LOCUS       CP018358                4374 bp    DNA     circular BCT 13-DEC-2016
DEFINITION  Klebsiella oxytoca strain CAV1752 plasmid pCAV1752-4374, complete
            sequence.
ACCESSION   CP018358
VERSION     CP018358.1
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 4374)
  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  JOURNAL   Unpublished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 4374)
  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..4374
                     /organism="Klebsiella oxytoca"
                     /mol_type="genomic DNA"
                     /strain="CAV1752"
                     /isolation_source="Perirectal"
                     /host="Homo sapiens"
                     /db_xref="taxon:571"
                     /plasmid="pCAV1752-4374"
                     /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(229..935)
                     /locus_tag="AGH21_00040"
                     /pseudo=""
     CDS             complement(229..935)
                     /locus_tag="AGH21_00040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004109312.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="transposase"
                     /name="transposase"
     gene            complement(968..1231)
                     /locus_tag="AGH21_00045"
     CDS             complement(968..1231)
                     /locus_tag="AGH21_00045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006328216.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="transposase"
                     /protein_id="APM29118.1"
                     /translation="MKKRFSDEQIISILREAEAGVSARELCRKHAISDAIFYTWRKKYG
                     GMEVPEVKRLKSLEEENARLKKLLAEAMLDKQALQVALGRKY"
                     /name="transposase"
     gene            1303..1494
                     /locus_tag="AGH21_00050"
     CDS             1303..1494
                     /locus_tag="AGH21_00050"
                     /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="APM29119.1"
                     /translation="MLKKDDIIFMKSCGNAKTIIFLRGVDEKLMINASFEEIKFAINNN
                     LQELPGVQAVAATLKIAT"
                     /name="hypothetical protein"
     gene            1665..1946
                     /locus_tag="AGH21_00055"
     CDS             1665..1946
                     /locus_tag="AGH21_00055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008160017.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="APM29122.1"
                     /translation="MSALPLTAISQVTLASDGSYVSGSEATLAPDGSYVGGSEVTLAPD
                     GSYVGGSEVTLAPDGSYVGGSEVTLAPDGSYVGGSEATLAPDGSYVGN"
                     /name="hypothetical protein"
     gene            complement(3004..3405)
                     /locus_tag="AGH21_00060"
     CDS             complement(3004..3405)
                     /locus_tag="AGH21_00060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA-binding protein"
                     /protein_id="APM29120.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKTGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPTPWWKFWKKS"
                     /name="DNA-binding protein"
     gene            complement(3405..3596)
                     /locus_tag="AGH21_00065"
     CDS             complement(3405..3596)
                     /locus_tag="AGH21_00065"
                     /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="APM29121.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="RNA polymerase"
     gene            3724..4050
                     /locus_tag="AGH21_00070"
                     /pseudo=""
     CDS             3724..4050
                     /locus_tag="AGH21_00070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001307200.1"
                     /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="hypothetical protein"
                     /name="hypothetical protein"
     Typing          3718..4125
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.377"
                     /coverage="99.0"
                     /evalue="1.26e-177"
ORIGIN
        1 caccaaccat caaaataaaa ctatttaacc cattgtttct gataagaaaa aaacatatat
       61 aatcatgatc cacaatcatc caacgcggtt gacctgcccc cccaggatta gatacaacct
      121 tcagttagta atgtcggttc gtttttcttc atatttcccg tttcgccagc ccgccgcaaa
      181 ttcagccgga gtctggtagt tcagcgatga atgtggacga cactcgctct aatcctgccg
      241 ccagtcatta atcgttttcc tggcgtgaac gatatcgctg aaccagtgct cattgaggca
      301 ctcatccctg aatcgtccgt taaaactttc aataaatccg ttctgtgttg gcctgcccgg
      361 ctggataagc cgtagctcca ccccatgctc ataagcccac tggtcgagtg ctctgcaggt
      421 aaactccggc ccctggtcag ttcttatcgt cgccggatag ccgcgaaaca gtgcaatgct
      481 gtccagaatt cgcgtgacct gaacgcctga aatcccgaag acggcggtaa ttgtcagaca
      541 ctccttcgtg aagtcgtcca cgcaggtcag gcacttgatc ctgcgaccgg tggccagcgc
