pBOMBER vector (V009109)

LOCUS       40924_6996       11489 bp DNA     circular SYN 17-DEC-2018
DEFINITION  Cloning vector pBOMBER, complete sequence.
ACCESSION   .
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 11489)
  AUTHORS   Plackett AR, Conway SJ, Hewett Hazelton KD, Rabbinowitsch EH, 
            Langdale JA, Di Stilio VS.
  TITLE     LEAFY maintains apical stem cell activity during shoot development 
            in the fern Ceratopteris richardii
  JOURNAL   Elife 7, e39625 (2018)
  PUBMED    30355440
REFERENCE   2  (bases 1 to 11489)
  AUTHORS   Plackett ARG., Rabbinowitsch EH, Langdale JA.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-SEP-2018) Department of Plant Sciences, University of 
            Cambridge, Downing Street, Cambridge, Cambridgeshire CB2 3EA, United
            Kingdom
REFERENCE   3  (bases 1 to 11489)
  TITLE     Direct Submission
REFERENCE   4  (bases 1 to 11489)
  AUTHORS   .
  TITLE     Direct Submission
COMMENT     SGRef: number: 1; type: "Journal Article"; journalName: "Elife 7, 
            e39625 (2018)"
COMMENT     SGRef: number: 2; type: "Journal Article"; journalName: "Submitted 
            (05-SEP-2018) Department of Plant Sciences, University of Cambridge,
            Downing Street, Cambridge, Cambridgeshire CB2 3EA, United Kingdom"
COMMENT     SGRef: number: 3; type: "Journal Article"
FEATURES             Location/Qualifiers
     source          1..11489
                     /mol_type="other DNA"
                     /organism="synthetic DNA construct"
     misc_feature    complement(477..501)
                     /label=RB T-DNA repeat
                     /note="right border repeat from nopaline C58 T-DNA"
     protein_bind    757..778
                     /label=CAP binding site
                     /note="CAP binding activates transcription in the presence
                     of cAMP."
     promoter        793..823
                     /label=lac promoter
                     /note="promoter for the E. coli lac operon"
     protein_bind    831..847
                     /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     855..871
                     /label=M13 rev
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     promoter        889..907
                     /label=SP6 promoter
                     /note="promoter for bacteriophage SP6 RNA polymerase"
     promoter        1068..1247
                     /label=NOS promoter
                     /note="nopaline synthase promoter"
     CDS             1283..2305
                     /codon_start=1
                     /product="HPT"
                     /label=HPT
                     /protein_id="AYO90637.1"
                     /translation="MKKPELTATSVEKFLIEKFDSVSDLMQLSEGEESRAFSFDVGGRG
                     YVLRVNSCADGFYKDRYVYRHFASAALPIPEVLDIGEFSESLTYCISRRAQGVTLQDLP
                     ETELPAVLQPVAEAMDAIAAADLSQTSGFGPFGPQGIGQYTTWRDFICAIADPHVYHWQ
                     TVMDDTVSASVAQALDELMLWARTAPKSGTRARGFGSNNVLTDNGRITAVIDWSEAMFG
                     DSQYEVANIFFWRPWLACMEQQTRYFERRHPELAGSPRLRAYMLRIGLDQLYQSLVDGN
                     FDDAAWAQGRCDAIVRSGAGTVGRTQIARRSAAVWTDGCVEVLADSGNRRPSTRPRAKE
                     "
     terminator      2503..2755
                     /label=NOS terminator
                     /note="nopaline synthase terminator and poly(A) signal"
     misc_feature    complement(3051..3075)
                     /label=LB T-DNA repeat
                     /note="left border repeat from nopaline C58 T-DNA"
     oriT            3630..3739
                     /label=oriT
                     /note="incP origin of transfer"
     mobile_element  3799..4566
                     /label=IS1
                     /note="prokaryotic transposable element"
     CDS             4566..4916
                     /codon_start=1
                     /label=traJ
                     /note="oriT-recognizing protein"
                     /translation="PTRKGSPPIKVYCLPDERRAIEEKAAAAGMSLSAYLLAVGQGYKI
                     TGVVDYEHVRELARINGDLGRLGGLLKLWLTDDPRTARFGDATILALLAKIEEKQDELG
                     KVMMGVVRPRAEP"
     CDS             5191..6336
                     /codon_start=1
                     /label=trfA
                     /note="trans-acting replication protein that binds to and 
                     activates oriV"
                     /translation="MNRTFDRKAYRQELIDAGFSAEDAETIASRTVMRAPRETFQSVGS
                     MVQQATAKIERDSVQLAPPALPAPSAAVERSRRLEQEAAGLAKSMTIDTRGTMTTKKRK
                     TAGEDLAKQVSEAKQAALLKHTKQQIKEMQLSLFDIAPWPDTMRAMPNDTARSALFTTR
                     NKKIPREALQNKVIFHVNKDVKITYTGVELRADDDELVWQQVLEYAKRTPIGEPITFTF
                     YELCQDLGWSINGRYYTKAEECLSRLQATAMGFTSDRVGHLESVSLLHRFRVLDRGKKT
                     SRCQVLIDEEIVVLFAGDHYTKFIWEKYRKLSPTARRMFDYFSSHREPYPLKLETFRLM
                     CGSDSTRVKKWREQVGEACEELRGSGLVEHAWVNDDLVHCKR"
     rep_origin      complement(7699..8287)
                     /direction=LEFT
                     /label=ori
                     /note="high-copy-number ColE1/pMB1/pBR322/pUC origin of 
                     replication"
     CDS             9384..10172
                     /codon_start=1
                     /product="SpecR"
                     /label=SpecR
                     /protein_id="AYO90638.1"
                     /translation="MREAVIAEVSTQLSEVVGVIERHLEPTLLAVHLYGSAVDGGLKPH
                     SDIDLLVTVTVRLDETTRRALINDLLETSASPGESEILRAVEVTIVVHDDIIPWRYPAK
                     RELQFGEWQRNDILAGIFEPATIDIDLAILLTKAREHSVALVGPAAEELFDPVPEQDLF
                     EALNETLTLWNSPPDWAGDERNVVLTLSRIWYSAVTGKIAPKDVAADWAMERLPAQYQP
                     VILEARQAYLGQEDRLASRADQLEEFVHYVKGEITKVVGK"
     rep_origin      complement(10777..11489)
                     /direction=LEFT
                     /label=oriV
                     /note="incP origin of replication"