKHLTDGMTVRELCSAAITMSDNTAANLLLTTIGGPKELTAFLHNMGDHVTRLDRW
                     EPELNEAIPNDERDTTMPVAMATTLRKLLTGELLTLASRQQLIDWMEADKVAGPLLRSA
                     LPAGWFIADKSGAGERGSRGIIAALGPDGKPSRIVVIYTTGSQATMDERNRQIAEIGAS
                     LIKHW"
     primer_bind     4458..4478
                     /label=P011_scAAV_AmpR3
     primer_bind     4458..4478
                     /label=P011_scAAV_AmpR3
     primer_bind     4895..4914
                     /label=P029_scAAV_AmpR_3_v2
     primer_bind     4895..4914
                     /label=P029_scAAV_AmpR_3_v2
     primer_bind     5014..5035
                     /label=P012_scAAV_puc1
     primer_bind     5014..5035
                     /label=P012_scAAV_puc1
     rep_origin      5255..5843
                     /direction=RIGHT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     5471..5490
                     /label=P030_scAAV_puc_v2
     primer_bind     5471..5490
                     /label=P030_scAAV_puc_v2
     primer_bind     5496..5515
                     /label=P013_scAAV_puc2
     primer_bind     5496..5515
                     /label=P013_scAAV_puc2
     primer_bind     5622..5641
                     /label=P016_AAV_puc3_through5primeITR_F
     primer_bind     5622..5641
                     /label=P016_AAV_puc3_through5primeITR_F
     primer_bind     5861..5880
                     /label=Seq_AAV_hDlx_F1
ORIGIN
        1 cctgcaggca gctgcgcgct cgctcgctca ctgaggccgc ccgggcaaag cccgggcgtc
       61 gggcgacctt tggtcgcccg gcctcagtga gcgagcgagc gcgcagagag ggagtggcca
      121 actccatcac taggggttcc tgcggccgca cgcgtaagga tctgcgatcg ctccggtgcc
      181 cgtcagtggg cagagcgcac atcgcccaca gtccccgaga agttgggggg aggggtcggc
      241 aattgaacgg gtgcctagag aaggtggcgc ggggtaaact gggaaagtga tgtcgtgtac
      301 tggctccgcc tttttcccga gggtggggga gaaccgtata taagtgcagt agtcgccgtg
      361 aacgttcttt ttcgcaacgg gtttgccgcc agaacacagc tgaagcttcg aggggctcgc
      421 atctctcctt cacgcgcccg ccgccctacc tgaggccgcc atccacgccg gttgagtcgc
      481 gttctgccgc ctcccgcctg tggtgcctcc tgaactgcgt ccgccgtcta ggtaagttta
      541 aagctcaggt cgagaccggg cctttgtccg gcgctccctt ggagcctacc tagactcagc
      601 cggctctcca cgctttgcct gaccctgctt gctcaactct acgtctttgt ttcgttttct
      661 gttctgcgcc gttacagatc caagctgtga ccggcgccta cggatccgat ctgtgatagc
      721 ggctaccgtt cgtatagcat acattatacg aagttattta ctaatcctcg aacacttcca
      781 agaacaaagg ggggaagagt tctgtggggc attccacctt catgtgcagg aagcggctgg
      841 catggcaggc tcctatcatc cgcagatctg tcaccttcat caggagtttt ggccaaaagt
      901 gtgtcacgtg gtgttttcgg taattgatat agtgttcaaa ggccagcagg aaactatctt
      961 ggtacttttc tattctctca acacaggcaa gccccgggcg atctgaagac atcagcagga
     1021 cggcctgaag gagggctact tcagtgtcat ccaggttgaa agaagacaga gacatgccca
     1081 ggtcaaagat ggcgtctgac accaccccaa gacccccatt tttcagctgg ccccgtgtca
     1141 ctgccatttc cccattcaag gttaaagtct cactttctgg gtcatagcgc acagcagcgc
     1201 gaagggacat gatctccatg cagcagcctt tgaggaggat gatctggtct tcacatggca
