LOCUS       CP018359                5521 bp    DNA     circular BCT 13-DEC-2016
DEFINITION  Klebsiella oxytoca strain CAV1752 plasmid pCAV1752-5521, complete
            sequence.
ACCESSION   CP018359
VERSION     CP018359.1
DBLINK      BioProject: PRJNA246471
            BioSample: SAMN03733848
KEYWORDS    .
SOURCE      Klebsiella oxytoca
  ORGANISM  Klebsiella oxytoca
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5521)
  AUTHORS   Mathers,A.J., Stoesser,N., Chai,W., Carroll,J., Barry,K.,
            Cherunvanky,A., Sebra,R., Kasarskis,A., Peto,T.E., Walker,A.S.,
            Sifri,C.D., Crook,D.W. and Sheppard,A.E.
  TITLE     Chromosomal Integration of the Klebsiella pneumoniae carbapenemase
            gene (blaKPC) in Klebsiella Species: Elusive but not Rare
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5521)
  AUTHORS   Mathers,A.J., Stoesser,N., Chai,W., Carroll,J., Barry,K.,
            Cherunvanky,A., Sebra,R., Kasarskis,A., Peto,T.E., Walker,A.S.,
            Sifri,C.D., Crook,D.W. and Sheppard,A.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-DEC-2016) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. unspecified
            Genome Coverage                   :: 110x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 12/05/2016 17:46:00
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            Annotation Method :: Best-placed reference protein set; GeneMarkS+
            Annotation Software revision      :: 4.0
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 6,264
            CDS (total)                       :: 6,144
            Genes (coding)                    :: 5,948
            CDS (coding)                      :: 5,948
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 196
            Pseudo Genes (ambiguous residues) :: 0 of 196
            Pseudo Genes (frameshifted)       :: 78 of 196
            Pseudo Genes (incomplete)         :: 91 of 196
            Pseudo Genes (internal stop)      :: 68 of 196
            Pseudo Genes (multiple problems)  :: 37 of 196
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            Annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (released 2013). Information about the Pipeline can be
            found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
FEATURES             Location/Qualifiers
     source          1..5521
                     /organism="Klebsiella oxytoca"
                     /mol_type="genomic DNA"
                     /strain="CAV1752"
                     /isolation_source="Perirectal"
                     /host="Homo sapiens"
                     /db_xref="taxon:571"
                     /plasmid="pCAV1752-5521"
                     /geo_loc_name="USA:Virginia"
                     /lat_lon="38.14 N 78.45 W"
                     /collection_date="2012-12"
                     /collected_by="Clinical Microbiology University of Virginia
                     Health System"
     gene            complement(join(5009..5521,1..423))
                     /locus_tag="AGH21_00075"
     CDS             complement(join(5009..5521,1..423))
                     /locus_tag="AGH21_00075"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="APM29128.1"
                     /translation="MTAQDLINVLTILKANDSTSFSKIQRALKMSISQLEGIIDGLTAM
                     GIVYKSSFTSYSLTELTSKPVVSDGVRKAFEDIITNRGTYLSEELLQKVSTPFIPLMTH
                     EYKNAPVKVMIVGQETLGMEDAFSTIVSVDDYINESIESFNKFNFGEDLRNSHFWYAFD
                     EVVKYFNLPSRRHAYWTNLHKFQLIENDGDSVSISKLPSKDIMTMIHMQRELFLAEIKD
