LOCUS       sequence-180208-        7973 bp    DNA     linear   UNA 15-DEC-2025
DEFINITION  Expression of SLNCR1 lncRNA tagged with 12 copies of the MS2 
            stem-loop sequence.
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      natural DNA sequence
  ORGANISM  unspecified
REFERENCE   1  (bases 1 to 7973)
  AUTHORS   Schmidt K, Joyce CE, Buquicchio F, Brown A, Ritz J, Distel RJ, Yoon 
            CH, Novina CD
  TITLE     The lncRNA SLNCR1 Mediates Melanoma Invasion through a Conserved 
            SRA1-like Region.
  JOURNAL   Cell Rep. 2016 May 31;15(9):2025-37. doi: 
            10.1016/j.celrep.2016.04.018. Epub 2016 May 19.
  PUBMED    27210747
REFERENCE   2  (bases 1 to 7973)
  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: 
            "10.1016/j.celrep.2016.04.018"; journalName: "Cell Rep"; date: 
            "2016-05-31- 31"; volume: "15"; issue: "9"; pages: "2025-37"
COMMENT     Sequence Label: pCDNA3.1 (-) + SLNCR1 + 12x MS2 bs
FEATURES             Location/Qualifiers
     source          1..7973
                     /mol_type="genomic DNA"
                     /organism="unspecified"
     misc_RNA        15..33
                     /label=MS2 stem loop
                     /note="stem loop that binds the bacteriophage MS2 coat 
                     protein"
     promoter        complement(122..140)
                     /label=SP6 promoter
                     /note="promoter for bacteriophage SP6 RNA polymerase"
     primer_bind     complement(123..140)
                     /label=SP6
                     /note="SP6 promoter, forward primer"
     primer_bind     complement(160..177)
                     /label=BGH-rev
                     /note="Bovine growth hormone terminator, reverse primer. 
                     Also called BGH reverse"
     polyA_signal    166..390
                     /label=bGH poly(A) signal
                     /note="bovine growth hormone polyadenylation signal"
     rep_origin      436..864
                     /direction=RIGHT
                     /label=f1 ori
                     /note="f1 bacteriophage origin of replication; arrow 
                     indicates direction of (+) strand synthesis"
     primer_bind     complement(523..542)
                     /label=F1ori-R
                     /note="F1 origin, reverse primer"
     primer_bind     733..754
                     /label=F1ori-F
                     /note="F1 origin, forward primer"
     primer_bind     complement(873..893)
                     /label=pBABE 3'
                     /note="SV40 enhancer, reverse primer for pBABE vectors"
     promoter        878..1207
                     /label=SV40 promoter
                     /note="SV40 enhancer and early promoter"
     rep_origin      1058..1193
                     /label=SV40 ori
                     /note="SV40 origin of replication"
     primer_bind     1120..1139
                     /label=SV40pro-F
                     /note="SV40 promoter/origin, forward primer"
     CDS             1274..2068
                     /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(1328..1347)
                     /label=Neo-R
                     /note="Neomycin resistance gene, reverse primer"
     primer_bind     1938..1957
                     /label=Neo-F
                     /note="Neomycin resistance gene, forward primer"
     polyA_signal    2242..2363
                     /label=SV40 poly(A) signal
                     /note="SV40 polyadenylation signal"
     primer_bind     complement(2279..2298)
                     /label=SV40pA-R
                     /note="SV40 polyA, reverse primer"
     primer_bind     2333..2352
                     /label=EBV-rev
                     /note="SV40 polyA terminator, reverse primer"
     primer_bind     complement(2412..2428)
                     /label=M13 rev
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     primer_bind     complement(2412..2428)
                     /label=M13 Reverse
                     /note="In lacZ gene. Also called M13-rev"
     primer_bind     complement(2425..2447)
                     /label=M13/pUC Reverse
                     /note="In lacZ gene"
     protein_bind    2436..2452
                     /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(2460..2466,2467..2484,2485..2490))
                     /label=lac promoter
                     /note="promoter for the E. coli lac operon"
     protein_bind    2505..2526
                     /label=CAP binding site
                     /bound_moiety="E. coli catabolite activator protein"
                     /note="CAP binding activates transcription in the presence 
                     of cAMP."
