LOCUS       sequence-235390-        3436 bp    DNA     circular SYN 15-DEC-2025
DEFINITION  Negative control shRNA for plasmid 121070: shRNA targeting the 
            3'-untranslated region (UTR) of the gephyrin mRNA .
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 3436)
  AUTHORS   Yu W, Jiang M, Miralles CP, Li RW, Chen G, de Blas AL
  TITLE     Gephyrin clustering is required for the stability of GABAergic 
            synapses.
  JOURNAL   Mol Cell Neurosci. 2007 Dec;36(4):484-500. doi: 
            10.1016/j.mcn.2007.08.008. Epub 2007 Aug 23.
  PUBMED    17916433
REFERENCE   2  (bases 1 to 3436)
  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.mcn.2007.08.008"; journalName: "Mol Cell Neurosci"; date:
            "2007-12"; volume: "36"; issue: "4"; pages: "484-500"
COMMENT     Sequence Label: Geph UTR3m shRNA
FEATURES             Location/Qualifiers
     source          1..3436
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     promoter        46..358
                     /label=U6 promoter
                     /note="RNA polymerase III promoter for mouse U6 snRNA (Das 
                     et al., 1988)"
     primer_bind     277..297
                     /label=mU6-F
                     /note="Mouse U6 promoter, forward primer"
     polyA_signal    433..567
                     /label=SV40 poly(A) signal
                     /note="SV40 polyadenylation signal"
     primer_bind     complement(457..476)
                     /label=EBV-rev
                     /note="SV40 polyA terminator, reverse primer"
     primer_bind     511..530
                     /label=SV40pA-R
                     /note="SV40 polyA, reverse primer"
     primer_bind     complement(665..685)
                     /label=T3
                     /note="T3 promoter, forward primer"
     promoter        complement(665..683)
                     /label=T3 promoter
                     /note="promoter for bacteriophage T3 RNA polymerase"
     primer_bind     complement(704..720)
                     /label=M13 rev
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     primer_bind     complement(704..720)
                     /label=M13 Reverse
                     /note="In lacZ gene. Also called M13-rev"
     primer_bind     complement(717..739)
                     /label=M13/pUC Reverse
                     /note="In lacZ gene"
     protein_bind    728..744
                     /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(752..758,759..776,777..782))
                     /label=lac promoter
                     /note="promoter for the E. coli lac operon"
     protein_bind    797..818
                     /label=CAP binding site
                     /bound_moiety="E. coli catabolite activator protein"
                     /note="CAP binding activates transcription in the presence 
                     of cAMP."
     primer_bind     complement(935..952)
                     /label=L4440
                     /note="L4440 vector, forward primer"
     rep_origin      complement(1106..1694)
                     /direction=LEFT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     primer_bind     complement(1186..1205)
                     /label=pBR322ori-F
                     /note="pBR322 origin, forward primer"
     CDS             complement(join(1865..2656,2657..2725))
                     /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     2488..2507
                     /label=Amp-R
                     /note="Ampicillin resistance gene, reverse primer"
     promoter        complement(2726..2830)
                     /gene="bla"
                     /label=AmpR promoter
     rep_origin      complement(2856..3311)
                     /direction=LEFT
                     /label=f1 ori
                     /note="f1 bacteriophage origin of replication; arrow 
                     indicates direction of (+) strand synthesis"
     primer_bind     complement(2993..3014)
                     /label=F1ori-F
                     /note="F1 origin, forward primer"
     primer_bind     3205..3224
                     /label=F1ori-R
                     /note="F1 origin, reverse primer"
ORIGIN
        1 aaacataggg cccaatggcg cgccaaggcc atctaggcca agcttatccg acgccgccat
