LOCUS       NZ_CP092011             5728 bp    DNA     circular CON 03-JUN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Kentucky strain N12-0931
            plasmid pN12-0931-b, complete sequence.
ACCESSION   NZ_CP092011
VERSION     NZ_CP092011.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25644148
            Assembly: GCF_022936425.1
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 5728)
  AUTHORS   Biggel,M.
  TITLE     Genomic analyses of human S. enterica Kentucky from Switzerland
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5728)
  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                   :: 50x, 85x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022936425.1-RS_2024_06_03
            Annotation Date                   :: 06/03/2024 03:37:59
            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)                     :: 4,788
            CDSs (total)                      :: 4,669
            Genes (coding)                    :: 4,548
            CDSs (with protein)               :: 4,548
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 82
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 121
            CDSs (without protein)            :: 121
            Pseudo Genes (ambiguous residues) :: 0 of 121
            Pseudo Genes (frameshifted)       :: 38 of 121
            Pseudo Genes (incomplete)         :: 91 of 121
            Pseudo Genes (internal stop)      :: 21 of 121
            Pseudo Genes (multiple problems)  :: 26 of 121
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP092011.1.
            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..5728
                     /organism="Salmonella enterica subsp. enterica serovar
                     Kentucky"
                     /mol_type="genomic DNA"
                     /strain="N12-0931"
                     /serovar="Kentucky"
                     /isolation_source="inguinal swab"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:192955"
                     /plasmid="pN12-0931-b"
                     /geo_loc_name="Switzerland"
                     /collection_date="2012"
                     /collected_by="NENT, University of Zurich"
     gene            join(5598..5728,1..316)
                     /locus_tag="MA811_RS23895"
                     /old_locus_tag="MA811_23890"
     CDS             join(5598..5728,1..316)
                     /locus_tag="MA811_RS23895"
                     /old_locus_tag="MA811_23890"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000184721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_079822818.1"
                     /translation="MTNREEWLSAKIAYINGLKSPSEQQRLLVLLAEKKNRTTTDEKTL
                     SALIRAEKTAEKAAAAKARVTAIIAAERKAAARAERKARDHELYKAAGLMIVAGLVDSK
                     TGKPKFSAAELVGALAGIAELPRNHPKWQEWERRGKKLLTKDSA"
                     /name="conjugal transfer protein TraD"
     gene            complement(523..1446)
                     /locus_tag="MA811_RS23900"
                     /old_locus_tag="MA811_23895"
     CDS             complement(523..1446)
                     /locus_tag="MA811_RS23900"
                     /old_locus_tag="MA811_23895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016237866.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_062859337.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLSASARR
                     SIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSPAE
                     CRAIGKSIAKYTYRKFSPEGFSAVQAARGRKGGNANSSENQAIKGQKSKRVAVATSART
                     LKPWVTLGISRATYYRKLKCDPDLAK"
                     /name="replication initiation protein"
     gene            2007..2957
