LOCUS       NZ_CP069914             5631 bp    DNA     circular CON 03-DEC-2023
DEFINITION  Klebsiella oxytoca strain FDAARGOS_1334 plasmid unnamed14, complete
            sequence.
ACCESSION   NZ_CP069914
VERSION     NZ_CP069914.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357476
            Assembly: GCF_016903415.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella oxytoca
  ORGANISM  Klebsiella oxytoca
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5631)
  AUTHORS   Sokurenko,E., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J., Ott,S.,
            Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S.,
            Yan,Y. and Sichtig,H.
  TITLE     FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS):
            Supporting development and validation of Infectious Disease Dx tests
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5631)
  AUTHORS   Sokurenko,E., Tallon,L., Sadzewicz,L., Zhao,X., Boylan,J., Ott,S.,
            Bowen,H., Vavikolanu,K., Mehta,A., Aluvathingal,J., Nadendla,S.,
            Yan,Y. and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-FEB-2021) Institute for Genome Sciences, University of
            Maryland School of Medicine, BioPark II, 801 W. Baltimore St., Suite
            619, Baltimore, MD 21201, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Canu v. 1.8
            Genome Coverage                   :: 591.2x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/03/2023 03:56:31
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,915
            CDSs (total)                      :: 5,798
            Genes (coding)                    :: 5,689
            CDSs (with protein)               :: 5,689
            Genes (RNA)                       :: 117
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 109
            CDSs (without protein)            :: 109
            Pseudo Genes (ambiguous residues) :: 0 of 109
            Pseudo Genes (frameshifted)       :: 47 of 109
            Pseudo Genes (incomplete)         :: 70 of 109
            Pseudo Genes (internal stop)      :: 26 of 109
            Pseudo Genes (multiple problems)  :: 29 of 109
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP069914.1.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..5631
                     /organism="Klebsiella oxytoca"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1334"
                     /host="Homo sapiens"
                     /culture_collection="FDA:FDAARGOS_1334"
                     /db_xref="taxon:571"
                     /plasmid="unnamed14"
                     /geo_loc_name="USA: WA"
                     /collected_by="ARMADA"
     gene            complement(join(5364..5631,1..785))
                     /locus_tag="I6K64_RS28145"
                     /old_locus_tag="I6K64_28140"
     CDS             complement(join(5364..5631,1..785))
                     /locus_tag="I6K64_RS28145"
                     /old_locus_tag="I6K64_28140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001053268.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGKGGYSHPEGISTTWHSESNLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIENSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGIPVDDASMFFNSFQPRKFE
                     NKPLYEKEDD"
                     /name="hypothetical protein"