      601 gtccatgaca aaatccatcg gccaggtcag gttgggcgcc tccgggcgga gcagcggcag
      661 acgttctgtt gccagacctt tacgacgtcg tctgcgtttt acacccagcc cgttaaggtg
      721 gtaaagacgg tacacgcgct tgtgattaac atgaaggcct tcacggcgca gtaactgcca
      781 gatgcgtcgg tagccaaaac gcctgcgctc cagtgccagc tcagtgataa atgcgcatca
      841 gccgccgaac gctgagcctc atagcggcag gtcgacaggg gcaaacctgt aagcctgcag
      901 gcactacgtt gcgacagacc ggtcgcatca cacataaact caacggcttc ctgcttctgg
      961 tctgtcgtca gtactttcgc cccagagcca cctgaagcgc ctgcttatcc agcatggctt
     1021 cggcaagcag tttcttgagt ctggcgttct cttcctcaag cgacttaagg cgcttaacct
     1081 cgggcacctc cataccgcca tacttcttac gccaggtgta aaagatggcg tcggaaatgg
     1141 cgtgcttacg gcagagctca cgggcagaaa ccccggcttc ggcctcgcgg agaatactga
     1201 tgatctgttc gtcggaaaaa cgcttcttca tgaggatgtc ctcatgtggc ttatgaagac
     1261 attactaaca tcgcggtgta ttaatcaacg gggagcaggt caatgctaaa aaaagatgat
     1321 attatcttta tgaaatcatg tggtaatgca aaaacaataa tatttttacg tggcgtggat
     1381 gagaagctca tgattaacgc gagctttgaa gagataaagt ttgctatcaa taataatctt
     1441 caggagcttc cgggggtaca agcagtagcc gcgacactga aaatagcaac ctgatttcga
     1501 gtaagggcac tcaaaatcaa gagatcaatt tactataaca tcccgatcac gaatcccgcg
     1561 gctggaaccg gcgttcggca ccgctgaacg attcaattct atttttgata ttaacaggag
     1621 taatagtgat gagagtatta tctcttggtg ccattttaat ggctatgtca gcattaccac
     1681 taaccgcgat atcccaagta accttagcat ctgatggatc gtacgttagt ggttcggaag
     1741 caaccttagc acctgatggc tcatacgttg gtggttcgga agtaacctta gcacctgatg
     1801 gctcatacgt tggtggttcg gaagtaacct tagcacctga tggctcatac gttggtggtt
     1861 cggaagtaac cttagcacct gatggctcat acgttggtgg ttcggaagca accttagcac
     1921 ctgatggctc atacgttgga aattaacccc ccattattat gctgcgtacc gatatactga
     1981 attccgaatg ccagcatttt tggatttatc ataacgtctt cttacgtgta ctgaacaatg
     2041 cgtcctcagg aaccattagc tcaaagcaat aagtgtaatg aaaaaagaat gaaaaccact
     2101 tacaataact aatcataaca ggttgttttt attagattaa taaagtactt atggactttt
     2161 ttttacttgc tatcgccatt gctctacttg ttgtagctgt ctactcagga atctcatact
     2221 acaaagaaaa aaaaacaatc agtcgtacat ttaggcgata gcgccctatt taccataatc
     2281 ccttcttgta cgcaccgcaa aaacggcctc aaggcgtttc tgacgggaaa ccggtaaaac
     2341 aggcaacaaa ccacccgaaa acccgccaga aacgcgcagg ctctgttttt acggcatgca
     2401 tgagtatgca cgcaagtgca tagcgcgaaa attcacgcca ttcagccagg gtaagtcctg
     2461 tttccggcgt tcttcctatc cgaaaacggt gaacggggac gcaatttatt gcgtggccgt
     2521 gaagcgttgc cggcgcagcc ggaaaaccgg ttttcagcac gttcaggaat cgggttcgtc
     2581 gacggccggc aatcacgtta tggcaagtcg ccggacgact caccacacga ttcaccggcg
     2641 attcgaatcg tgaattgaat caagagtcac catgaacaaa aaaaacccag agtgatgaat
     2701 tgaatcaaga gtcgattcat cataacaata tgataataaa gcgtgattca catatgaatc
     2761 gtgggcaatt cgtcagcgat tcgccataga gttgtccacg acttggatct gcactttgta
     2821 acacatcacc gcacatttat ttttcattaa cccattgttg taaataagga atctgcaaaa
     2881 ttttaatttt gcgtggggtg tgggtatttt tagtggtgag gagcgttcag agatctgacg
     2941 atttttggga aggttcagga actccccggg atggccggag aggaaaactg aagcatgacg
     3001 gggtcaggat tttttccaga atttccacca tggcgtcggg gattcagtta attttgcctg
     3061 gtgattttca agaaggagca tggcctgttt caggctgtca atgtgcgaat ccttggacaa
     3121 aagtaaggtg ttcaggtgtt caatctcctg tttcagatga cgaatcacct gttcactctg
     3181 gtcagcagag gctgtatcac gctgttcaga gacctgtcca gaatggtgtt cacccttcgg
     3241 ttgctcaaag ggaccaaaga cacgtaaaag ctctgaagta tctaccattt ttgcattgcg
     3301 ctcaccacta caggtggaca ggtcacctgt tttaattaac ctgtgcagtg ttgttctact
     3361 cttacccgtc agtcgggcag cctcactaat agacactctg gccatcagtt accatcctgt
     3421 aatgcatcca gtctcgagga cagtgtacgg aaaagatgct ccgcatcatc gtggagtttc
     3481 tcacaaaggt cggcctcgac atcgagatca agctcgttaa gcttctccag caggagcaga
     3541 gactgattct ggatgaattt agccatgttc agcgctgttt tctgttgttt cgtcataaga
     3601 ggcctcagag cgtcagtgct cagtgtaggg atgttctctt ttccgcttcc tcgctcactc
     3661 agtcgctatg ctcctgccgt tcggctgcgg cgagcggcag gagcatgcac ataaaagctc
     3721 gagaaaaccg aacagtcgcg tgatggtgaa aaggaaaggc cgcatggtgg ccttttttcc
     3781 ataggctccg cccccctgac aagcatcaca gaatctgacg ctcaaatcag tggtggcgaa
     3841 acccgacagg actataaaga taccaggcgt ttccccctga tggctccctc gtgcgctctc
     3901 ctgttcctgc ctttcggttt accggtgtca ttccgctgtt atggccgcgt ttgtctcatt
     3961 ccacgcctga cactcagttc cgggaaggca gttcgctcca agctggactg tatgcacgaa
     4021 ccccccgttc agtccgactg ctgcgcctaa tccggtaact atcgtcttga gtccaacccg
     4081 gaaagacacg acaaagcgcc actggcagca gccactggta actgatttag ggagttagtc
     4141 ttgaagttat acgccagtta gggctaaact aaacgaacag ttttggtgac tgcgctccct
     4201 ttaagccagt tacctcggtt caaagagttg ctgctctgag aaccttcgag aaaaccgcct
     4261 tgctgggcgg ttttttcgtt tactgagcaa gagattacga tgctaaagaa aggatctcaa
     4321 gaggatcctg ttccatatgc ctacccctga agtgaaacca gcaccactcc gcga
//