     primer_bind     complement(2643..2660)
                     /label=L4440
                     /note="L4440 vector, forward primer"
     rep_origin      complement(2814..3402)
                     /direction=LEFT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     complement(2894..2913)
                     /label=pBR322ori-F
                     /note="pBR322 origin, forward primer"
     CDS             complement(join(3573..4364,4365..4433))
                     /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     4196..4215
                     /label=Amp-R
                     /note="Ampicillin resistance gene, reverse primer"
     promoter        complement(4434..4538)
                     /gene="bla"
                     /label=AmpR promoter
     primer_bind     complement(4613..4632)
                     /label=pRS-marker
                     /note="pRS vectors, use to sequence yeast selectable 
                     marker"
     enhancer        4804..5183
                     /label=CMV enhancer
                     /note="human cytomegalovirus immediate early enhancer"
     promoter        5184..5387
                     /label=CMV promoter
                     /note="human cytomegalovirus (CMV) immediate early 
                     promoter"
     primer_bind     5338..5358
                     /label=CMV-F
                     /note="Human CMV immediate early promoter, forward primer"
     primer_bind     5432..5451
                     /label=T7
                     /note="T7 promoter, forward primer"
     promoter        5432..5450
                     /label=T7 promoter
                     /note="promoter for bacteriophage T7 RNA polymerase"
     misc_RNA        7731..7749
                     /label=MS2 stem loop
                     /note="stem loop that binds the bacteriophage MS2 coat 
                     protein"
     misc_RNA        7770..7788
                     /label=MS2 stem loop
                     /note="stem loop that binds the bacteriophage MS2 coat 
                     protein"
     misc_RNA        7840..7858
                     /label=MS2 stem loop
                     /note="stem loop that binds the bacteriophage MS2 coat 
                     protein"
     misc_RNA        7879..7897
                     /label=MS2 stem loop
                     /note="stem loop that binds the bacteriophage MS2 coat 
                     protein"
     misc_RNA        7949..7967
                     /label=MS2 stem loop
                     /note="stem loop that binds the bacteriophage MS2 coat 
                     protein"
ORIGIN
        1 gtcgactcca gaaaacatga ggatcaccca tgtctgcagt attcccgggt tcattagatc
       61 tgcgcgcgat cgatatccat cacactggcg gccgctcgag catgcatcta gagggcccta
      121 ttctatagtg tcacctaaat gctagagctc gctgatcagc ctcgactgtg ccttctagtt
      181 gccagccatc tgttgtttgc ccctcccccg tgccttcctt gaccctggaa ggtgccactc
      241 ccactgtcct ttcctaataa aatgaggaaa ttgcatcgca ttgtctgagt aggtgtcatt
      301 ctattctggg gggtggggtg gggcaggaca gcaaggggga ggattgggaa gacaatagca
      361 ggcatgctgg ggatgcggtg ggctctatgg cttctgaggc ggaaagaacc agctggggct
