LOCUS       Exported               12702 bp ds-DNA     circular SYN 18-DEC-2018
DEFINITION  Cosmid vector pHM1, complete sequence.
ACCESSION   EF059993
VERSION     .
KEYWORDS    .
SOURCE      synthetic DNA construct
  ORGANISM  synthetic DNA construct
REFERENCE   1  (bases 1 to 12702)
  AUTHORS   Gu K, Yang B, Tian D, Wu L, Wang D, Sreekala C, Yang F, Chu Z, Wang 
            G-L., White FF, Yin Z.
  TITLE     R gene expression induced by a type-III effector triggers disease 
            resistance in rice
  JOURNAL   Nature 435 (7045), 1122-1125 (2005)
  PUBMED    15973413
REFERENCE   2  (bases 1 to 12702)
  AUTHORS   Yin Z, Tian D.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-OCT-2006) Molecular Plant Pathology, Temasek Life 
            Sciences Laboratory, 1 Research Link, National University of 
            Singapore, Singapore 117604, Singapore
REFERENCE   3  (bases 1 to 12702)
  AUTHORS   .
  TITLE     Direct Submission
FEATURES             Location/Qualifiers
     source          1..12702
                     /organism="Cosmid vector pHM1"
                     /mol_type="other DNA"
                     /db_xref="taxon:411666"
     misc_feature    1..445
                     /label=BamHI fragment from pUC19
                     /note="BamHI fragment from pUC19"
     primer_bind     144..160
                     /label=M13 fwd
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     misc_feature    161..217
                     /label=pUC19 multiple cloning site
                     /note="pUC19 multiple cloning site"
     primer_bind     complement(230..246)
                     /label=M13 rev
                     /note="common sequencing primer, one of multiple similar 
                     variants"
     protein_bind    254..270
                     /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(278..308)
                     /label=lac promoter
                     /note="promoter for the E. coli lac operon"
     protein_bind    323..344
                     /label=CAP binding site
                     /bound_moiety="E. coli catabolite activator protein"
                     /note="CAP binding activates transcription in the presence 
                     of cAMP."
     misc_feature    446..5053
                     /label=BamHI(filled)-HindIII fragment from pRI20
                     /note="BamHI(filled)-HindIII fragment from pRI20"
     misc_feature    453..498
                     /label=orf84
                     /note="orf84"
     CDS             complement(495..779)
                     /codon_start=1
                     /gene="parB"
                     /product="ParB"
                     /label=parB
                     /note="partition protein; repressor and autoregulator of 
                     partition operon"
                     /protein_id="ABL59975.1"
                     /translation="MNDFKLDLGSLKRTAKPASEAAIAKADAVGEARGFVDRSPRGKPG
                     RKKSERTGQVHAKVLPHVSEEIAEEAMRRGVVQGVIIEEAWALYLEAKG"
     gene            complement(495..779)
                     /gene="parB"
                     /label=parB
     CDS             complement(776..1444)
                     /codon_start=1
                     /gene="parA"
                     /product="ParA"
                     /label=parA
                     /note="partition protein; ATPase"
                     /protein_id="ABL59976.1"
                     /translation="MPVVVVASSKGGAGKSTTAVVLGTELAHKGVPVTMLDCDPNRSLT
                     IWANAGEVPENITALSDVTESSIVKTIKQHDVDGAVVIVDLEGVASRMVSRAISQADLV
                     LIPMRPKALDATIGAQSLQLIAEEEEAIDRKIAHAVVFTMVSPAIRSHEYTGIKASLIE
                     NGVEIIEPPLVERTAYSALFQFGGNLHSMKSKQGNMAAAIENAEAFAMAIFKKLTEALR
                     "
     gene            complement(776..1444)
                     /gene="parA"
                     /label=parA
     rep_origin      1715..1821
                     /label=oriV
                     /note="oriV"
     misc_feature    1997..2211
                     /label=cos region from phage lambda
                     /note="cos region from phage lambda"
     misc_feature    2074..2086
                     /label=cos site
                     /note="cos site"
     CDS             complement(2998..3282)
                     /codon_start=1
                     /gene="traJ"
                     /product="TraJ"
                     /label=traJ
                     /note="oriT-recognizing protein"
                     /protein_id="ABL59978.1"
                     /translation="MADETKPTRKGSPPIKVYCLPDERRAIEEKAAAAGMSLSAYLLAV
                     GQGYKITGVVDYEHVRELARINGDLGRLGGLLKLWLTDDPRTARFGDATI"
     gene            complement(2998..3282)
                     /gene="traJ"
                     /label=traJ
     oriT            3315..3424
                     /note="incP origin of transfer"
