LOCUS       NZ_CP092005             4593 bp    DNA     circular CON 03-JUN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Kentucky strain N14-1660
            plasmid pN14-1660-a, complete sequence.
ACCESSION   NZ_CP092005
VERSION     NZ_CP092005.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25644136
            Assembly: GCF_022936385.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Kentucky
  ORGANISM  Salmonella enterica subsp. enterica serovar Kentucky
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4593)
  AUTHORS   Biggel,M.
  TITLE     Genomic analyses of human S. enterica Kentucky from Switzerland
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4593)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-FEB-2022) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 60x, 80x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022936385.1-RS_2024_06_03
            Annotation Date                   :: 06/03/2024 03:21:22
            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)                     :: 4,729
            CDSs (total)                      :: 4,607
            Genes (coding)                    :: 4,491
            CDSs (with protein)               :: 4,491
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 116
            CDSs (without protein)            :: 116
            Pseudo Genes (ambiguous residues) :: 0 of 116
            Pseudo Genes (frameshifted)       :: 37 of 116
            Pseudo Genes (incomplete)         :: 86 of 116
            Pseudo Genes (internal stop)      :: 21 of 116
            Pseudo Genes (multiple problems)  :: 25 of 116
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP092005.1.
            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..4593
                     /organism="Salmonella enterica subsp. enterica serovar
                     Kentucky"
                     /mol_type="genomic DNA"
                     /strain="N14-1660"
                     /serovar="Kentucky"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:192955"
                     /plasmid="pN14-1660-a"
                     /geo_loc_name="Switzerland"
                     /collection_date="2014"
                     /collected_by="NENT, University of Zurich"
     gene            complement(join(4247..4593,1..493))
                     /locus_tag="MA620_RS23600"
                     /old_locus_tag="MA620_23595"
     CDS             complement(join(4247..4593,1..493))
                     /locus_tag="MA620_RS23600"
                     /old_locus_tag="MA620_23595"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001354646.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     gene            complement(685..834)
                     /locus_tag="MA620_RS23725"
     CDS             complement(685..834)
                     /locus_tag="MA620_RS23725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032194431.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPERHVKTPLAAAIGNRLEELVLK
                     LCAG"
                     /name="hypothetical protein"
     gene            complement(1504..1695)
                     /locus_tag="MA620_RS23605"
                     /old_locus_tag="MA620_23600"
     CDS             complement(1504..1695)
                     /locus_tag="MA620_RS23605"
                     /old_locus_tag="MA620_23600"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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_000165986.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1758..2081
                     /locus_tag="MA620_RS23610"
                     /old_locus_tag="MA620_23605"
     CDS             1758..2081
                     /locus_tag="MA620_RS23610"