                     TKPDIIIYFTGGQTWVLDHYLNNGKKLAVKAIDERSHLGIIQTEFLHCPIAICTDHPSR
                     RGYTQAIVDHRANLLKYAADKFHASESAWF"
                     /name="hypothetical protein"
     gene            complement(1347..1511)
                     /locus_tag="AGH21_00080"
                     /pseudo=""
     CDS             complement(1347..1511)
                     /locus_tag="AGH21_00080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001469788.1"
                     /note="incomplete; partial on complete genome; missing
                     start; Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="transposase"
                     /name="transposase"
     gene            complement(1747..2112)
                     /locus_tag="AGH21_00085"
                     /pseudo=""
     CDS             complement(1747..2112)
                     /locus_tag="AGH21_00085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001119177.1"
                     /note="incomplete; partial on complete genome; missing
                     stop; Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="transposase"
                     /name="transposase"
     gene            complement(2031..2306)
                     /locus_tag="AGH21_00090"
     CDS             complement(2031..2306)
                     /locus_tag="AGH21_00090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001500596.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="transposase"
                     /protein_id="APM29123.1"
                     /translation="MASVSISCPSCSATDGVVRNGKSTAGHQRYLCSHCRKTWQLQFTY
                     TASQPGTHQKIIDMAMNGVGCRATARIMGVGLNTILRHLKNSDRSR"
                     /name="transposase"
     gene            complement(2607..2720)
                     /locus_tag="AGH21_00095"
     CDS             complement(2607..2720)
                     /locus_tag="AGH21_00095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="APM29124.1"
                     /translation="MHEPPVQSDRCALSGNYHLESNPERYEKTPLAAAIGN"
                     /name="replication initiation protein"
     gene            complement(2745..3116)
                     /locus_tag="AGH21_00100"
     CDS             complement(2745..3116)
                     /locus_tag="AGH21_00100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001692121.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="APM29125.1"
                     /translation="MRYRRYSASSLTDSLRSVVRLRRAVPAYWRDGNFLVDARKERNRE
                     TITPRQSRFSIGSAPLTSITESDTQISGGETRQDYKDPRRFPLVAPSCALLFLPFGVPV
                     SFRCYGRVYLIPRLTLSSG"
                     /name="hypothetical protein"
     gene            3603..3794
                     /locus_tag="AGH21_00105"
     CDS             3603..3794
                     /locus_tag="AGH21_00105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="RNA polymerase"
                     /protein_id="APM29126.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="RNA polymerase"
     gene            3794..4204
                     /locus_tag="AGH21_00110"
     CDS             3794..4204
                     /locus_tag="AGH21_00110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000135007.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="APM29127.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKGIKVID
                     TSELIRVFGSLDGVIDDVKSDAESTGINSVGFHDLQHRIALLEAENDGLKGAVKARDEH
                     IDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="hypothetical protein"
     Typing          3083..3256