     1261 gctcacaaaa cataggcaac tttttggcaa aatccaccac tctggtaatt gctggtgtga
     1321 tgatttttgt aaaatggctg aaggcttcca agtcaacctt tccaccttct ggggcattga
     1381 ctattggtgc ttgtccaatg tcttctggca ggaatttccg tttttgcttc cagtggctgc
     1441 cttgggcgtt ggtcgccaca tgggcttcgg tgacagtttt gatgagctcc cattcctcgt
     1501 ctgtgggctc tggcttgtgc ccgatggact tctgcagctc ttcccgccgt cttttctccc
     1561 ggttctcctc tatcagcttc ctcttggcca gcctcttgct gtcatccagc accaaatctg
     1621 ttgccatgcc aacatagatg catttcttaa agcgacattc ctggcactga tttcgcgtga
     1681 ctttgtctat gacacatttt ccttcatatt tacaggaata ggatggatgg agatttttct
     1741 gaatggttct tctaaagaaa cccttgcagc cttcacacgt gatacagcgg tagtgatacc
     1801 cggtggcttt gtcaccacac actacacaga gctcgtcctt gtctaagtaa ctggggatgt
     1861 accctttaca tttcttctcc tccgtttgga aggtctgggc acttgagaca ctctggtcgt
     1921 tcacatcatc atggtccaga tggaatattg agctagtcca agtggtctgg atgagatgtg
     1981 gcgacgactg ttcatttttc aacgtgctgc gcctctctga atggctcttc ctatgtaggc
     2041 aggcttcaga cattcctact agcttccagt cgtgttctcg gtctggacag tgcttcggtt
     2101 tgtcccaggc tgtaaggcca ttttctgtca tactgttggg agtacttccg cctccaccct
     2161 tatcgtcatc gtcgtacaga tccatggtgg cataacaagg tataatgtat gctatacgaa
     2221 gttatgaatt cgatatcaag cttatcgata atcaacctct ggattacaaa atttgtgaaa
     2281 gattgactgg tattcttaac tatgttgctc cttttacgct atgtggatac gctgctttaa
     2341 tgcctttgta tcatgctatt gcttcccgta tggctttcat tttctcctcc ttgtataaat
     2401 cctggttgct gtctctttat gaggagttgt ggcccgttgt caggcaacgt ggcgtggtgt
     2461 gcactgtgtt tgctgacgca acccccactg gttggggcat tgccaccacc tgtcagctcc
     2521 tttccgggac tttcgctttc cccctcccta ttgccacggc ggaactcatc gccgcctgcc
     2581 ttgcccgctg ctggacaggg gctcggctgt tgggcactga caattccgtg gtgttgtcgg
     2641 ggaaatcatc gtcctttcct tggctgctcg cctatgttgc cacctggatt ctgcgcggga
     2701 cgtccttctg ctacgtccct tcggccctca atccagcgga ccttccttcc cgcggcctgc
     2761 tgccggctct gcggcctctt ccgcgtcttc gccttcgccc tcagacgagt cggatctccc
     2821 tttgggccgc ctccccgcat cgataccgag cgctgctcga gagatctgtg atagcggcca
     2881 tcaagctggc cgcgactcta gatcataatc agccatacca catttgtaga ggttttactt
     2941 gctttaaaaa acctcccaca cctccccctg aacctgaaac ataaaatgaa tgcaattgtt
     3001 gttgttaact tgtttattgc agcttataat ggttacaaat aaagcaatag catcacaaat
     3061 ttcacaaata aagcattttt ttcactgcat tctagttgtg gtttgtccaa actcatcaat
     3121 gtatcagctt atcgataccg catgcacgtg cggaccgagc ggccgcagga acccctagtg
     3181 atggagttgg ccactccctc tctgcgcgct cgctcgctca ctgaggccgg gcgaccaaag
     3241 gtcgcccgac gcccgggctt tgcccgggcg gcctcagtga gcgagcgagc gcgcagctgc
     3301 ctgcaggggc gcctgatgcg gtattttctc cttacgcatc tgtgcggtat ttcacaccgc
     3361 atacgtcaaa gcaaccatag tacgcgccct gtagcggcgc attaagcgcg gcgggtgtgg
     3421 tggttacgcg cagcgtgacc gctacacttg ccagcgccct agcgcccgct cctttcgctt
     3481 tcttcccttc ctttctcgcc acgttcgccg gctttccccg tcaagctcta aatcgggggc
     3541 tccctttagg gttccgattt agtgctttac ggcacctcga ccccaaaaaa cttgatttgg