                     /old_locus_tag="MA620_23605"
                     /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_001677263.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2290..>2724
                     /locus_tag="MA620_RS23615"
                     /old_locus_tag="MA620_23610"
                     /pseudo=""
     CDS             2290..>2724
                     /locus_tag="MA620_RS23615"
                     /old_locus_tag="MA620_23610"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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            2759..3319
                     /locus_tag="MA620_RS23620"
                     /old_locus_tag="MA620_23615"
     CDS             2759..3319
                     /locus_tag="MA620_RS23620"
                     /old_locus_tag="MA620_23615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /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_000067488.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            3326..3559
                     /locus_tag="MA620_RS23625"
                     /old_locus_tag="MA620_23620"
     CDS             3326..3559
                     /locus_tag="MA620_RS23625"
                     /old_locus_tag="MA620_23620"
                     /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_000137388.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          1332..1416
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(763..1321)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.761"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2072..3657
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tcaagcgaaa atctctcttt gcgaacgagt tcgcgtcatc attgaaaaga gatgatgtga
       61 tggctttgga tagaccttct gtgtttatct ctttgttgga tgggtagtaa attttattaa
      121 ttgctttcat tctctcaaat gatgaatata ggtcattatg ccaccttgtt gaaatcactc
      181 ctttagttat attctccttg ctaaaattaa gccctgtatc aaaaataaat gcagccatca
      241 gtgaatatga tatgtttttt attaactcag acttaaatgg ttccgctatg gagtagtaca
      301 gtgataaaat aactaaaaat aaaaggtatt gtcttacctt tcccgatgag tatatgtaaa
      361 ggcgatattt atttattgat agttttattt tgtatggaat gatctcattt ctgtcatatc
      421 ctcttcgtgg tggagcaaaa caaaagaaac atgcagctat taataaaaca aaaaagatga
      481 acagtgtaag caagttcggc tcctgtgtat gctcactatg catgattgtc ttgagatcta
      541 acgatcctga aggtagtctt gtccgtaaac gaaaaaaccg cccagcaagg cggcttttcg
      601 aaggttctca gagcagcaac tctttgaacc aaggtaactg gcttggagga gcacagccac
      661 caaatctgtc ctttcagttt agccttaacc ggcgcataac ttcaagacta actcctctaa
      721 acggttacca atggctgctg ccagtggcgt ttttacgtgt ctttccgggt tggactcaag
      781 acgatagtta ccggataagg cgcagcggtc gggctgaacg gggggttcgt gcacacagcc
      841 cagcttggag cgaacgacct acaccgggcc gagataccaa cagcgtgagc tatgagaaag
      901 cgccacgctt cccgaaggga gaaaggcgga caggtatccg gtaagcggca gggtcggaac
      961 aggagagcgc acgagggagc ttccaggggg aaacgcctgg tatctttata gtcctgtcgg
     1021 gtttcgccac ctctgacttg agcatctgtt tttgtgatgc tcgtcagggg ggcggagcct
     1081 atggaaaaac gccagcggcg cggccttctt cctgttcctg gccttttgct cacatgtttc
     1141 ttttggcgtt atcccctgat tctgtggata accgcatcac cgtctttgag tgagctgata
     1201 ccgctcgccg cagccgaacg accgagcgta gcgagtcagt gagcgaggaa gcggaagagc
     1261 gcctgatgcg gcattttctc cttacgcatc tgtgcggtat ttcacaccgc atatggtgca
     1321 cttttcttat aatccgcact gatgccacat agttaagcca gtatacactc cgctatcgct
     1381 acgtgactgg gtcagggctg cgccccgaca cccgctaaaa cccgctgacg cgccctgacg
     1441 ggcttgtctg ctcccggcat ccgctcacag gcaagctgtg aacgtctccg ggagctgcat
     1501 gtttcagttg ctttcaccgt catcgccgaa gcgtgcgagg caactacggt agagttcgtc
     1561 ggcgtggtcg tgaagtgatt cgcagatgtc tgcctgttcg tccgcgtcca gctcgttgag
     1621 tttttccagc agggtcagcg tctggcttct gataaagcgg gccatgttaa gggctgtttt