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          complement(2566..3159)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.0"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 aatgctctca ttaatgtagt catcgaccga aacgatggta ctgaaagcat cttccattcc
       61 cagagtttct tgccccacga tcatcacttt aactggggca tttttgtatt cgtgcgtcat
      121 cagtgggatg aatggtgtac ttaccttttg tagtagttct tctgacaggt aagtaccgcg
      181 attggtaatg atatcttcga atgcctttct tacaccgtca ctaacaacag gtttagaggt
      241 taactcagta aggctgtatg aagtgaatga tgatttatac actattccca ttgcagttaa
      301 cccatcaatg atgccctcca actgcgaaat actcatcttt aacgcgcgtt gaatcttgct
      361 aaaactggtt gagtcgttgg ccttaagaat agtgagaacg ttgattaaat cttgtgctgt
      421 cattcctgtt ttcctcatat tgaactgctt caatgtagat acgcgtttaa ctcattctga
      481 cggtcgcagt acactaaatc agtaagttgg cagcatcacc agggattctt atattattaa
      541 aatagttagg gatgttgtct ttttgggaat tgaatatttt aaagctaatg cttctgttga
      601 ttataatctt atagagatta gtgtgttaga aaatttagcg tatgtttttg ttcttatgaa
      661 tgttggtaat tatcttggtg tttctgatta tgagtaaaaa tttagatcag caaatagcat
      721 cagcccaaaa taggttgaac atgctaagaa agaagaaaat aaacgaagat agaagaaaaa
      781 gaacacatga tttaatcgtt cttggggcag agtgtcttaa attataagat ggaaatagaa
      841 atcttgtaat aggtgcattg ttgtatgttg ataacatgac agaatcacaa aaaaacatgt
      901 taaaaatcaa gggtgaacat tatttaaata aaaacgctga aaactaacaa aatttatttt
      961 ggtagtttga agggttgata tggtttacct ttttgattag aagtaaaata cttcttcaaa
     1021 aaggagggtg ttatgagtga agatattggt aaagttgttg atatttttaa tgaatttacg
     1081 aaggttgaac ttcctggtgg aggaggttta gagaccgata gccctgttgt agaggctgct
     1141 gttgctgttg gtgttttagg tgccgcagca tatgggcttt ataagctatt tagtagtgat
     1201 gattaattat ttaacggtgg ggatttattt ccccgccttt tcatttagat ctaatctctc
     1261 ataacgctta tatagtgcaa cggctgcatg atacgaacaa cccaaagaat cagctatctg
     1321 ttgccatttc aggtaatgac tccaacttat tgatagtgtt ttatgttcag ataatgcccg
     1381 atgactttgt catacagctc caccgatttt gagaacgaca gcgacttccg tccatgccgt
     1441 gccaggtgct gcctcagatt caggttatgc cgctcaatgc gttgagtgta ggggtcagtt
     1501 tggatataga gaattattgt acggcaagcc tgttttttga acagacttac ctatagcaat
     1561 agggtgtact cccgcgctat acggcatttt cagaggtttg accttaatcg gataacctaa
     1621 atgcgatact gcaagagcga caacttaaaa gcgatagcca ctgacgcaaa atcaacccct
     1681 tacgaaccaa gattggttaa ataatgcgct taacgtacaa aaatttccga tctccaaact
     1741 gaccccagtg taacgcttgc tgttaacgtg cagctttccc ttcaggcgtg attcatacag
     1801 cggccagcca tccgtcatcc ataccacgac ctcaaaggcc gacagcaggc tcagaagacg
     1861 ctccagtgtg gccagagtgc gttcaccgaa gacgtgcgcc acaaccgtcc tccgtatcct
     1921 gtcatacgcg taaaacagcc agcgctgacg tgatttagca ccgacgtagc cccactgttc
     1981 gtccatttca gcgcagacaa tcacatcact gcccggttgt atgcgcgagg ttaccgactg
     2041 cggtctgagt tttttaagtg acgtaaaatc gtgttgaggc caacgcccat aatgcgggcg
     2101 gttgcccggc atccaacgcc attcatggcc atatcaatga ttttctggtg cgtaccgggc
     2161 tgagaggcgg tgtaagtgaa ctgtagctgc catgttttac ggcagtgaga gcagagatag
     2221 cgctgatgtc cggcagtgct tttgccgtta cgcaccaccc cgtcagtagc tgaacaggag
     2281 ggacagctga tagaaacaga agccactgga gcacctaaaa aacaccatca tacactaaat
     2341 cagtaagttg gcagcatcac ctttggagaa cggaaatttt tgtacgttaa aaggatcttc
     2401 ttgagatccg tcatttgtcg tcgtagtctc ttctccaaga aacgaaaaaa ccacctgggg
     2461 aggtggtttg atcgaaggtt aggtcagttg gggaactgct taaccaggta actgtcttgt
     2521 gcgagacgag tcaccaaaac tgtccttcca gtgtagccgt tctcaggctc ccacttcaag
     2581 aactccagat aaatctctcg cacatctcag ttaccaatgg ctgctgccag tggcgttttt
     2641 tcgtaccttt ccgggttgga ctcaagatga tagttaccgg ataaggcgca gcggtcggac