     gene            complement(1266..1499)
                     /locus_tag="I6K64_RS28150"
                     /old_locus_tag="I6K64_28145"
     CDS             complement(1266..1499)
                     /locus_tag="I6K64_RS28150"
                     /old_locus_tag="I6K64_28145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137437.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1506..2036)
                     /locus_tag="I6K64_RS28155"
                     /old_locus_tag="I6K64_28150"
     CDS             complement(1506..2036)
                     /locus_tag="I6K64_RS28155"
                     /old_locus_tag="I6K64_28150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_001673158.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            complement(<2074..2772)
                     /locus_tag="I6K64_RS29810"
                     /old_locus_tag="I6K64_28155"
                     /pseudo=""
     CDS             complement(<2074..2772)
                     /locus_tag="I6K64_RS29810"
                     /old_locus_tag="I6K64_28155"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(2714..3037)
                     /locus_tag="I6K64_RS28165"
                     /old_locus_tag="I6K64_28160"
     CDS             complement(2714..3037)
                     /locus_tag="I6K64_RS28165"
                     /old_locus_tag="I6K64_28160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_000955999.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3102..3293
                     /locus_tag="I6K64_RS28170"
                     /old_locus_tag="I6K64_28165"
     CDS             3102..3293
                     /locus_tag="I6K64_RS28170"
                     /old_locus_tag="I6K64_28165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165975.1"
                     /translation="MTKQEKTALNMARFIRGQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(4496..5362)
                     /locus_tag="I6K64_RS28175"
                     /old_locus_tag="I6K64_28170"
     CDS             complement(4496..5362)
                     /locus_tag="I6K64_RS28175"
                     /old_locus_tag="I6K64_28170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /GO_function="GO:0005215 - transporter activity [Evidence
                     IEA]"
                     /GO_process="GO:0055085 - transmembrane transport [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WP_001335763.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     Typing          complement(3388..3469)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.3400000000000002e-35"
     Typing          complement(3926..4113)
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          complement(1163..2724)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.808"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gaactattac cggtgtgcac tgggcatcca aaacgatcca aattagattc tgaatgccat
       61 gttgtagaaa tcccttccgg atgtgaatac ccacccttac caacagactg aatagtcatg
      121 ttacgaatat ccgctaacgc ttgttcttga tctttataga aacctttttc tatcgccagc
      181 ctcataaaat gccccggggc atttacagaa ataagtattc cccctggtat tcttctatca
      241 tgatttcttg ttctatgagc agaagagtaa aaaacattaa caccagcctt atatattttt
      301 agcccatctt tatcctgaaa tggtacgctt tcagtataaa taacatcctc ttttattgga
