LOCUS       NZ_CP135513             2511 bp    DNA     circular CON 07-OCT-2023
DEFINITION  Klebsiella pneumoniae strain isolateK plasmid pIsolateK_E, complete
            sequence.
ACCESSION   NZ_CP135513
VERSION     NZ_CP135513.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37529182
            Assembly: GCF_032343715.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 2511)
  AUTHORS   Lerminiaux,N., Fakharuddin,K., Mulvey,M.R. and Mataseje,L.
  TITLE     Do we still need Illumina sequencing data?: Evaluating Oxford
            Nanopore Technologies R10.4.1 flow cells and v14 library prep kits
            for Gram negative bacteria whole genome assemblies
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2511)
  AUTHORS   Lerminiaux,N., Fakharuddin,K., Mulvey,M.R. and Mataseje,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (25-SEP-2023) National Microbiology Lab, Public Health
            Agency of Canada, 1015 Arlington Street, Winnipeg R3E3R2, Canada
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 21-JUN-2023
            Assembly Method :: Trycycler v. v0.5.0; Flye v. v2.9.2; Raven v.
            v1.8.1; Miniasm/minipolish v. v0.3_r179
            Assembly Name                     :: isolateK
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 229X
            Sequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/07/2023 13:32:04
            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)                     :: 5,641
            CDSs (total)                      :: 5,515
            Genes (coding)                    :: 5,398
            CDSs (with protein)               :: 5,398
            Genes (RNA)                       :: 126
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 117
            CDSs (without protein)            :: 117
            Pseudo Genes (ambiguous residues) :: 0 of 117
            Pseudo Genes (frameshifted)       :: 42 of 117
            Pseudo Genes (incomplete)         :: 73 of 117
            Pseudo Genes (internal stop)      :: 20 of 117
            Pseudo Genes (multiple problems)  :: 15 of 117
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP135513.1.
            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..2511
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="isolateK"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pIsolateK_E"
                     /geo_loc_name="Canada: Ottawa"
                     /collection_date="2020"
     gene            1..144
                     /locus_tag="RRL08_RS28195"
                     /old_locus_tag="RRL08_28195"
     CDS             1..144
                     /locus_tag="RRL08_RS28195"
                     /old_locus_tag="RRL08_28195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001487656.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032610644.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHVKTPLAAATGKGYTRLLVQ
                     SS"
                     /name="hypothetical protein"
     gene            572..799
                     /locus_tag="RRL08_RS28200"
                     /old_locus_tag="RRL08_28200"
     CDS             572..799
                     /locus_tag="RRL08_RS28200"
                     /old_locus_tag="RRL08_28200"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010615788.1"
                     /GO_component="GO:0005886 - plasma membrane [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="WP_021243043.1"
                     /translation="MKKIFVSVFAAAVALSALTGCTRTSYAIHTNDGRTIVSDGKPKES
                     DSGLLGYTDANGVKQQINKTDVKEVSEIPH"
                     /name="YgdI/YgdR family lipoprotein"
     gene            1166..1351
                     /locus_tag="RRL08_RS28205"
                     /old_locus_tag="RRL08_28205"
     CDS             1166..1351
                     /locus_tag="RRL08_RS28205"
                     /old_locus_tag="RRL08_28205"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /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_032105038.1"