     1681 ttcctgtttg gtcatggtct taaggctcct taatagggga ttttttaggg ggaatgatac
     1741 cgatgaaacg cgagaagatg ctcacgatac gggttagcga tgaggagcac gcccggttac
     1801 tggaacgctg cgagggtaaa cgactggcag aatggatgcg gcgggtctgt ctgggggagc
     1861 cggttgcgcg cacaggaaaa ctgccgacac tatcgccgcc attgctgcgg catctggctg
     1921 ccatcgggaa caatctgaac cagacagccc ggaaggtgaa cagcggccac tggtcttcga
     1981 ttgaccgggt tcatgtggtg gccgctctga tggccatcga gggtgaattg cgccagttgc
     2041 ggcaggctgt cagggaacag gggggacggg atgatagtta aatttcatgc cagggggaaa
     2101 ggcggtggaa gtggcccggt cgattacctg ctggggcggg agcgtaaccg cgaaggcgca
     2161 acggtgctcc ggggtaaccc ggaagaaatc cgggaactca ttgatgccac gccattttcg
     2221 aagaaataca cgtcaggcgt tctgtcgttc gcggagaagg agttaccgcc gggtgaacgc
     2281 gaaagagtga tgacgagctt tgagcgtgtt cttatgcccg gtctcgaaaa agaccagtac
     2341 agcattctct gggtggaaca ccaggataag gggcggctcg aactgaattt tgtcattccg
     2401 aacatggaac tacagagcgg taagcgcctc cagccgtact acgaccgtgc ggacaggccg
     2461 aggataaatg cctggcagac gctggttaat catcattacg ggctgcgtga cccgaacgca
     2521 ccggagaaca gacggacgct tgtcacaccg aataatctgc caaaagcgaa acaggaggcc
     2581 gcagaagcga ttacacgggg tcttgaggcg ctttaccgtg ccggagcaat aaaaacgcgt
     2641 caggatgtca ctgaggcgct cacagcggca ggttttgagg tggtgaggac aaccagaagc
     2701 agtatcagta ttgccgaccc ggaggggggg cggaatctca ggctaaaggg ggcgctgtat
     2761 gagcaatctt ttacaaatgg gaacggactt cgagaagaaa ctgaaagagc gagccgcttc
     2821 taccgagaac atgctgaaca gcgagttcag gaagctagaa gagtctgtag acaaggcact
     2881 gagcttaaac aggcagaaaa tcagagacgc tatcagcgaa catacaacat ccgtgaaaca
     2941 gcaactggat acgctgagca ccaccgtgag cacgcagctc agcaccacag aggccgaact
     3001 gtcccggcag cagaaaaacc tgctctggca ggtgatcaaa gggcgggtac tgtttccggc
     3061 gctgaccgcg ctcagcgtca cgggcggcat tttcctgggg tgctgggggc tgattcagtg
     3121 gcaggaaagc aggattgcga aaaatatctt gaccatcaga gagcaggaaa acacgctggc
     3181 gaaactcgag gcaaaaacct ggggggtgac gttcgtcaat ggcgagaacg ggaaatttct
     3241 ggtgctgccg gacggggtga aaggggaaaa cacctggacg gtgggcgaca agaacgccgt
     3301 gaggctggtc agggagtaaa cgagtatgac ggaactggaa gggcatttgc tgaacgcctt
     3361 agagcatttg caacaggact atatgcggcg gctgaacgag tgggagagcg ccttcgcaga
     3421 attgcagaag atgcacgcgg ttacgcaaca gaacaacgcg atactgaacg agcgtgtcgt
     3481 gaacttgagt cagcaggtgc agctattagc cggacaagtc gaccgcttga gtcggttatt
     3541 tatcacgaac aacagataag ggatgaacag gagcgtcagg cgcaggagct tgcccggcgc
     3601 tggcatgaag agcaggaacc cgaagcgcgg atctggcgtg gcccgtcaat ggggatgtga
     3661 ccggggtacc ccctgaaatc gagccagttt gtggcacgcc ctacccggat ggcgccaatg
     3721 ttaatgtacg tacattagca ttaacaatat ccaaacctcc ccattttgcc ccgttcgacg
     3781 gctggaacgt gcgaaactga tcgtcattca gtttcgcgca taactatgca tgaggttaaa
     3841 atttaccagg cgcgatcgcg gcagtttttc gggtggtttg ttgctgtttt tacctgtctg
     3901 ctgccgtgat cgcgctgaac gcgtttaagc ggtacgcgca atgcgacgtt atggtaaata
     3961 cggagtattt taattgcggg cctttgttgt atatctctgt cgtttgtccc cggggggaag
     4021 cattactgct aacaagtccc gtgagaaaac tgcgcaatcg tattgcgcac catgaaccta
     4081 ttctcaaccg caatctggag gatgattttg ctacgataaa gagaattatc gcgtatcggt
     4141 gtcagcattc attggagtgg atgctgaaaa accaggtgtt actccctcta cttacactta
     4201 aacctctcta aaaatataag taagtactat cgagggctat catgaactat ggtgccctct
     4261 gagcatagct acccattact tcttctatgt cattgaataa ttcatttctt aactctaagt
     4321 attctagtaa ctccatttct aatgactctg tcgtgaactt aaatctagaa ggatctttga
     4381 ttgagtttac tagtcttgat aacgctctat atgttttgag tgaaggttgc attatagatg
     4441 gaaagtattt gaaaacctct tcatctctgt tgaaattaac taaaaacttg tagtcatcat
     4501 ttataaatct caagcataca gcgtcaagct tatcgccttt tcttattatt atttctttat
     4561 aggaaagata tttttcagaa gataagtccc aca
//
