pAAV-NFkB-mScarlet3-iPAK4

LOCUS       pAAV-NFkB-mScarlet3-iPAK4               6146 bp DNA     circular SYN 23-APR-2024
DEFINITION  Express FlicR1 preferentially in neurons.
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 6146)
  AUTHORS   Abdelfattah AS, Farhi SL, Zhao Y, Brinks D, Zou P, Ruangkittisakul 
            A, Platisa J, Pieribone VA, Ballanyi K, Cohen AE, Campbell RE
  TITLE     A Bright and Fast Red Fluorescent Protein Voltage Indicator That 
            Reports Neuronal Activity in Organotypic Brain Slices.
  JOURNAL   J Neurosci. 2016 Feb 24;36(8):2458-72. doi: 
            10.1523/JNEUROSCI.3484-15.2016.
  PUBMED    26911693
REFERENCE   2  (bases 1 to 6146)
  AUTHORS   .
  TITLE     Direct Submission
  JOURNAL   Exported Jul 16, 2026 from SnapGene 6.0.2
            https://www.biofeng.com
COMMENT     SGRef: number: 1; type: "Journal Article"; doi: 
            "10.1523/JNEUROSCI.3484-15"; journalName: "J Neurosci"; date: 
            "2016-02-24- 24"; volume: "36"; issue: "8"; pages: "2458-72"
FEATURES             Location/Qualifiers
     source          1..6146
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     source          1567..2643
                     /mol_type="genomic DNA"
                     /organism="."
     protein_bind    229..250
                     /label=CAP binding site
                     /bound_moiety="E. coli catabolite activator protein"
                     /note="CAP binding activates transcription in the presence 
                     of cAMP."
     promoter        265..295
                     /label=lac promoter
                     /note="promoter for the E. coli lac operon"
     protein_bind    303..319
                     /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)."
     primer_bind     308..330
                     /label=M13/pUC Reverse
                     /note="In lacZ gene"
     primer_bind     327..343
                     /label=M13 rev
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     primer_bind     327..343
                     /label=M13 Reverse
                     /note="In lacZ gene. Also called M13-rev"
     repeat_region   381..510
                     /label=AAV2 ITR
     primer_bind     549..607
                     /label=NFKB-F
     misc_feature    571..724
                     /label=Transcription blocker
                     /label=Transcription\blocker
     polyA_signal    571..619
                     /note="synthetic polyadenylation signal"
     misc_feature    633..724
                     /label=pause site
                     /note="RNA polymerase II transcriptional pause signal from 
                     the human alpha-2 globin gene"
     misc_feature    758..767
                     /label=nfkb motif
     misc_feature    768..777
                     /label=nfkb motif
     misc_feature    778..787
                     /label=nfkb motif
     misc_feature    788..797
                     /label=nfkb motif
     promoter        810..841
                     /label=minP
                     /note="minimal TATA-box promoter with low basal activity"
     misc_feature    811..841
                     /label=Minimal promoter