     3601 gtgatggttc acgtagtggg ccatcgccct gatagacggt ttttcgccct ttgacgttgg
     3661 agtccacgtt ctttaatagt ggactcttgt tccaaactgg aacaacactc aaccctatct
     3721 cgggctattc ttttgattta taagggattt tgccgatttc ggcctattgg ttaaaaaatg
     3781 agctgattta acaaaaattt aacgcgaatt ttaacaaaat attaacgttt acaattttat
     3841 ggtgcactct cagtacaatc tgctctgatg ccgcatagtt aagccagccc cgacacccgc
     3901 caacacccgc tgacgcgccc tgacgggctt gtctgctccc ggcatccgct tacagacaag
     3961 ctgtgaccgt ctccgggagc tgcatgtgtc agaggttttc accgtcatca ccgaaacgcg
     4021 cgagacgaaa gggcctcgtg atacgcctat ttttataggt taatgtcatg ataataatgg
     4081 tttcttagac gtcaggtggc acttttcggg gaaatgtgcg cggaacccct atttgtttat
     4141 ttttctaaat acattcaaat atgtatccgc tcatgagaca ataaccctga taaatgcttc
     4201 aataatattg aaaaaggaag agtatgagta ttcaacattt ccgtgtcgcc cttattccct
     4261 tttttgcggc attttgcctt cctgtttttg ctcacccaga aacgctggtg aaagtaaaag
     4321 atgctgaaga tcagttgggt gcacgagtgg gttacatcga actggatctc aacagcggta
     4381 agatccttga gagttttcgc cccgaagaac gttttccaat gatgagcact tttaaagttc
     4441 tgctatgtgg cgcggtatta tcccgtattg acgccgggca agagcaactc ggtcgccgca
     4501 tacactattc tcagaatgac ttggttgagt actcaccagt cacagaaaag catcttacgg
     4561 atggcatgac agtaagagaa ttatgcagtg ctgccataac catgagtgat aacactgcgg
     4621 ccaacttact tctgacaacg atcggaggac cgaaggagct aaccgctttt ttgcacaaca
     4681 tgggggatca tgtaactcgc cttgatcgtt gggaaccgga gctgaatgaa gccataccaa
     4741 acgacgagcg tgacaccacg atgcctgtag caatggcaac aacgttgcgc aaactattaa
     4801 ctggcgaact acttactcta gcttcccggc aacaattaat agactggatg gaggcggata
     4861 aagttgcagg accacttctg cgctcggccc ttccggctgg ctggtttatt gctgataaat
     4921 ctggagccgg tgagcgtggg tctcgcggta tcattgcagc actggggcca gatggtaagc
     4981 cctcccgtat cgtagttatc tacacgacgg ggagtcaggc aactatggat gaacgaaata
     5041 gacagatcgc tgagataggt gcctcactga ttaagcattg gtaactgtca gaccaagttt
     5101 actcatatat actttagatt gatttaaaac ttcattttta atttaaaagg atctaggtga
     5161 agatcctttt tgataatctc atgaccaaaa tcccttaacg tgagttttcg ttccactgag
     5221 cgtcagaccc cgtagaaaag atcaaaggat cttcttgaga tccttttttt ctgcgcgtaa
     5281 tctgctgctt gcaaacaaaa aaaccaccgc taccagcggt ggtttgtttg ccggatcaag
     5341 agctaccaac tctttttccg aaggtaactg gcttcagcag agcgcagata ccaaatactg
     5401 tccttctagt gtagccgtag ttaggccacc acttcaagaa ctctgtagca ccgcctacat
     5461 acctcgctct gctaatcctg ttaccagtgg ctgctgccag tggcgataag tcgtgtctta
     5521 ccgggttgga ctcaagacga tagttaccgg ataaggcgca gcggtcgggc tgaacggggg
     5581 gttcgtgcac acagcccagc ttggagcgaa cgacctacac cgaactgaga tacctacagc
     5641 gtgagctatg agaaagcgcc acgcttcccg aagggagaaa ggcggacagg tatccggtaa
     5701 gcggcagggt cggaacagga gagcgcacga gggagcttcc agggggaaac gcctggtatc
     5761 tttatagtcc tgtcgggttt cgccacctct gacttgagcg tcgatttttg tgatgctcgt
     5821 caggggggcg gagcctatgg aaaaacgcca gcaacgcggc ctttttacgg ttcctggcct
     5881 tttgctggcc ttttgctcac atgt
//
