LOCUS       NZ_CP099263             4683 bp    DNA     circular CON 15-APR-2024
DEFINITION  Klebsiella aerogenes strain RHB08-SO-C04 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP099263
VERSION     NZ_CP099263.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15488518
            Assembly: GCF_029717585.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella aerogenes
  ORGANISM  Klebsiella aerogenes
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4683)
  AUTHORS   Matlock,W.
  TITLE     Plasmid overlap and evolution between Enterobacterales isolates from
            bloodstream infections and non-human compartments
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4683)
  AUTHORS   Matlock,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-JUN-2022) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.4
            Assembly Name                     :: RHB08-SO-C04
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 108x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029717585.1-RS_2024_04_14
            Annotation Date                   :: 04/14/2024 22:16:58
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,399
            CDSs (total)                      :: 5,277
            Genes (coding)                    :: 5,147
            CDSs (with protein)               :: 5,147
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 130
            CDSs (without protein)            :: 130
            Pseudo Genes (ambiguous residues) :: 0 of 130
            Pseudo Genes (frameshifted)       :: 51 of 130
            Pseudo Genes (incomplete)         :: 86 of 130
            Pseudo Genes (internal stop)      :: 22 of 130
            Pseudo Genes (multiple problems)  :: 25 of 130
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP099263.1.
            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..4683
                     /organism="Klebsiella aerogenes"
                     /mol_type="genomic DNA"
                     /strain="RHB08-SO-C04"
                     /isolation_source="Pooled soil sample collected from floor
                     of cattle farm"
                     /db_xref="taxon:548"
                     /plasmid="unnamed3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            20..136
                     /locus_tag="NFJ54_RS26915"
                     /old_locus_tag="NFJ54_26875"
     CDS             20..136
                     /locus_tag="NFJ54_RS26915"
                     /old_locus_tag="NFJ54_26875"
                     /inference="COORDINATES: protein motif:HMM:NF033853.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="small membrane protein"
                     /protein_id="WP_016947047.1"
                     /translation="MDWISLAIAIALLVVAVYSGISYFREKKTISRTFRRRR"
                     /name="small membrane protein"
     gene            1287..1508
                     /locus_tag="NFJ54_RS26920"
                     /old_locus_tag="NFJ54_26880"
     CDS             1287..1508
                     /locus_tag="NFJ54_RS26920"
                     /old_locus_tag="NFJ54_26880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016162091.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016947202.1"
                     /translation="MQFDTAAELAALQAQTRRIRQVRYRPSRLDRYTGELLSLYQAGAS
                     AAELQRWLRARRIKVVLSTVTRWLEKNG"
                     /name="hypothetical protein"
     gene            1501..2388
                     /locus_tag="NFJ54_RS26925"
                     /old_locus_tag="NFJ54_26885"
     CDS             1501..2388
                     /locus_tag="NFJ54_RS26925"
                     /old_locus_tag="NFJ54_26885"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016947203.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific integrase"
                     /protein_id="WP_167812123.1"
                     /translation="MAKFASAARQAAGVIKPLQGNILRSVGTVRNYEQGLTRVAEWMKA
                     NRINHGDLRTLTPAQAITYLEQRGEQVGQKTLDMERQAIQAMMIHVTQTLPAGEHLPVV
                     KSEQAQILSSRAYSPDQVALIAAAQQPANALATAIALAAGLRAHELLTLAPRQERAPDP
                     RPAADSKFAGREGVIYTVQGKGGLVREVLLPSRLAERLEHVRLASPVRVTDRGVFYQSQ