     CDS             3650..4189
                     /codon_start=1
                     /gene="traK"
                     /product="TraK"
                     /label=traK
                     /note="oriT-binding protein"
                     /protein_id="ABL59977.1"
                     /translation="MPKSYTDELAEWVESRAAKKRRRDEAAVAFLAVRADVEAALASGY
                     ALVTIWEHMRETGKVKFSYETFRSHARRHIKAKPADVPAPQAKAAEPAPAPKTPEPRRP
                     KQGGKAEKPAPAAAPTGFTFNPTPDKKDLSHLRKAEREDGRPGPRPRAPGARGRRADPR
                     HGPRADAAAGALRSAS"
     gene            3650..4189
                     /gene="traK"
                     /label=traK
     CDS             4500..5054
                     /codon_start=1
                     /gene="aph"
                     /product="aminoglycoside 3-phosphotransferase"
                     /label=aph
                     /note="Km resistance protein"
                     /protein_id="ABL59979.1"
                     /translation="MSHIQRETSCSRPRLNSNMDADLYGYKWARDNVGQSGATIYRLYG
                     KPDAPELFLIHGKGSVANDVTDEMVRLNWLTEFMPLPTIKHFIRTPDDAWLLTTAIPGK
                     TAFQVLEEYPDSGENIVDALAVFLRRLHSIPVCNCPFNSDRVFRLAQAQSRMNNGLVDA
                     SDFDDERNGWPVEQVWKEMHKL"
     gene            4500..5054
                     /gene="aph"
                     /label=aph
     misc_feature    5054..12702
                     /label=HindIII(filled)-BamHI fragment from pGV1120
                     /note="HindIII(filled)-BamHI fragment from pGV1120"
     mobile_element  complement(5054..7394)
                     /mobile_element_type="transposon:Tn21"
                     /note="partial transposon"
     CDS             complement(5306..6316)
                     /codon_start=1
                     /gene="aadA"
                     /product="streptomycin/spectinomycin adenylytransferase"
                     /label=aadA
                     /note="AAD"
                     /protein_id="ABL59974.1"
                     /translation="MRSRNWSRTLTERSGGNGAVAVFMACYDCFFGVQSMPRASKQQAR
                     YAVGRCLMLWSSNDVTQQGSRPKTKLNIMREAVIAEVSTQLSEVVGVIERHLEPTLLAV
                     HLYGSAVDGGLKPHSDIDLLVTVTVRLDETTRRALINDLLETSASPGESEILRAVEVTI
                     VVHDDIIPWRYPAKRELQFGEWQRNDILAGIFEPATIDIDLAILLTKAREHSVALVGPA
                     AEELFDPVPEQDLFEALNETLTLWNSPPDWAGDERNVVLTLSRIWYSAVTGKIAPKDVA
                     ADWAMERLPAQYQPVILEARQAYLGQEEDRLASRADQLEEFVHYVKGEITKVVGK"
     gene            complement(5306..6316)
                     /gene="aadA"
                     /label=aadA
     CDS             complement(5306..6097)
                     /codon_start=1
                     /gene="aadA"
                     /product="aminoglycoside adenylyltransferase (Murphy, 
                     1985)"
                     /label=SmR
                     /note="confers resistance to spectinomycin and 
                     streptomycin"
                     /translation="MREAVIAEVSTQLSEVVGVIERHLEPTLLAVHLYGSAVDGGLKPH
                     SDIDLLVTVTVRLDETTRRALINDLLETSASPGESEILRAVEVTIVVHDDIIPWRYPAK
                     RELQFGEWQRNDILAGIFEPATIDIDLAILLTKAREHSVALVGPAAEELFDPVPEQDLF
                     EALNETLTLWNSPPDWAGDERNVVLTLSRIWYSAVTGKIAPKDVAADWAMERLPAQYQP
                     VILEARQAYLGQEEDRLASRADQLEEFVHYVKGEITKVVGK"
     operon          complement(7391..12702)
                     /operon="pSa Osa"
                     /label=pSa Osa operon
     rep_origin      complement(10023..10537)
                     /direction=LEFT
                     /label=pSa
                     /note="pSa"
     rep_origin      10156..10591
                     /label=pSa ori
                     /note="origin of replication from bacterial plasmid pSa"
     CDS             complement(10628..11599)
                     /codon_start=1
                     /gene="repA"
                     /product="replication protein of plasmid pSa"
                     /label=RepA
                     /translation="MPKNNKAPGHRINEIIKTSLALEMEDAREAGLVGYMARCLVQATM
                     PHTDPKTSYFERTNGIVTLSIMGKPSIGLPYGSMPRTLLAWICTEAVRTKDPVLNLGRS
                     QSEFLQRLGMHTDGRYTATLRNQAQRLFSSMISLAGEQGNDFGIENVVIAKRAFLFWNP
                     KRPEDRALWDSTLTLTGDFFEEVTRSPVPIRIDYLHALRQSPLAMDIYTWLTYRVFLLR
                     AKGRPFVQIPWVALQAQFGSSYGSRARNSPELDDKARERAERAALASFKYNFKKRLREV
                     LIVYPEASDCIEDDGECLRIKSTRLHVTRAPGKGARIGPPPT"
     CDS             complement(12682..234)
                     /codon_start=1
                     /gene="lacZ fragment"
                     /product="LacZ-alpha fragment of beta-galactosidase"
                     /label=lacZ-alpha
                     /translation="MTMITPSLHACRSTLEDPRVPSSNSLAVVLQRRDWENPGVTQLNR
                     LAAHPPFASWRNSEEARTDRPSQQLRSLNGEWIPTPPLL"