       61 ctctaggccc gcgccggccc cctcgcacag acttgtggga gaagctcggc tactcccctg
      121 ccccggttaa tttgcatata atatttccta gtaactatag aggcttaatg tgcgataaaa
      181 gacagataat ctgttctttt taatactagc tacattttac atgataggct tggatttcta
      241 taagagatac aaatactaaa ttattatttt aaaaaacagc acaaaaggaa actcacccta
      301 actgtaaagt aattgtgtgt tttgagacta taaatatccc ttggagaaaa gccttgtttg
      361 gcggtagctt atgacaggat acagtacaac tgtatccagt cataagctac cgctttttct
      421 agataatacg tagatccaga catgataaga tacattgatg agtttggaca aaccacaact
      481 agaatgcagt gaaaaaaatg ctttatttgt gaaatttgtg atgctattgc tttatttgta
      541 accattataa gctgcaataa acaagttaac aacaacaatt gcattcattt tatgtttcag
      601 gttcaggggg aggtgtggga ggttttttaa ttcttgcggc cgcggcggta cccagctttt
      661 gttcccttta gtgagggtta attgcgcgct tggcgtaatc atggtcatag ctgtttcctg
      721 tgtgaaattg ttatccgctc acaattccac acaacatacg agccgggagc ataaagtgta
      781 aagcctgggg tgcctaatga gtgagctaac tcacattaat tgcgttgcgc tcactgcccg
      841 ctttccagtc gggaaacctg tcgtgccagc tgcattaatg aatcggccaa cgcgcgggga
      901 gaggcggttt gcgtattggg cgctcttccg cttcctcgct cactgactcg ctgcgctcgg
      961 tcgttcggct gcggcgagcg gtatcagctc actcaaaggc ggtaatacgg ttatccacag
     1021 aatcagggga taacgcagga aagaacatgt gagcaaaagg ccagcaaaag gccaggaacc
     1081 gtaaaaaggc cgcgttgctg gcgtttttcc ataggctccg cccccctgac gagcatcaca
     1141 aaaatcgacg ctcaagtcag aggtggcgaa acccgacagg actataaaga taccaggcgt
     1201 ttccccctgg aagctccctc gtgcgctctc ctgttccgac cctgccgctt accggatacc
     1261 tgtccgcctt tctcccttcg ggaagcgtgg cgctttctca tagctcacgc tgtaggtatc
     1321 tcagttcggt gtaggtcgtt cgctccaagc tgggctgtgt gcacgaaccc cccgttcagc
     1381 ccgaccgctg cgccttatcc ggtaactatc gtcttgagtc caacccggta agacacgact
     1441 tatcgccact ggcagcagcc actggtaaca ggattagcag agcgaggtat gtaggcggtg
     1501 ctacagagtt cttgaagtgg tggcctaact acggctacac tagaagaaca gtatttggta
     1561 tctgcgctct gctgaagcca gttaccttcg gaaaaagagt tggtagctct tgatccggca
     1621 aacaaaccac cgctggtagc ggtggttttt ttgtttgcaa gcagcagatt acgcgcagaa
     1681 aaaaaggatc tcaagaagat cctttgatct tttctacggg gtctgacgct cagtggaacg
     1741 aaaactcacg ttaagggatt ttggtcatga gattatcaaa aaggatcttc acctagatcc
     1801 ttttaaatta aaaatgaagt tttaaatcaa tctaaagtat atatgagtaa acttggtctg
     1861 acagttacca atgcttaatc agtgaggcac ctatctcagc gatctgtcta tttcgttcat
     1921 ccatagttgc ctgactcccc gtcgtgtaga taactacgat acgggagggc ttaccatctg
     1981 gccccagtgc tgcaatgata ccgcgagacc cacgctcacc ggctccagat ttatcagcaa
     2041 taaaccagcc agccggaagg gccgagcgca gaagtggtcc tgcaacttta tccgcctcca
     2101 tccagtctat taattgttgc cgggaagcta gagtaagtag ttcgccagtt aatagtttgc
     2161 gcaacgttgt tgccattgct acaggcatcg tggtgtcacg ctcgtcgttt ggtatggctt
     2221 cattcagctc cggttcccaa cgatcaaggc gagttacatg atcccccatg ttgtgcaaaa
     2281 aagcggttag ctccttcggt cctccgatcg ttgtcagaag taagttggcc gcagtgttat
     2341 cactcatggt tatggcagca ctgcataatt ctcttactgt catgccatcc gtaagatgct
     2401 tttctgtgac tggtgagtac tcaaccaagt cattctgaga atagtgtatg cggcgaccga
     2461 gttgctcttg cccggcgtca atacgggata ataccgcgcc acatagcaga actttaaaag
     2521 tgctcatcat tggaaaacgt tcttcggggc gaaaactctc aaggatctta ccgctgttga
     2581 gatccagttc gatgtaaccc actcgtgcac ccaactgatc ttcagcatct tttactttca
     2641 ccagcgtttc tgggtgagca aaaacaggaa ggcaaaatgc cgcaaaaaag ggaataaggg
     2701 cgacacggaa atgttgaata ctcatactct tcctttttca atattattga agcatttatc
     2761 agggttattg tctcatgagc ggatacatat ttgaatgtat ttagaaaaat aaacaaatag
     2821 gggttccgcg cacatttccc cgaaaagtgc cacctaaatt gtaagcgtta atattttgtt
     2881 aaaattcgcg ttaaattttt gttaaatcag ctcatttttt aaccaatagg ccgaaatcgg
     2941 caaaatccct tataaatcaa aagaatagac cgagataggg ttgagtgttg ttccagtttg
     3001 gaacaagagt ccactattaa agaacgtgga ctccaacgtc aaagggcgaa aaaccgtcta
     3061 tcagggcgat ggcccactac gtgaaccatc accctaatca agttttttgg ggtcgaggtg
     3121 ccgtaaagca ctaaatcgga accctaaagg gagcccccga tttagagctt gacggggaaa
     3181 gccggcgaac gtggcgagaa aggaagggaa gaaagcgaaa ggagcgggcg ctagggcgct
     3241 ggcaagtgta gcggtcacgc tgcgcgtaac caccacaccc gccgcgctta atgcgccgct
     3301 acagggcgcg tcccattcgc cattcaggct gcgcaactgt tgggaagggc gatcggtgcg
     3361 ggcctcttcg ctattacgcc agtcgacagc ctgcaggaat ggccggccat cttaattaag
     3421 aaatttaaat atgttt
//