     misc_feature    817..823
                     /label=TATATAA
     primer_bind     859..896
                     /label=NFKB4-mScarlet3-F
                     /note="for mScarlet3/I3 cloning"
     regulatory      874..883
                     /label=Kozak sequence
                     /note="vertebrate consensus sequence for strong initiation 
                     of translation (Kozak, 1987)"
                     /regulatory_class="other"
     CDS             880..1566
                     /codon_start=1
                     /label=mScarlet3
                     /translation="MDSTEAVIKEFMRFKVHMEGSMNGHEFEIEGEGEGRPYEGTQTAK
                     LRVTKGGPLPFSWDILSPQFMYGSRAFTKHPADIPDYWKQSFPEGFKWERVMNFEDGGA
                     VSVAQDTSLEDGTLIYKVKLRGTNFPPDGPVMQKKTMGWEASTERLYPEDVVLKGDIKM
                     ALRLKDGGRYLADFKTTYRAKKPVQMPGAFNIDRKLDITSHNEDYTVVEQYERSVARHS
                     TGGSGGS"
     primer_bind     1278..1297
                     /label=mCherry-F
                     /note="mCherry, forward primer"
     primer_bind     complement(1546..1595)
                     /label=iBox-mScarlet3-R
     CDS             1579..1692
                     /codon_start=1
                     /label=INKA-box
                     /translation="EAEDWTAALLNRGRSRQPLVLGDNCFADLVHNWMELPE"
     CDS             1699..2640
                     /codon_start=1
                     /label=Pak4cat
                     /translation="PAAPAVPGPPGPRSPQREPQRVSHEQFRAALQLVVDPGDPRSYLD
                     NFIKIGEGSTGIVCIATVRSSGKLVAVKKMDLRKQQRRELLFNEVVIMRDYQHENVVEM
                     YNSYLVGDELWVVMEFLEGGALTDIVTHTRMNEEQIAAVCLAVLQALSVLHAQGVIHRD
                     IKSDSILLTHDGRVKLSDFGFCAQVSKEVPRRKSLVGTPYWMAPELISRLPYGPEVDIW
                     SLGIMVIEMVDGEPPYFNEPPLKAMKMIRDNLPPRLKNLHKVSPSLKGFLDRLLVRDPA
                     QRATAAELLKHPFLAKAGPPASIVPLMRQNRTR"
     primer_bind     complement(1792..1810)
                     /label=PAK4-R
     primer_bind     complement(2623..2665)
                     /label=HindIII-PAK4-R
     misc_feature    2656..3244
                     /label=WPRE
                     /note="woodchuck hepatitis virus posttranscriptional 
                     regulatory element"
     primer_bind     complement(2709..2729)
                     /label=WPRE-R
                     /note="WPRE, reverse primer"
     CDS             complement(3127..3138)
                     /codon_start=1
                     /product="Factor Xa recognition and cleavage site"
                     /label=Factor Xa site
                     /translation="IEGR"
     primer_bind     complement(3247..3263)
                     /label=KS primer
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     primer_bind     complement(3248..3264)
                     /label=pBluescriptKS
                     /note="For pBluescript vector"
     polyA_signal    3293..3414
                     /label=SV40 poly(A) signal
                     /note="SV40 polyadenylation signal"
     primer_bind     complement(3304..3323)
                     /label=EBV-rev
                     /note="SV40 polyA terminator, reverse primer"
     primer_bind     3358..3377
                     /label=SV40pA-R