      361 tagcactctg gcatatgcag cgaacaaata tatttttgta tgtccactaa ctcttctgat
      421 ggacgagcaa aggcaagttg tggatgaata aaataaatga gatgcgcact gacctctcct
      481 cttcttgcgc gttctttaaa acgaactctt tcattacgca aaaaatcaaa caaatgacca
      541 tcatcattat atagttgggg gctatttaca atagataaat ggaaatcaag ccctttaatt
      601 ttcttgcttg ccaatttacc aaatacacag ggctgattgc ctgacaccca ttttcttagt
      661 aaatcttcaa ttttatcttt agaagtttcg ttaaagataa atgaatgaat attatcaata
      721 tcttttccaa atgaaaaact ggatgataat tgtggtagtt tatttatacg ttgttgaaga
      781 ttcatgaaag ctcccacaag acacctcata tattttttta tatactgaaa ctacattata
      841 tttattaccg gcgtaaaacg aaataattta ttatcgttac cgatatttta aaaaaatcat
      901 tatttgcaca gtgttcgagt tgttagtatc actccttcct gaaaatccgc tccatttacc
      961 ataacgtcgc attgtacgca ccgccaaaac gcgttcggtg cgatcacggc agcagacagg
     1021 taaaaatggc aacaaaccac ccgaaaaact gccgcgatcg cacctgataa attttaaccg
     1081 catgaatacc tatgcaacca gatgctacag gccacattag cccgccttaa tccactgaac
     1141 acgtcatttt tcatggtttc accatcccag cgaagggcca tccagtgtcc gctcctggat
     1201 ttccggctga cgctcccgct ccagagataa ctcatgttcg cgttcctgca tcagccgttc
     1261 atcccttatc tcctgttctc gctgtataac tggctcaagc gttctgtccg ctcgctcaag
     1321 tgctgcacct gctgactcaa ctgcatgact cgcccgttca gcatcgcgtt gtcccgttgc
     1381 gtaagcgaaa acattttctg caattccacg aaggcgttct cccattcgtt cagccgctgc
     1441 atatagtcct gttgcagttg ctctaatgcg ttcagcaaat gtctttccag ctccgtcatg
     1501 ctctgtcact cctgcaccag tctcactgcg ttcagtttgc cgttgtcctt cgtccagttc
     1561 gtttcggctt tcatcccctt cggcaacacc agaaaacgtc cgttgctgtc ctcgtgataa
     1621 cgcacgcccc atgtcttcgc gttcagcttc tccagactct ctttctgctc gcggagaata
     1681 ttcatattcg cgtttatctt catgccctgg taccacagca gactcccggt cgtggcaaac
     1741 atcagtactg agacgataat cagccacagc cagcgtttca cgctcatttt cagtacggtt
     1801 ttccagtgcg cgtccatcgt atcgacggtc gttttctgat acctctccag cagttctttc
     1861 agggctgttg tatggtcgtt gatagcgttc ctgattaaag attcgtttga ggtcagttcc
     1921 ctgtttacag attcttcgag cttcctgaac tcgtcgttca gcattttctc tgtagattcg
     1981 gctctctctt tcagcttttt ctcgaactcc gcgcccgtct gtaaaagatt gctcataaaa
     2041 cgctcctttc agtctgatat tcctcccgcc gttcgggtct gcaatgctga tactgcttcg
     2101 cgtcaccctg accacttcaa gccccgcctc tgtgagcgcc tgaatcacat cctgacggcc
     2161 ttttatctct ccggcatggt aaagcgcgtc tatcccgcgt gtgacgccct cagcaagcgc
     2221 ctgtttcgtt tccggcaggt tatcaggaag ggtcagcgtc cggcggttct ccagggcgtt
     2281 ggggtcatgc agaccgtaat ggtgattcac cagcgtctgc caggcatcaa ttctcggcct
     2341 gtctgcccgg tcgtagtacg gctggaggcg ttttccggtc tgtagctcca tgttcggaat
     2401 gacaaaattc agctcaagcc gtcccttgtc ctggtgctcc acccacagga tgctgtactg
     2461 atttttctcg agaccgggca tcagtacacg ctcaaagctc gccatcactt tttcacgccc
     2521 tccaggcggc agctccttct ccgcgaacga cagaacacct gacgtgtatt tcttcgcaaa
     2581 tggcgtggca tcgatgagtt cccggacctc ttccggattc ccctgaagca ccgttgcccc
     2641 ttcccggtta cgctcccttc ccagcaggta atcaaccgga ccactgccac caccttttcc
     2701 cctggcatga aacttaacta tcatcccgcg ccccctgttc cctgaccgcc agacgcagcc
     2761 ggcgcagctc atccccgatg gccatcagtg cggccaccac ctgaacccgg tcaccggaag
     2821 accactgccc gctgttcacc ttcctcgctg tctggttaag gttattcccg atggcggcca
     2881 gctgacgcag taacggcggt gccagtgtcg gcagcttccc ggaacgggca accggctcac
     2941 ccaggcagac ccgccgcatc cataccgcca gttgtttacc ctcacagcgt tccagtaacc