      421 ctagggggta tccccacgcg ccctgtagcg gcgcattaag cgcggcgggt gtggtggtta
      481 cgcgcagcgt gaccgctaca cttgccagcg ccctagcgcc cgctcctttc gctttcttcc
      541 cttcctttct cgccacgttc gccggctttc cccgtcaagc tctaaatcgg gggctccctt
      601 tagggttccg atttagtgct ttacggcacc tcgaccccaa aaaacttgat tagggtgatg
      661 gttcacgtag tgggccatcg ccctgataga cggtttttcg ccctttgacg ttggagtcca
      721 cgttctttaa tagtggactc ttgttccaaa ctggaacaac actcaaccct atctcggtct
      781 attcttttga tttataaggg attttgccga tttcggccta ttggttaaaa aatgagctga
      841 tttaacaaaa atttaacgcg aattaattct gtggaatgtg tgtcagttag ggtgtggaaa
      901 gtccccaggc tccccagcag gcagaagtat gcaaagcatg catctcaatt agtcagcaac
      961 caggtgtgga aagtccccag gctccccagc aggcagaagt atgcaaagca tgcatctcaa
     1021 ttagtcagca accatagtcc cgcccctaac tccgcccatc ccgcccctaa ctccgcccag
     1081 ttccgcccat tctccgcccc atggctgact aatttttttt atttatgcag aggccgaggc
     1141 cgcctctgcc tctgagctat tccagaagta gtgaggaggc ttttttggag gcctaggctt
     1201 ttgcaaaaag ctcccgggag cttgtatatc cattttcgga tctgatcaag agacaggatg
     1261 aggatcgttt cgcatgattg aacaagatgg attgcacgca ggttctccgg ccgcttgggt
     1321 ggagaggcta ttcggctatg actgggcaca acagacaatc ggctgctctg atgccgccgt
     1381 gttccggctg tcagcgcagg ggcgcccggt tctttttgtc aagaccgacc tgtccggtgc
     1441 cctgaatgaa ctgcaggacg aggcagcgcg gctatcgtgg ctggccacga cgggcgttcc
     1501 ttgcgcagct gtgctcgacg ttgtcactga agcgggaagg gactggctgc tattgggcga
     1561 agtgccgggg caggatctcc tgtcatctca ccttgctcct gccgagaaag tatccatcat
     1621 ggctgatgca atgcggcggc tgcatacgct tgatccggct acctgcccat tcgaccacca
     1681 agcgaaacat cgcatcgagc gagcacgtac tcggatggaa gccggtcttg tcgatcagga
     1741 tgatctggac gaagagcatc aggggctcgc gccagccgaa ctgttcgcca ggctcaaggc
     1801 gcgcatgccc gacggcgagg atctcgtcgt gacccatggc gatgcctgct tgccgaatat
     1861 catggtggaa aatggccgct tttctggatt catcgactgt ggccggctgg gtgtggcgga
     1921 ccgctatcag gacatagcgt tggctacccg tgatattgct gaagagcttg gcggcgaatg
     1981 ggctgaccgc ttcctcgtgc tttacggtat cgccgctccc gattcgcagc gcatcgcctt
     2041 ctatcgcctt cttgacgagt tcttctgagc gggactctgg ggttcgaaat gaccgaccaa
     2101 gcgacgccca acctgccatc acgagatttc gattccaccg ccgccttcta tgaaaggttg
     2161 ggcttcggaa tcgttttccg ggacgccggc tggatgatcc tccagcgcgg ggatctcatg
     2221 ctggagttct tcgcccaccc caacttgttt attgcagctt ataatggtta caaataaagc
     2281 aatagcatca caaatttcac aaataaagca tttttttcac tgcattctag ttgtggtttg
     2341 tccaaactca tcaatgtatc ttatcatgtc tgtataccgt cgacctctag ctagagcttg
     2401 gcgtaatcat ggtcatagct gtttcctgtg tgaaattgtt atccgctcac aattccacac
     2461 aacatacgag ccggaagcat aaagtgtaaa gcctggggtg cctaatgagt gagctaactc
     2521 acattaattg cgttgcgctc actgcccgct ttccagtcgg gaaacctgtc gtgccagctg
     2581 cattaatgaa tcggccaacg cgcggggaga ggcggtttgc gtattgggcg ctcttccgct
     2641 tcctcgctca ctgactcgct gcgctcggtc gttcggctgc ggcgagcggt atcagctcac
     2701 tcaaaggcgg taatacggtt atccacagaa tcaggggata acgcaggaaa gaacatgtga
     2761 gcaaaaggcc agcaaaaggc caggaaccgt aaaaaggccg cgttgctggc gtttttccat
     2821 aggctccgcc cccctgacga gcatcacaaa aatcgacgct caagtcagag gtggcgaaac
     2881 ccgacaggac tataaagata ccaggcgttt ccccctggaa gctccctcgt gcgctctcct