                     /note="SV40 polyA, reverse primer"
     primer_bind     complement(3396..3414)
                     /label=SV40-polyA
     primer_bind     complement(3517..3537)
                     /label=NFKB-F
     repeat_region   3576..3705
                     /label=AAV2 ITR
     primer_bind     complement(3724..3741)
                     /label=M13 Forward
                     /note="In lacZ gene. Also called M13-F20 or M13 (-21) 
                     Forward"
     primer_bind     complement(3724..3740)
                     /label=M13 fwd
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     primer_bind     complement(3733..3755)
                     /label=M13/pUC Forward
                     /note="In lacZ gene"
     rep_origin      3882..4337
                     /direction=RIGHT
                     /label=f1 ori
                     /note="f1 bacteriophage origin of replication; arrow 
                     indicates direction of (+) strand synthesis"
     primer_bind     complement(3969..3988)
                     /label=F1ori-R
                     /note="F1 origin, reverse primer"
     primer_bind     4179..4200
                     /label=F1ori-F
                     /note="F1 origin, forward primer"
     promoter        4363..4467
                     /gene="bla"
                     /label=AmpR promoter
     CDS             4468..5328
                     /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(4686..4705)
                     /label=Amp-R
                     /note="Ampicillin resistance gene, reverse primer"
     rep_origin      5499..6087
                     /direction=RIGHT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     5988..6007
                     /label=pBR322ori-F
                     /note="pBR322 origin, forward primer"
ORIGIN
        1 gttctttcct gcgttatccc ctgattctgt ggataaccgt attaccgcct ttgagtgagc
       61 tgataccgct cgccgcagcc gaacgaccga gcgcagcgag tcagtgagcg aggaagcgga
      121 agagcgccca atacgcaaac cgcctctccc cgcgcgttgg ccgattcatt aatgcagctg
      181 gcacgacagg tttcccgact ggaaagcggg cagtgagcgc aacgcaatta atgtgagtta
      241 gctcactcat taggcacccc aggctttaca ctttatgctt ccggctcgta tgttgtgtgg
      301 aattgtgagc ggataacaat ttcacacagg aaacagctat gaccatgatt acgccagatt
      361 taattaaggc cttaattagg ctgcgcgctc gctcgctcac tgaggccgcc cgggcaaagc
      421 ccgggcgtcg ggcgaccttt ggtcgcccgg cctcagtgag cgagcgagcg cgcagagagg
      481 gagtggccaa ctccatcact aggggttcct tgtagttaat gattaacccg ccatgctact
      541 tatctacgta gccatgctct aggaagatct aataaaatat ctttattttc attacatctg
      601 tgtgttggtt ttttgtgtga atcgatagta ctaacatacg ctctccatca aaacaaaacg
      661 aaacaaaaca aactagcaaa ataggctgtc cccagtgcaa gtgcaggtgc cagaacattt
      721 ctctatcgat aggtaccgag ctcttacgcg tgctagcggg aatttccggg aatttccggg
      781 aatttccggg aatttccaga tctagactct agagggtata taatggaagc tcgaattcca
      841 gcttggcatt ccggtactgt tggtaaaaag cttgccacca tggatagcac cgaggcagtg
      901 atcaaggagt tcatgcggtt caaggtgcac atggagggct ccatgaacgg ccacgagttc
      961 gagatcgagg gcgagggcga gggccgcccc tacgagggca cccagaccgc caagctgagg
     1021 gtgaccaagg gtggccccct gcccttctcc tgggacatcc tgtcccctca gttcatgtac