     3001 gggcatgttc atcatcagta acccgtatcg tgagcatcct ctcgcgtttc atcggtatca
     3061 ttacccccat gaacagaacc cccccttaca cggaggcatc agtgaccaaa caggaaaaaa
     3121 ccgcccttaa catggcccgc ttcatcagag gccagacatt aacgctgctg gagaagctca
     3181 acgaactgga cgcggatgaa caggcagaca tctgtgaatc gcttcacgac cacgccgatg
     3241 agctttaccg cagttgcctc gcacgcttcg gggatgacgg tgaaaaccgc tgacacatgc
     3301 agctcccgga gacggtcaca gcttgtctgt gagcggatgc cgggagcaga caagcccgcc
     3361 agggcgcgtc aggccgttga cctttggggt gtcggggcga agccctgacc cagtcacgta
     3421 gcgatagcgg agtgtatact ggcttaacca ttcggcatca gtgcggattg tatgaaaagt
     3481 gcgccatgtc cggtgtgaaa tgccgcacag atgcgtaagg agaaaatgcc agttcaggcg
     3541 ctcttccgct tcctcgctca ctgactcgct acgctcggtc gttcggctgc ggcgagcgga
     3601 ctctcctttc tcaaaaacgc taaccctgtt atccacagaa cccggggata aaccaggaaa
     3661 gaacatgtgc gcaaaaaacg aaaccccggg aaaggccgcg ccggaggcgc tttttccata
     3721 ggctccgccc ccctgacgga cttcacaaaa cagacacttt ttcggtgcat ctgtgggagc
     3781 cttgcggctc aaccatgaaa tccgccagcg gtggcgaaac ccgacgtggc ttaaagatca
     3841 tcaccgtttc cggtgaatcg ctccctcctg cgcccccacg ttcccgccat atcgattacc
     3901 ggataccttt tccgcctttc tcccttacgg gacacgtggc gctttctcat agctcacgtc
     3961 ttctggtatc tcggggcgac ttaggcagtt cgctccgggc tgggctgtat gcaggaaccc
     4021 cccgttcagc ccgactgctg cgccttctcc ggtaactgtt ctcttgggtc caacccggaa
     4081 aagacaccac aaagcgccac tggcagcagc cattggtaaa agtcatgtgc gagatattta
     4141 gagagtactt gaagtggctg ccggagtgcg gctacactag aagaacaatt ttggtgactc
     4201 gtctcgcata agacagttac ctggttaagc agtctgcaag ctgacttaac cttcgatcaa
     4261 accgccctgc aaggcggttt tttcgtttac aggcagcaga ttacgcgcag aaaaaaagga
     4321 tctcaagagg atcctttgat ctttttgtta caaacgtctc tatttgactc ccctgagagc
     4381 gttttagcgc gcctctgacc cccttggtta cattccgaca ccagaaacgc tcccgttttt
     4441 tacgtgcatt tggcacggta tcgatggagg ccggggggca atcctgaaca gaatgttact
     4501 cctctgagta ttttctgtta agaaaatata cacttagcac agttacaata aatcctaccc
     4561 cctgtaagaa tgtgaattgt tcatccaaaa acaaccatga caaaaataat gcaactagcg
     4621 gaataaagta caacattatc cctgccaaat gaactgggag ccaacgcaag gagttcaagt
     4681 aaaaacaaaa agctaaaaaa tattgtaata ttccagatga aaaaacaata atcacggatt
     4741 ccaacggaag ataaattgat gatttagata taaaaataaa gagcgatgac agtataaggg
     4801 agaatgtcaa ctgtccgctc aataatgtga taggctcaaa cgatttaata aggcgagacg
     4861 atataacaac ataaaatgct gccgataaca caccggcaac aacaagacaa tatccaacaa
     4921 tattattcga tccattactg atgtctggca aggctaccaa aatactgcca acaattgcac
     4981 ctataaggaa caatataaaa tattgcgggg aattaatttt aactgagcaa ataagaacag
     5041 acaacaccaa tataaacact gattcaagtg aaaaaataat tgatgcgctt cctgctgaaa
     5101 taaaataaag tccgtagagt gtaaaagtat acgctaagaa tggttcaaaa acgcctgtcg
     5161 cataagcaag tatcgctttt gagtttaatg ggagtttttt tctttttata aaaagaacta
     5221 tccaagatag tattactgca ctacaaatct gccagaaaaa cacccctccg gcatctagtt
     5281 cttcaactcc ttttttgctc attacgatag ctgcccccca tgagaacgct gctaaaaaag
     5341 caaaaagcat tcctttaatc atattaatca tcctctttct cataaagggg tttgttttca
     5401 aatttccttg gttgaaagga gttaaaaaac atagatgcat catctacagg aataccaata
     5461 aactctccat aataaggatc atctatagga aactcttcta atgaaacata aaacaataca
     5521 ttccagttga agatcattgg atcactattt tctatttcat ggagcaatct ttcatcctta
     5581 gttaattctc ctggaattaa tacatcagta tgataaaaac cgctgtaata a
//