     2701 tgaacggggg gttcgtgcat acagtccagc ttggagcgaa ctgcctaccc ggaactgagt
     2761 gtcaggcgtg gaatgagata aacgcggcca taacagcgga atgacaccgg tacaccgaaa
     2821 ggcaggaaca ggagagcgca cgagggagct accaggggga aacgcctggg atctttatag
     2881 tcctgtcggg tttcgccacc actgatttga gtgtcagatt ctgtgatgct cgtcaggggg
     2941 gcggagccta tggaaaaacg gctttgccgc ggcgttattg tttccctgtt acgttccttc
     3001 ctggcatcta ccaggaaatt tccgtcccgc cagtaagctg gtactgctcg ccgcagccga
     3061 acgaccgagc ggagcgagtc agtgagcgag gaagcggaat atctcctgta tcgcatattc
     3121 tgcttacgcg ccggtgccgc cttttttctt ctgccacatg aagcacttca ctgatttccg
     3181 tgcccgtgcc aacataataa gccagtttac actccgctag cgctacgtga ctggttcagg
     3241 gctgcgcccc gaaaccctct aacaacctct cagctactgg atatcacccc atgccatctg
     3301 aatatgatga acaacgggat tcgactgata cgcagcttcc cggcgaatat gacctttttg
     3361 atttaatggc gcaggttact aacgacctcg ttcatgctcg catgaacgga ttgtttttcc
     3421 ggactacagg taaactacag aaagactaca aaagctgatg acttaatcct gatttttagt
     3481 gcgatgacta cagataaact acaaaataac tacaggatta cctcagatcc gttctctgaa
     3541 ccattcgtac atccgacccc cttaccggtt ttacactgag cattgatgct ctgaggtccc
     3601 ttatgacgaa acaacagaaa acagcgctga acatggctaa attcatccag aatcagtctc
     3661 tgctcctgct ggagaagctt aacgagcttg atctcgatgc tgaggccgac ctttgtgaga
     3721 aactccacga tgatgcggag catcttttcc gtacactgtc ctcgagactg gatgaattac
     3781 aggatggtaa ctgatggcca gagtgtctat tagtgaagca gcacggcttg ttaaggttag
     3841 tcgccctact atttacaaga tgattaacag tggtaagtta agttacacct ctgttgtaaa
     3901 gcacgggaag ggtattaaag ttattgatac atcagagctt attagagtgt ttggttctct
     3961 tgatggtgtc atcgatgatg taaaaagtga cgcagaatct acaggtatta acagcgttgg
     4021 ttttcatgat ttacaacata gaatcgcttt acttgaagct gaaaacgatg gtcttaaagg
     4081 ggctgttaag gctcgagatg agcatattga ttcccttcgt caggctatgc agcttctgga
     4141 gcacaagcac gaaccttctt caccacccca ttccccgtgg tggaaattct ggaaaaaatc
     4201 ctgatcccgc catgcttgag ttttcctctc cggccatccc ggggcgttcc tgaaccttcc
     4261 caaaaatcgc cagatccggg aacactcctc accacgaaaa atacccacac accacgcaaa
     4321 attaaaattt tgcagataac tccttattat cagttggtta ggttttatta aattacgcag
     4381 tattaccttc tgtaaggtca atccaagtcg tcggtgattc gtgtacgact tgccgacgac
     4441 tcgtcataga gtcatcgacg actcactcca cactatcagt aacttatgac gacttgactc
     4501 tagagtcgaa tcgtcgcttt ggcgtttttt tgaccgcggt gactctagag tcaagtcacg
     4561 agtcgaatcg ccggtgagtc gtccggcgac ttgccataac gtgattgccg gccgtcgacg
     4621 aacccgattc ctgaacgtgc tgaaaaccgg ttttccggct gcgccggcaa cgcttcacgg
     4681 ccacgcaata aattgcgtcc ccgttcaccg ttttcggatg ggaagaacgc cggaaacagg
     4741 acttaccccg gctgaatggc gtgaatttcc gcgctatgca cttgtgcgca tactcatgca
     4801 tgccgtaaaa acagagcctg cgcgtttctg gcgggttttc gggtggtttg ttgcctgttt
     4861 taccggtttc ccgtcagaaa cgtcctcaga ggctctgagg cggtgcacgc aacggatgtt
     4921 atggtaaatt gaatcgccac ggataattta gacacttccg agccgttgat aatactggtt
     4981 ttcatattct gtcggtgaca tgtgttcgct agaaccatgc cgattcactt gcatgaaatt
     5041 tgtcagcagc atatttaagc agattagctc tatgatctac gatggcttga gtatatcccc
     5101 ttctactagg atggtcggta catatagcga ttgggcaatg caaaaattct gtctggataa
     5161 tccccagatg cgagcgttca tctattgcct taactgctaa ttttttacca ttgtttagat
     5221 aatgatctaa cacccaggtt tgcccacccg tgaagtagat gatgatatct ggcttggtat
     5281 ctttaatttc agccaagaat aattcacgct gcatatgaat cattgtcatg atatcttttg
     5341 aaggtagttt ggaaatgctg acactatctc catcattttc aattaattga aacttatgaa
     5401 gattagtcca ataagcatgc cttctggatg gtaggttaaa atactttact acttcatcaa
     5461 atgcatacca aaagtggcta ttccttaaat cttcaccaaa attgaattta ttgaaggatt
     5521 c
//