     1081 ggctccaggg ccttcacgaa gcaccccgcc gacatccccg actactggaa gcagtccttc
     1141 cccgagggct tcaagtggga gcgcgtgatg aacttcgagg acggcggcgc cgtgtccgtg
     1201 gcccaggaca cctccctgga ggacggcacc ctgatctaca aggtgaagct ccgcggcacc
     1261 aacttccctc ctgacggccc cgtaatgcag aagaagacaa tgggctggga agcatccacc
     1321 gagcggttgt accccgagga cgtcgtgctg aagggcgaca ttaagatggc cctgcgcctg
     1381 aaggacggcg gccgctacct ggcggacttc aagaccacct acagggccaa gaagcccgtg
     1441 cagatgcccg gcgccttcaa catcgaccgc aagttggaca tcacatccca caacgaggac
     1501 tacaccgtgg tggaacagta cgaacgctcc gtggcccgcc actccaccgg cggctccggt
     1561 ggctcctcag gtggatccga agcagaggac tggacagcag ccctactgaa caggggtcgc
     1621 agtcgccagc ccctggtact aggggacaat tgctttgctg acttggtgca caactggatg
     1681 gagctgcctg aggaattccc cgccgcccct gctgttcctg ggccccctgg cccccgctca
     1741 ccacagcggg agccacagcg agtatcccat gagcagttcc gggctgccct gcagctggtg
     1801 gtggacccag gcgacccccg ctcctacctg gacaacttca tcaagattgg cgagggctcc
     1861 acgggcatcg tgtgcatcgc caccgtgcgc agctcgggca agctggtggc cgtcaagaag
     1921 atggacctgc gcaagcagca gaggcgcgag ctgctcttca acgaggtggt aatcatgagg
     1981 gactaccagc acgagaatgt ggtggagatg tacaacagct acctggtggg ggacgagctc
     2041 tgggtggtca tggagttcct ggaaggaggc gccctcaccg acatcgtcac ccacaccagg
     2101 atgaacgagg agcagatcgc agccgtgtgc cttgcagtgc tgcaggccct gtcggtgctc
     2161 cacgcccagg gcgtcatcca ccgggacatc aagagcgact cgatcctgct gacccatgat
     2221 ggcagggtga agctgtcaga ctttgggttc tgcgcccagg tgagcaagga agtgccccga
     2281 aggaagtcgc tggtcggcac gccctactgg atggccccag agctcatctc ccgccttccc
     2341 tacgggccag aggtagacat ctggtcgctg gggataatgg tgattgagat ggtggacgga
     2401 gagcccccct acttcaacga gccacccctc aaagccatga agatgattcg ggacaacctg
     2461 ccaccccgac tgaagaacct gcacaaggtg tcgccatccc tgaagggctt cctggaccgc
     2521 ctgctggtgc gagaccctgc ccagcgggcc acggcagccg agctgctgaa gcacccattc
     2581 ctggccaagg cagggccgcc tgccagcatc gtgcccctca tgcgccagaa ccgcaccaga
     2641 tgaaagctta tcgataatca acctctggat tacaaaattt gtgaaagatt gactggtatt
     2701 cttaactatg ttgctccttt tacgctatgt ggatacgctg ctttaatgcc tttgtatcat
     2761 gctattgctt cccgtatggc tttcattttc tcctccttgt ataaatcctg gttgctgtct
     2821 ctttatgagg agttgtggcc cgttgtcagg caacgtggcg tggtgtgcac tgtgtttgct
     2881 gacgcaaccc ccactggttg gggcattgcc accacctgtc agctcctttc cgggactttc
     2941 gctttccccc tccctattgc cacggcggaa ctcatcgccg cctgccttgc ccgctgctgg
     3001 acaggggctc ggctgttggg cactgacaat tccgtggtgt tgtcggggaa atcatcgtcc
     3061 tttccttggc tgctcgcctg tgttgccacc tggattctgc gcgggacgtc cttctgctac
     3121 gtcccttcgg ccctcaatcc agcggacctt ccttcccgcg gcctgctgcc ggctctgcgg
     3181 cctcttccgc gtcttcgcct tcgccctcag acgagtcgga tctccctttg ggccgcctcc
     3241 ccgcatcgat accgtcgacc tcgacccggg cggccgcttc gagcagacat gataagatac
     3301 attgatgagt ttggacaaac cacaactaga atgcagtgaa aaaaatgctt tatttgtgaa
     3361 atttgtgatg ctattgcttt atttgtaacc attataagct gcaataaaca agttaacaac
     3421 aacaattgca ttcattttat gtttcaggtt cagggggaga tgtgggaggt tttttaaagc
     3481 aagtaaaacc tctacaaatg tggtaaaatc gataaggatc ttcctagagc atggctacgt
     3541 agataagtag catggcgggt taatcattaa ctacaaggaa cccctagtga tggagttggc