                     /translation="MTRQESAALNMAKFIRSQTLLLLERLEQMDLDEAAGCCEHLHDQA
                     EALYTMLNAQTGEEDA"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(1399..1478)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.67e-34"
     Typing          2..157
                     /name="rep_cluster_2406"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.957"
                     /coverage="100.0"
                     /evalue="6.749999999999999e-42"
     Typing          2110..2511
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.901"
                     /coverage="97.0"
                     /evalue="1.77e-127"
ORIGIN
        1 atgcacgaac cccccgttca gtccgactgc tgcgccttat ccggtaacta tcgtcttgag
       61 tccaacccgg aaagacacgt aaaaacgcca ctggcagcgg ccactggtaa ggggtataca
      121 agattactgg tgcagagttc ttgaagttga cgcctgactg cggctacact agaaggacaa
      181 atttggtggc agcggtcttg tacaccctgt taccacggtt cagaaacttg ccggtttgct
      241 gaaccttcga aaaaccacct tgccgggtgg ttttttcgtt tacagggcaa gagattacgc
      301 gcgaaaaaaa aggatctcaa gaagatcctt ttataaatta gacatccaac ctcacaaaga
      361 ggaatactta aatcatcttg gtatatgtat cggtcggatt acatcagata taagcccgca
      421 ctgccccctc cccgccagac accacacttt aaccataaca cctcgcacct aactcgatat
      481 gcagcccacc atcaagcctc ttttcacata aaaaatgacc tatagttaga tggttagtga
      541 ccaaaactga tatggataaa aggagctggc tttgaaaaag atttttgttt ccgtgttcgc
      601 agcggcagtt gcgctttcag ccctcaccgg ctgcacgcgc acaagctatg ccatacacac
      661 caatgacggg cgcactattg tcagcgacgg caaacctaaa gaatcagact caggcctgct
      721 tggctataca gacgcgaatg gtgtcaaaca gcagatcaat aaaaccgacg ttaaagaagt
      781 ctccgaaatt ccgcactgag catcttctcc gaaaaaggcc gctaatgtgg cctttttctt
      841 tacctggggt tctccgccaa aatcccagca aattgcacca ccaaagctaa aagcttccag
      901 ggttgtctaa aaagcacaag acattagagg aagtgcggtt tttataatca agccccccaa
      961 gaatttacca taacatccgt tgcccgcacc gcctcagacg cactcagcgc ttttctgacg
     1021 gaaccatgac caaaaaccac aacaaaccac cccggaaccc gccagaaacg ctcctgttaa
     1081 attttaacgg catgcatgac tatgcaccag aatgacggca tgctcttttc acgcaaaaat
     1141 catcaccaga cggggaaaat caccagtgac cagacaggaa tccgccgccc tcaacatggc
     1201 caaatttatc cgctcacaga cactcctcct cctcgagcgg ctcgaacaga tggatctgga
     1261 tgaggctgcc ggctgctgtg agcacctgca cgatcaggcc gaagcacttt acaccatgct
     1321 gaacgcacag acaggcgagg aagatgcgtg aaaatcggtg aacgggtgcg caattcagtg
     1381 cgcggccgtg aggcgatggc ggggtgtcgg ggcgcagccc tgacctgggt atttgtgatg
     1441 ccggcgcgtg cgcggtatta caaatacaca tcctgtcctg agtggttccc cgggaacagg
     1501 caaaaaaaaa ccggggagct gcccggaagg taagtcaagt tagattagat tactttcact
     1561 catccataac agcatcatgc aacgacgacc atcgtccgtg acggccgcct cgtttaagta
     1621 tggacagaaa tacagaaaat gctcaggacg aaatgtaatg aatgcgaacg gattcaagaa
     1681 attcgagcat gaccgtcctt acggccggtt cagtttcaga caaaatctgc cggtatgcat
     1741 ccagcatcat ggctccggca tccccccggc acgccggagc cagcccgaaa caacagacac
     1801 aaacaggtgt cgctcatcat caagagtcat caggtctccg gaagaaaaac caaacatggc
     1861 ttacctcctg ttaacggcaa cgcagaagaa aggtttacag ggtagcgggc aggaaaataa
     1921 aaaaattgca gtcagcccgg aacggctgct gaaccggtac aggcgggttc cgggcgcagc
     1981 gccggaccag tcactcagcg ctagcggagt gtatactggc taaaatgtaa caccgcagta
     2041 acgcatagca taactgctac ataagacagg cgcagaaaat gaaagaaaac gcgtcaggag
     2101 aaaatgtaat acaggatata ttccgcttcc tcgctcactc actcgctgcg ctcggtcgtt
     2161 cggctgcggc gagcggtacg ggcttacggg tggagcagaa atttcctggg ggatgccagc
     2221 taggggatgc caggaagata cttagcgaag aaggcataag gccgcgccga agccgttttt
     2281 ccataggctc cgcccccctg acgagcatca cgaaatctga cgctcaaatc agtggtggcg
     2341 aaacccgatg cggcttaaag ataccaggcg tttccccctg atggctccct cgtgctcccc
     2401 cgcattcctg cctttcggtt taccggtgtc actccgctgt tatggccgcg gtttctcatt
     2461 ccacgcctga cactcggttc cgggaaggca gttcgctcca ggatggactg t
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