     2941 gttccgaccc tgccgcttac cggatacctg tccgcctttc tcccttcggg aagcgtggcg
     3001 ctttctcata gctcacgctg taggtatctc agttcggtgt aggtcgttcg ctccaagctg
     3061 ggctgtgtgc acgaaccccc cgttcagccc gaccgctgcg ccttatccgg taactatcgt
     3121 cttgagtcca acccggtaag acacgactta tcgccactgg cagcagccac tggtaacagg
     3181 attagcagag cgaggtatgt aggcggtgct acagagttct tgaagtggtg gcctaactac
     3241 ggctacacta gaagaacagt atttggtatc tgcgctctgc tgaagccagt taccttcgga
     3301 aaaagagttg gtagctcttg atccggcaaa caaaccaccg ctggtagcgg tggttttttt
     3361 gtttgcaagc agcagattac gcgcagaaaa aaaggatctc aagaagatcc tttgatcttt
     3421 tctacggggt ctgacgctca gtggaacgaa aactcacgtt aagggatttt ggtcatgaga
     3481 ttatcaaaaa ggatcttcac ctagatcctt ttaaattaaa aatgaagttt taaatcaatc
     3541 taaagtatat atgagtaaac ttggtctgac agttaccaat gcttaatcag tgaggcacct
     3601 atctcagcga tctgtctatt tcgttcatcc atagttgcct gactccccgt cgtgtagata
     3661 actacgatac gggagggctt accatctggc cccagtgctg caatgatacc gcgagaccca
     3721 cgctcaccgg ctccagattt atcagcaata aaccagccag ccggaagggc cgagcgcaga
     3781 agtggtcctg caactttatc cgcctccatc cagtctatta attgttgccg ggaagctaga
     3841 gtaagtagtt cgccagttaa tagtttgcgc aacgttgttg ccattgctac aggcatcgtg
     3901 gtgtcacgct cgtcgtttgg tatggcttca ttcagctccg gttcccaacg atcaaggcga
     3961 gttacatgat cccccatgtt gtgcaaaaaa gcggttagct ccttcggtcc tccgatcgtt
     4021 gtcagaagta agttggccgc agtgttatca ctcatggtta tggcagcact gcataattct
     4081 cttactgtca tgccatccgt aagatgcttt tctgtgactg gtgagtactc aaccaagtca
     4141 ttctgagaat agtgtatgcg gcgaccgagt tgctcttgcc cggcgtcaat acgggataat
     4201 accgcgccac atagcagaac tttaaaagtg ctcatcattg gaaaacgttc ttcggggcga
     4261 aaactctcaa ggatcttacc gctgttgaga tccagttcga tgtaacccac tcgtgcaccc
     4321 aactgatctt cagcatcttt tactttcacc agcgtttctg ggtgagcaaa aacaggaagg
     4381 caaaatgccg caaaaaaggg aataagggcg acacggaaat gttgaatact catactcttc
     4441 ctttttcaat attattgaag catttatcag ggttattgtc tcatgagcgg atacatattt
     4501 gaatgtattt agaaaaataa acaaataggg gttccgcgca catttccccg aaaagtgcca
     4561 cctgacgtcg acggatcggg agatctcccg atcccctatg gtgcactctc agtacaatct
     4621 gctctgatgc cgcatagtta agccagtatc tgctccctgc ttgtgtgttg gaggtcgctg
     4681 agtagtgcgc gagcaaaatt taagctacaa caaggcaagg cttgaccgac aattgcatga
     4741 agaatctgct tagggttagg cgttttgcgc tgcttcgcga tgtacgggcc agatatacgc
     4801 gttgacattg attattgact agttattaat agtaatcaat tacggggtca ttagttcata
     4861 gcccatatat ggagttccgc gttacataac ttacggtaaa tggcccgcct ggctgaccgc
     4921 ccaacgaccc ccgcccattg acgtcaataa tgacgtatgt tcccatagta acgccaatag
     4981 ggactttcca ttgacgtcaa tgggtggagt atttacggta aactgcccac ttggcagtac
     5041 atcaagtgta tcatatgcca agtacgcccc ctattgacgt caatgacggt aaatggcccg
     5101 cctggcatta tgcccagtac atgaccttat gggactttcc tacttggcag tacatctacg
     5161 tattagtcat cgctattacc atggtgatgc ggttttggca gtacatcaat gggcgtggat
     5221 agcggtttga ctcacgggga tttccaagtc tccaccccat tgacgtcaat gggagtttgt
     5281 tttggcacca aaatcaacgg gactttccaa aatgtcgtaa caactccgcc ccattgacgc
     5341 aaatgggcgg taggcgtgta cggtgggagg tctatataag cagagctctc tggctaacta
     5401 gagaacccac tgcttactgg cttatcgaaa ttaatacgac tcactatagg gagacccaag