     3601 cactccctct ctgcgcgctc gctcgctcac tgaggccggg cgaccaaagg tcgcccgacg
     3661 cccgggcttt gcccgggcgg cctcagtgag cgagcgagcg cgcagcctta attaacctaa
     3721 ttcactggcc gtcgttttac aacgtcgtga ctgggaaaac cctggcgtta cccaacttaa
     3781 tcgccttgca gcacatcccc ctttcgccag ctggcgtaat agcgaagagg cccgcaccga
     3841 tcgcccttcc caacagttgc gcagcctgaa tggcgaatgg gacgcgccct gtagcggcgc
     3901 attaagcgcg gcgggtgtgg tggttacgcg cagcgtgacc gctacacttg ccagcgccct
     3961 agcgcccgct cctttcgctt tcttcccttc ctttctcgcc acgttcgccg gctttccccg
     4021 tcaagctcta aatcgggggc tccctttagg gttccgattt agtgctttac ggcacctcga
     4081 ccccaaaaaa cttgattagg gtgatggttc acgtagtggg ccatcgccct gatagacggt
     4141 ttttcgccct ttgacgttgg agtccacgtt ctttaatagt ggactcttgt tccaaactgg
     4201 aacaacactc aaccctatct cggtctattc ttttgattta taagggattt tgccgatttc
     4261 ggcctattgg ttaaaaaatg agctgattta acaaaaattt aacgcgaatt ttaacaaaat
     4321 attaacgctt acaatttagg tggcactttt cggggaaatg tgcgcggaac ccctatttgt
     4381 ttatttttct aaatacattc aaatatgtat ccgctcatga gacaataacc ctgataaatg
     4441 cttcaataat attgaaaaag gaagagtatg agtattcaac atttccgtgt cgcccttatt
     4501 cccttttttg cggcattttg ccttcctgtt tttgctcacc cagaaacgct ggtgaaagta
     4561 aaagatgctg aagatcagtt gggtgcacga gtgggttaca tcgaactgga tctcaacagc
     4621 ggtaagatcc ttgagagttt tcgccccgaa gaacgttttc caatgatgag cacttttaaa
     4681 gttctgctat gtggcgcggt attatcccgt attgacgccg ggcaagagca actcggtcgc
     4741 cgcatacact attctcagaa tgacttggtt gagtactcac cagtcacaga aaagcatctt
     4801 acggatggca tgacagtaag agaattatgc agtgctgcca taaccatgag tgataacact
     4861 gcggccaact tacttctgac aacgatcgga ggaccgaagg agctaaccgc ttttttgcac
     4921 aacatggggg atcatgtaac tcgccttgat cgttgggaac cggagctgaa tgaagccata
     4981 ccaaacgacg agcgtgacac cacgatgcct gtagcaatgg caacaacgtt gcgcaaacta
     5041 ttaactggcg aactacttac tctagcttcc cggcaacaat taatagactg gatggaggcg
     5101 gataaagttg caggaccact tctgcgctcg gcccttccgg ctggctggtt tattgctgat
     5161 aaatctggag ccggtgagcg tgggtctcgc ggtatcattg cagcactggg gccagatggt
     5221 aagccctccc gtatcgtagt tatctacacg acggggagtc aggcaactat ggatgaacga
     5281 aatagacaga tcgctgagat aggtgcctca ctgattaagc attggtaact gtcagaccaa
     5341 gtttactcat atatacttta gattgattta aaacttcatt tttaatttaa aaggatctag
     5401 gtgaagatcc tttttgataa tctcatgacc aaaatccctt aacgtgagtt ttcgttccac
     5461 tgagcgtcag accccgtaga aaagatcaaa ggatcttctt gagatccttt ttttctgcgc
     5521 gtaatctgct gcttgcaaac aaaaaaacca ccgctaccag cggtggtttg tttgccggat
     5581 caagagctac caactctttt tccgaaggta actggcttca gcagagcgca gataccaaat
     5641 actgttcttc tagtgtagcc gtagttaggc caccacttca agaactctgt agcaccgcct
     5701 acatacctcg ctctgctaat cctgttacca gtggctgctg ccagtggcga taagtcgtgt
     5761 cttaccgggt tggactcaag acgatagtta ccggataagg cgcagcggtc gggctgaacg
     5821 gggggttcgt gcacacagcc cagcttggag cgaacgacct acaccgaact gagataccta
     5881 cagcgtgagc tatgagaaag cgccacgctt cccgaaggga gaaaggcgga caggtatccg
     5941 gtaagcggca gggtcggaac aggagagcgc acgagggagc ttccaggggg aaacgcctgg
     6001 tatctttata gtcctgtcgg gtttcgccac ctctgacttg agcgtcgatt tttgtgatgc
     6061 tcgtcagggg ggcggagcct atggaaaaac gccagcaacg cggccttttt acggttcctg
     6121 gccttttgct ggccttttgc tcacat
//