                     /locus_tag="MA811_RS23905"
                     /old_locus_tag="MA811_23900"
     CDS             2007..2957
                     /locus_tag="MA811_RS23905"
                     /old_locus_tag="MA811_23900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000997639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000997639.1"
                     /translation="MNDFINECISAPRINGMEEFFSSTASGEKHKPFRLVEIDERLFHS
                     YDYIKFGKNLTKNSGPFVNHYFCSIPYSKEEECRLGTTVIKYATTLNKKLNAWCLGMAE
                     GAMARTISELSKGNIQTLTTSPTKENEHAFFNYGSSENAYFICTPFFLLEEKLKKSNLN
                     QFNQGFDIIIEDTTFQMYSPNRSGQINHVKRLLNNDGIFIFTEKHSSEHDEYQKREIQK
                     DYSFKQRYFSKDEINTKKEIVLNTMNLNEVSVDDMISAIKQHFKYASIYWNSGNFYSIA
                     ASNSLKHISTFINLLPKAAIPMEYVYEKLPRNISW"
                     /name="hypothetical protein"
     gene            2964..3536
                     /locus_tag="MA811_RS23910"
                     /old_locus_tag="MA811_23905"
     CDS             2964..3536
                     /locus_tag="MA811_RS23910"
                     /old_locus_tag="MA811_23905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001681717.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="LysE family translocator"
                     /protein_id="WP_001681717.1"
                     /translation="MEYSTLFSFAIVTLSQTISIGPGVALVINNAFSQGLKSSIKTSIY
                     IRAGEAIVMVISLFTLSSTSSIEQHFYIIKILGGSYLIYIGVMGLINKKNKKSKVQKPL
                     LIPLLNPKAYLFFAALIPAFIDDNTNIALNFFILGVLFIFISFLTDIIYIAISLTIRDK
                     LTPSFSRYISICSSIFILGTGIYFILT"
                     /name="LysE family translocator"
     gene            complement(3594..4310)
                     /locus_tag="MA811_RS23915"
                     /old_locus_tag="MA811_23910"
     CDS             complement(3594..4310)
                     /locus_tag="MA811_RS23915"
                     /old_locus_tag="MA811_23910"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016235968.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001175446.1"
                     /translation="MQLDEHSRKIAALVAYNEKQIKEINRIITLLNERVNDLNTFTDTL
                     EREGKVVSGISYSLRDSVSHVDFYLNKGMEEVSCKLQKSVSDTLTSLLREKLSFTLNDV
                     RQEWTDFEEQTSKEIKESLKQTTRDAEVATGIIRKTMEKYTVTRIVEKVLVLLVLFLLL
                     MIAPSFYAEYLKMNIGSLMEEQKKHESMLKEWKEKAPLAEFSKCGEYRDVCVLVDDKSG
                     YYSNEQTPNKKYAILK"
                     /name="hypothetical protein"
     gene            complement(4332..5426)
                     /locus_tag="MA811_RS23920"
                     /old_locus_tag="MA811_23915"
     CDS             complement(4332..5426)
                     /locus_tag="MA811_RS23920"
                     /old_locus_tag="MA811_23915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016230929.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_000179381.1"
                     /translation="MASYHCTVKTGAKGVALKHADYISRSGEYKNYKSREDLEFSSSGN
                     MPSWAKKNPAELWKAADEFERKNGTAYREIEIALPRELTREQRIELVEDFVQKELGDRH
                     AYQYAIHNPPGAIDGKEQPHAHIMFCERINDGIERDPQQFFKRANSKSPERGGAKKARF
                     GETQQERKSALVALRSHWADVQNEHLARHGHQSRVDHRSLKEQGIKRTPEVHLGPVRVA
                     VMNADQVCAILAWRNAEREKLEAEKERDSIIDLKTTLKEALAERDNMPPTLDELGAELK
                     AFVESSFDELNEVMQLNSLIDGALDTMMKQFQVEEERKLQQERLIQAARDEAEKQRELE
                     RERVRRRAYSSPAPSRSRDYGMSR"
                     /name="MobA/MobL family protein"
     Typing          complement(747..1209)