     5461 cttcccggga tacttaggat ccagggcgcg caggcggcgc gggtgcgcgg tgcggcgctg
     5521 gtatccagag gacgcggtca ccgcctctgg catttgtcgt tctgcgcttc tccgcaagga
     5581 ccctctgtta ggcaggcgcc caccgtaagc ctcccgggcc ttgtgaacct gcaaacccaa
     5641 gtctgagaga cgatccgcct tcagcgcttt ccagcttggc agagaggctt tcccggcggg
     5701 gatctttggt tggcgctggc gatgcgcggg gaagaaaggc gaggagcggc gtccaggctg
     5761 ggtgatgtcc cagcacgagt aggcgggatg cgctcgcttg gtcctccggg cgcccggtcc
     5821 ctgcccgcgt cgcgcgccca cccctgggga cgagaaggcg gccgcctgag gacccccgcc
     5881 cgcgacctcc gcgagtctgg agcgcagagg acagggtctg gctgctcttt ggccttggat
     5941 ggaaagtggg gaattgggtg gggggctgcg gaccccttaa cgtggattac ttggtgtgta
     6001 tcagctgggc tcagaagacc cacgacctct tctccatccg tggattgatt tgttctgctt
     6061 aacagctggg tcgccaagct ggaggtattt ttccctctcc accctggtct tctcctgtaa
     6121 cgtgtggccg ccttttccag cacggcctcc tgccttcctg gtgcactttt tggagaacgt
     6181 ggtggaatca gaggtttctg gctgactcgg tgggtgcttt gaaccaggaa aggacaagaa
     6241 agaggatggg aaggactgat ccacattccc accaggaagt ttagcagaac ccccgcgtgc
     6301 cacctggacc ccttggaagg acctggctca ggctggacca cctcttgaga ggcaggagct
     6361 ctggatttga tcaagaattc tttgctgagc atggtgcctc atgcctataa tcccaacact
     6421 ttgggaggcc agtgtgggag gatctcttga gcccaggagt tcaagactag cctgggcaac
     6481 acagagagac cccatctcta aaataataat aataataaaa taaaaaatta gcagggcatg
     6541 gtggcatgtg cctgtagtcc cagctaccca ggaggctgag gcaagaggat ggctggagcc
     6601 tgggatgttg aggctgcaat gaactgtgat taccccactg cactccagcc tgggcaaaag
     6661 agcgagagac cctgtctcaa ataataataa taataataat cttattttgg agaataaaga
     6721 gacctctgga tttgaggtgc catttgggta gaaagaaaag acgtttacac cgagaaatag
     6781 tctgtgttgc cctgaaggag cagagggatg catcgctgga ggtgacctac agttgaagaa
     6841 gactcattat gacagacctt gtccttcttc cttgtggaaa gtgtttcctc tgctgctact
     6901 gctcatgaga ctcttccccc tccctgtccc agggaaccaa agggctttct accacaccct
     6961 ttcttgcccc ccgcctccca tgtctgctgt gcctttgtac tcagcaattc ttgtttgctc
     7021 cattatcttc cagccggata cagagtgaat agttaaccac acttaggtca aataggatct
     7081 aaatttttgt tcctgctccg tgtaaagagg ccagtgtttg tgtgttgcaa gcagccttgg
     7141 aatagtaact cttctcattt gtttgggatc tggccaccaa gttccagaat gatacacgga
     7201 tcagtgcaga agttcatcag gctctcggac cttagggctg ttggagaagg cttcagcagc
     7261 agaactgatg gtgaaggctc gtgttctcca tcctcaactt tctttgcttc gatcatacac
     7321 aagaatacat ttggaagggc aaaaaatgaa cactgtcgtt cattgcagcc gtgttttgtg
     7381 acacagatgc acagtctgct gtgaagacct tctctcaagt ggcatttggg agtccatgcc
     7441 agatcatggt gcttcatgag agactgacag ctatcagggg ttgtggcact tagtgaggac
     7501 tctcctcccc cagtgtgtgc tgatgacaca tacacacctg acaatagctt gagtcttctc
     7561 tgttcctttt actcttctag ataagtatca cgtgaagctt ggtaccgagc tcggatccac
     7621 tagtaacggc cgccagtgtg ctggaattcg aatggccatg ggacgtcgac ctgaggtaat
     7681 tataacccgg gccctatata tggatcctaa ggtacctaat tgcctagaaa acatgaggat
     7741 cacccatgtc tgcaggtcga ctctagaaaa catgaggatc acccatgtct gcagtattcc
     7801 cgggttcatt agatcctaag gtacctaatt gcctagaaaa catgaggatc acccatgtct
     7861 gcaggtcgac tctagaaaac atgaggatca cccatgtctg cagtattccc gggttcatta
     7921 gatcctaagg tacctaattg cctagaaaac atgaggatca cccatgtctg cag
//