                     YAIGGGQRWSNAFSAASMRTLGWSRGAHGVRHSYAQQRMQELQKLGLVRDMALRTVSQE
                     MGHFRPEITETYLR"
                     /name="site-specific integrase"
     gene            2385..3083
                     /locus_tag="NFJ54_RS26930"
                     /old_locus_tag="NFJ54_26890"
     CDS             2385..3083
                     /locus_tag="NFJ54_RS26930"
                     /old_locus_tag="NFJ54_26890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016947204.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_172717406.1"
                     /translation="MTRTFILLCTGVFAIAYALYELNHYGVYYPDVSNPEAFTGWKAVT
                     ELGPAILATGIAATAFSLWLFILFFRGSESRRIQHEISGYQQALREAEEAHRARQNTLI
                     QNHNLETAALRSHYIGAEDVLREAFAQKESLLLQAVQNARKEARKELEEQREALNQRES
                     ILQKKELALETTLEKARKYVAGERHNTELARLEAEKAEERRRNACATAERRRRKLEKLQ
                     ATGGTAGQKH"
                     /name="hypothetical protein"
     gene            complement(3090..3488)
                     /locus_tag="NFJ54_RS26935"
                     /old_locus_tag="NFJ54_26895"
     CDS             complement(3090..3488)
                     /locus_tag="NFJ54_RS26935"
                     /old_locus_tag="NFJ54_26895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016162088.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_279281587.1"
                     /translation="MATVSISEAARLTGKSRTTLHRLIKAGELSTCRGERNAKMLDTSE
                     LLRVFGAFASVSVEQEEEQVSGQRDTVTSDHNEQVIHTLKQEIEHLNTLLASKDSHIDS
                     LKQAMLLLENREEKRQNTTRPWWRFWQS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3488..3679)
                     /locus_tag="NFJ54_RS26940"
                     /old_locus_tag="NFJ54_26900"
     CDS             complement(3488..3679)
                     /locus_tag="NFJ54_RS26940"
                     /old_locus_tag="NFJ54_26900"
                     /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="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_016947206.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSLRLDALQEGD"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          3728..4199
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.125"
                     /coverage="91.0"
                     /evalue="2.16e-156"
ORIGIN
        1 ttaaattaat caggcattta tggactggat ttcacttgct atcgccattg ctctacttgt
       61 tgtagctgtc tactcaggaa tctcatactt cagagaaaaa aaaacaatca gtcgtacatt
      121 taggcgtagg cgatagcgcc ctatttacca taatcccttc ttacgcgcac cgcgaaaacg
      181 gcctcagggc gtttctggtg gttaacgggc aaaaggtggt ggcaagtaca ccgaaaaccg
      241 ccagaaacgc gcctgattta ttttacgcat atgcatggct attcacacca ctgcatagta
      301 ggtgatttcg gtcgagaaaa gggccccgga cgttaaaagc ataaaagaac gggccatcca
      361 ggcccgtcaa atgaggacaa cgctgtaaaa ggaccgtcgc acctggtgcg gtgccggcga
      421 taagaaaaag gtagctcata tcagcccctc accggagaaa aatatttccg ggccagtgca
      481 cagacatcag ccgtccataa atgcgatttt aatcacaggg aagcgccccc cccttattta
      541 tcgcggccag agactgcttt ctggccgcct caaccgccac acgctgtgtt cccgttaact
      601 cgtgcagata acgcaggaac ctcctgtttc cctctgcatg cgcctcctca ctgccctgtg
      661 cgtggtattc cactatcgcg ttcaccacgg actcaccgac ctgcatcgtc tgacctcatc
      721 tgcactttca tcacaccgtt tcagatcccg cctcctcgcc atgatgtgaa acggtgaccg
      781 ggcaggcaaa ttttttgtct gtccggtcac cgttggcggg gtccggggcg gtcagtcccg
      841 gtgtttttta ttccgccaaa tcagcacctg cgactcccgc tatgtacgac gcataaatgc
      901 gcctgtacat agcgggtgtc gctattgagc ggagtcaggc gcaacattta aaaaacaaca
      961 ttcacacgca cgaaaaacct ggctagtatt tagtcaaacc atgaggaggc gcactctgac
     1021 gcgcacctgc ctaccggcag caggtaaaac agccgggtcc ctccggggat actgtaccgg
     1081 gcagcccaat ccgagaatcc tgagaaaaca gctaaaatct gcgagaccgg caatcaggtc
     1141 aggccattcc ctggcttaag ggacgttatc agccgcgagc agtccgggct gaaccacgag
     1201 aggttcgaac gagggcgatc ggcgcatgcc gcagtgaccg ttaacgtaac ggccactgat
     1261 gttcttacac ccaatccgga gcacagatgc aatttgatac cgctgccgaa ctggccgccc
     1321 tgcaggcgca gacccgccgt atccgccagg tccgctaccg tccctcccgc cttgaccgct
     1381 ataccggcga actgctgagc ctgtaccagg ccggggccag tgcagcggag ctgcaacgct