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.745"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          complement(4336..5426)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.055"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gttatccgca ctgatacgag cagaaaaaac cgcagagaaa gcagccgcag caaaagccag
       61 ggtaacggca atcatagcgg cagaacggaa ggcagccgca agggcggaac gaaaggcgcg
      121 ggatcatgaa ctctacaagg ccgcaggcct catgattgtg gcaggactgg tggacagcaa
      181 aaccggaaaa ccaaagttta gtgctgccga actggtaggc gcactcgcag gaatcgcaga
      241 gctaccgcgc aaccatccaa aatggcagga atgggaaaga cgcgggaaga agctactaac
      301 caaagacagt gcgtaagtgc cttcgttctc gttcccgttc cctggtgctt cctcgctcat
      361 tcgctcgcta cgctcggtca ttgagactgc ggcgagcaca accaccactc acacacagac
      421 gctaaaacca ttgccaaacg aaacacggga aatcacccca aacctacccg ctcaaaaaaa
      481 cgcctacagg cgctgttatc tgataaggct tgttatctgg tctcattttg cgagatctgg
      541 atcacatttt agttttcgat agtatgtggc acgactgatc cctaacgtca cccacggctt
      601 cagagttcgt gccgatgtgg caacggctac acgctttgat ttctgacctt taatagcctg
      661 attttctgat gaatttgcat taccgccctt acgacctcga gcagcctgta ccgcggaaaa
      721 gccttcagga gagaatttgc ggtaggtgta tttcgcaata ctcttgccaa tagcccgaca
      781 ttcagccgga gaaagcggaa cgggaagcga tgcgttgtac atttcgacac gctgaatcac
      841 ggcatcaagc cactgtgaga atgctggcca gccctgacga atcgccctgt aagcccattt
      901 gcgcgtcatt tcgaacaggt ggcagtttcg ccccatcccg taatgtttat cgatgctacg
      961 acgcgctgag gcgctcaaat aatcagccag ttcatcgagg gtataggctt cctcgcgcca
     1021 ctccatcacc tgccattcca ggtggaacgg atttttgcaa atcagtccgc tgtagttcac
     1081 atcagcacaa agtttctcac acagcgaacg ttcaaccgct gcggcatatt tcagcgcctt
     1141 aaccgacgca tcaggcgcgg ttctcacggc gatattgagt gcatagagca ggtgagcgtg
     1201 tccgttcaca ggatttttaa cggtgatgtt cggcgcgggg gcgttccggt cgctccagtc
     1261 aatcgctgcc ccctcgcggt caacgtcaaa aaccagccag aactgcgcat gaggctggtt
     1321 ctgctggatg taccgcgcaa gaagcgcacg ccctttgccg gagatgcgaa ggccgaaagc
     1381 gagatcatct gtgtgatagg ggcggtgagg taaattttct tcgaagtatt gaagcgcggc
     1441 gctcatgtgt tacgattcct tccaggttat cgaccgacct cgcccctgta ttctcgtgac
     1501 aatcttggcg gagaggcacg aatttcaggg gcgtttgttt ttcagtcgct tacactaccc
     1561 ccaacgacaa aacctgtcga gtcttcccgc aaacccgatc catttaccat aactcctgtt
     1621 gtacgtaccc tctaaaacgc tctcaatcgc tttctgacgc aaaaaactca aaaagacaag
     1681 aaaacactag ggtaaaccat aaaaacgcgt cagaatcgtt tttatgggcc tgcataacta
     1741 tgcacaaaag cgattcatga tcggtttccc cccttcagaa gcgcgaacgg gtcaaaacag
     1801 caaactttct catccaaaaa gccagctaaa cggaacgaac ccgtatgcaa acaaatttcc
     1861 aaacatatac agtctggaca acgaaatatc gacaatataa aacatcaatc ataatcgtgt
     1921 ttatggcgtg taaaaaaggt tatctgataa ttagcattaa atagtcataa caacaaatgc
     1981 aaaaactcag accagaggat agaaaaatga atgactttat aaatgaatgt atatccgctc
     2041 cgagaataaa tggcatggaa gaatttttct catcaactgc atcaggggaa aaacacaaac
     2101 cttttagact agtagaaata gatgagcggc tttttcattc ttatgattac attaagtttg
     2161 gcaaaaacct cacaaaaaac agcggccctt tcgttaatca ttatttttgc agcataccat
     2221 acagcaagga agaagaatgc agattaggaa caacagtaat aaaatacgca acaacactaa
     2281 ataaaaaatt aaacgcatgg tgtcttggta tggctgaggg agcaatggca agaaccattt
     2341 cagaattatc aaaaggaaac atacaaacat taacaaccag tccaacaaaa gaaaatgaac
     2401 atgcattttt taattatggc tcaagtgaaa atgcttattt tatttgcact ccttttttcc
     2461 tgttggaaga aaaactgaaa aaatcaaacc ttaaccaatt taatcaagga ttcgatatta
     2521 taatagaaga taccacattt caaatgtact caccaaacag atctggtcaa ataaaccacg
     2581 taaaaagact attaaataat gatggtattt tcatatttac agaaaaacat agctcagaac
     2641 atgatgaata tcaaaaaaga gaaatccaaa aagattactc attcaaacaa aggtatttct
     2701 cgaaagatga gattaacaca aaaaaagaaa tcgtactcaa cacaatgaat ttaaatgaag
     2761 ttagtgttga tgatatgatt tccgcaatta aacaacattt taaatacgca tcaatatatt
     2821 ggaatagcgg aaatttttac tcaatcgccg ccagcaattc actaaagcac atatccacat
     2881 ttataaattt attaccgaaa gccgcaattc ctatggagta tgtatatgaa aagctcccgc
     2941 gaaatatatc atggtaagta aatatggaat attcaacatt attttcattt gctatcgtaa
     3001 ctttatctca aactatatca ataggacctg gtgttgcatt ggttataaac aacgcctttt
     3061 cacaaggact taaatcatca ataaaaacaa gtatatacat aagagctggc gaagcaatcg
     3121 tcatggtaat atctcttttc acgttatctt caacatccag catagaacaa cacttttaca
     3181 ttataaagat cttaggtgga agctatttaa tatacatagg ggtaatgggt ttaattaata
     3241 aaaaaaacaa aaaaagcaaa gtacaaaaac ctttacttat accattatta aacccaaagg
     3301 cgtatttatt ctttgcggca ttaataccag catttataga tgataataca aatatcgcat
     3361 taaatttctt tatattgggt gttttgttta tatttatatc attcctgaca gatattattt
     3421 acatagctat tagcttgacg ataagggata aattaactcc gtcattctca aggtacataa
     3481 gtatatgtag ctccattttt atattaggta caggtattta ttttatcttg acgtgaaacg
     3541 ccgtttttat actcatacag ccttagtcat aagacggcat gagttactta acactatttc
     3601 agtatggcat attttttatt tggggtttgt tcattggaat aatatccgct tttatcatca
     3661 actaacacgc atacgtccct atactctcca cacttagaga actctgccaa tggtgctttt
     3721 tccttccact cttttaacat agattcatgt tttttctgtt cttccattag agaaccgata
     3781 ttcattttga gatattcagc ataaaaacta ggagcaatca ttaacaataa aaataataca
     3841 agcaacacaa gtaccttttc gactatcctt gttactgtat acttctccat tgtttttcta
     3901 attatacctg tcgcaacttc agcatctctg gtcgtctgct ttaatgattc ctttatctct
     3961 ttacttgttt gctcttcaaa atcagtccac tcttgcctta catcattaag tgtgaaagat
     4021 aatttttcac ggagtaatga tgttagtgtg tctgagacag atttctgtaa tttacaggat
     4081 acttcttcca ttcctttatt aagataaaaa tcaacatgag acacactatc cctcaaggaa
     4141 taagaaattc cagatacaac tttaccttca cgttcaagag tatctgtaaa ggtatttaag
     4201 tcattcactc tttcattaag cagagtaatt atcctgttta tttcttttat ttgcttttca
     4261 ttatacgcaa caagggcagc aatttttctt gaatgttcat ccaattgcat aaaataaaaa
     4321 acctccagtg cttaacggct cataccataa tcgcgtgaac gtgatggtgc tggtgaagaa
     4381 tacgcacgcc ggcgcactct ttccctctcc agctctcttt gcttttcggc ttcatctcgc
     4441 gcagcctgaa ttagtcgttc ctgttgcaac ttccgctcct cttccacctg gaattgcttc
     4501 atcattgtgt ccagcgcacc gtcaatcaat gaattaagct gcattacctc attgagttca
     4561 tcaaacgagc tttcaacaaa cgctttcaat tctgccccaa gctcatccag ggttggtggc
     4621 atgttatccc gttcagctaa cgcttccttc aaggtcgttt taaggtcaat gatgctgtcc
     4681 cgttccttct cggcctccag cttctcccgt tccgcatttc tccatgccag aattgcacaa
     4741 acctgatcag cgttcataac agcaacacga acgggaccaa gatgcacctc cggcgtacgc
     4801 ttgataccct gttctttcag cgaacgatga tcaacgcgcg actggtggcc gtgtcgcgca
     4861 aggtgttcat tctgcacatc agcccagtga gagcgtagcg caaccagggc tgattttcgc
     4921 tcttgttgtg tctcgccaaa gcgtgccttt tttgcgcctc cccgctctgg tgatttgctg
     4981 ttggcacgtt taaaaaactg ctgcggatcg cgttcaatac catcattaat ccgttcgcaa
     5041 aacatgatat gcgcgtgtgg ctgttccttc ccgtcaattg cacctggtgg attgtggatc
     5101 gcgtactgat aggcatggcg atcaccaagt tccttttgca cgaaatcttc aacaagctct
     5161 atccgttgtt cacgtgtcag ttctcgcggt aatgcgatct caatttcacg gtatgccgtc
     5221 ccgttttttc gttcaaattc atcagcagct ttccacagtt ctgcgggatt tttcttcgcc
     5281 catgatggca tgttaccgga tgaagaaaat tccagatcct cccgcgattt atagttttta
     5341 tattcgccag atctggaaat gtaatcagca tgttttaagg ctacgccttt tgctccagtt
     5401 ttaactgtac aatggtagct tgccatctgc cgttaagccc tccgcaggag cgcactgttt
     5461 ctcgacgaag gagagaaacg tctaagtgcg catccctgaa ttaatcaggg atgattttac
     5521 ggtctcacac gcaggcagac aaggttatat tatgcacaat aacaactcac attaacggca
     5581 aaagtgcaga ggtaagaatg acaaatcgtg aagagtggtt aagtgcaaaa attgcctaca
     5641 tcaacggact gaaatcaccg tcagagcagc agagattact tgtgttactg gcagagaaaa
     5701 aaaaccgaac aacgacggat gaaaaaac
//