     1441 ggctccgggc ccggcgaatc aaggtggtgt tgtccacggt tacccgctgg ctggaaaaaa
     1501 atggctaaat tcgccagcgc tgcccgccag gcggctggcg tgataaaacc actccaggga
     1561 aatattctgc gctctgtcgg cacagtccgg aattacgagc agggactgac ccgcgtcgca
     1621 gagtggatga aagccaaccg gattaatcac ggcgatttac gcacactgac accggcgcag
     1681 gccatcacct acctggagca gcgcggggag caggttggcc agaaaacgct cgatatggaa
     1741 cgccaggcca tccaggccat gatgatccac gtgacgcaga ccctccctgc cggcgaacac
     1801 ctgccggtgg tgaaatcgga gcaggcacag atcctgagca gccgggccta cagcccggac
     1861 caggtagccc tgattgccgc agcacaacag cccgccaacg ctctggccac cgcgattgcc
     1921 ctggccgccg gattacgcgc ccatgaactg ctgaccctcg cgccccgcca ggagcgagca
     1981 ccggaccccc gtccggcagc ggacagtaaa tttgccggtc gggagggtgt gatttacacc
     2041 gttcagggca aaggcggcct ggtcagggaa gttctgctgc cgtcacgcct ggctgaacgt
     2101 ctcgagcatg tcaggctggc cagcccggtc cgggtgaccg atcgcggcgt gttttaccag
     2161 agtcagtacg ccattggcgg aggccagcgc tggtcaaacg ccttcagtgc cgcctccatg
     2221 cgtaccctgg gctggtcacg gggggcacac ggcgtgcgtc acagctacgc ccagcaacgg
     2281 atgcaggagc tgcaaaaact cggtctggtt cgtgatatgg ccctgcgcac cgtcagccag
     2341 gaaatgggcc attttcgtcc ggaaatcacg gagacatacc tgcgatgaca agaacattta
     2401 ttttattgtg taccggtgtt ttcgccatcg cgtacgccct gtatgagctg aatcactatg
     2461 gcgtttacta tccggacgtc agcaatcctg aggcgtttac tggctggaag gcggtcaccg
     2521 aactcggtcc cgctatcctg gcaacgggga tcgcagccac agcgttctcg ctgtggctgt
     2581 tcattttgtt tttcagaggc tcagagtccc gccggataca gcacgagata agcggatatc
     2641 agcaggcact gagggaggca gaagaggctc acagagccag acaaaatacc cttattcaga
     2701 atcacaacct ggagacagcg gccctgcgaa gccactacat tggtgctgag gatgtactgc
     2761 gggaagcgtt tgcgcaaaaa gaaagcctct tgcttcaggc ggtgcagaat gcccggaaag
     2821 aagccagaaa ggagctggaa gaacagaggg aggcactgaa tcagcgcgaa tccatcctgc
     2881 agaaaaagga gctggcgctg gaaacaaccc tggagaaggc ccggaaatat gtggccgggg
     2941 agcggcataa caccgagctg gcccgtctgg aagcagagaa agcagaggaa agacggagaa
     3001 atgcctgcgc gacggcggaa cggcgcagac ggaaactgga aaaactccag gccactggcg
     3061 gaacagcagg gcaaaaacac tgaggcattt caggactgcc agaaacgcca ccagggccgg
     3121 gtcgtgttct gccgcttctc ttcccggttc tccagcaaca acatcgcctg tttcagactg
     3181 tcgatatgtg aatcttttga ggcaagaagt gtgttcaggt gttcaatttc ctgtttcaga
     3241 gtatgaatga cctgttcatt atggtcagaa gtgactgtgt cacgctgtcc actgacctgt
     3301 tcttcctcct gttcaacgga tacggacgca aaggcaccaa acacccgcaa aagctctgaa
     3361 gtatcgagca ttttcgcatt ccgttcaccc cgacaggtgg acagctcacc ggctttaatt
     3421 aacctgtgca gggttgtcct gctcttaccc gtcaggcgtg cagcctcact gatcgacact
     3481 gtcgccatca gtcaccctcc tgtagtgcat ccagtctgag ggacagtgta cggaaaagat
     3541 gctccgcatc atcgtggagt ttctcacaaa ggtcagcctc cgcatcgaga tcaagctcgt
     3601 taagcttctc cagcaggagc agggactgat tctggatgaa tttagccatg ttcagggcag
     3661 ttttctgttg tttcgtcata aggggcctca gggcgtcagt gctcagtgta aaaccggtct
     3721 cttttccgct tcctcgctca ctcagtcgct acgctcctgc cgttcggctg cggcgagcgg
     3781 acgggacaca cagaagagtc atcgctatca ccaggaagag aagagcctgt ggaaaaagcc
     3841 acggcgttgc cgtttttcca taggctccgc ccccctgaca agcatcacag aaacggacgc
     3901 tcaaatcagc ggtggcgaaa cccgacagga cttaaagata ccaggcgttt ccccctggtg
     3961 gctccctcgt gcgctctcct gttcctgcct ttcggtttac cggtgtcatt ccgctgttat
     4021 ggccgcgttt atctcattcc acgcctgaca ctcagttccg ggtaggcagt tcgctccaag
     4081 ctggactgta tgcacgaacc ccccgttcag tccgactacc acgctctttt cggtaactat
     4141 cgtcttgagt ccaacccgaa aaggcacgac aaatcgccat tggcggtagc cactggtaaa
     4201 ggggtgtaca agagataact ggtacagagt tcttgaagtt gaagcctaac tacggctaaa
     4261 ctggaaggac gtatttggtg gcagcggtct tgtacaccct gttaccacgg ttcagaagtt
     4321 ccccaacttg ctgaaccttc gaaaaaccgc cctgcaaggc ggttttttcg tttacagagc
     4381 aagagattac gacgagactg aatgaatctc aagatttcat ttagcctgcc acccgatcat
     4441 tcaaagtttt ggcgtagttc tgacccgctc cccgtgattt gttacatacc caccacaggg
     4501 cattagtttt ttatattttt tttgatgata tgtacaaaat cagtggttag gaataatctt
     4561 agaaacctta acaaacacat acaaaaacag cggttatgtt tcatctcacc acaataagta
     4621 acgacagtat catgctaaaa aaagatgata ttatctttat gaaatcataa caggctgttt
     4681 tta
//
