LOCUS       NZ_CP092001             5649 bp    DNA     circular CON 03-JUN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Kentucky strain N16-1393
            plasmid pN16-1393-b, complete sequence.
ACCESSION   NZ_CP092001
VERSION     NZ_CP092001.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25644119
            Assembly: GCF_022936365.1
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 5649)
  AUTHORS   Biggel,M.
  TITLE     Genomic analyses of human S. enterica Kentucky from Switzerland
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5649)
  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, 75x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022936365.1-RS_2024_06_03
            Annotation Date                   :: 06/03/2024 03:16:12
            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)                     :: 4,675
            CDSs (total)                      :: 4,553
            Genes (coding)                    :: 4,443
            CDSs (with protein)               :: 4,443
            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)              :: 110
            CDSs (without protein)            :: 110
            Pseudo Genes (ambiguous residues) :: 0 of 110
            Pseudo Genes (frameshifted)       :: 35 of 110
            Pseudo Genes (incomplete)         :: 81 of 110
            Pseudo Genes (internal stop)      :: 21 of 110
            Pseudo Genes (multiple problems)  :: 24 of 110
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP092001.1.
            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..5649
                     /organism="Salmonella enterica subsp. enterica serovar
                     Kentucky"
                     /mol_type="genomic DNA"
                     /strain="N16-1393"
                     /serovar="Kentucky"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:192955"
                     /plasmid="pN16-1393-b"
                     /geo_loc_name="Switzerland"
                     /collection_date="2016"
                     /collected_by="NENT, University of Zurich"
     gene            join(5646..5649,1..1007)
                     /locus_tag="MA802_RS23270"
                     /old_locus_tag="MA802_23265"
     CDS             join(5646..5649,1..1007)
                     /locus_tag="MA802_RS23270"
                     /old_locus_tag="MA802_23265"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000395670.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000395670.1"
                     /translation="MEFQELENSACLYWPKELAERAASISAISPLIETQDEFLSILTIS
                     TNKPTSCFDAVRLCNKISPNLFVKHLMVLSDIGGERLHRFFKDLDKIYPDRIMEFNIGN
                     SSYSYQFNSNRAWTTKNLNVEKSRLLQPVSDFTREMLDVCMLILWGGNTINNTNLPTEI
                     ENNCVLGNLIGNKEAIEQFVKERYIMVSRQTGGATANDLGHICEIFIKEKLYKLIDNNI
                     SLDGHHIDGVTHNDKDLTTFDIVAKNTTTKKCVGIEISFQVTTNSTIERKAGLAKSRRD
                     LLNSRGHKIAYVIDGSGNFQRSNAIKTIINHSDMTVNFSDNGINSLATFICETLK"
                     /name="hypothetical protein"
     gene            1004..2251
                     /locus_tag="MA802_RS23275"
                     /old_locus_tag="MA802_23270"
     CDS             1004..2251
                     /locus_tag="MA802_RS23275"
                     /old_locus_tag="MA802_23270"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001522448.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="WP_021538329.1"
                     /translation="MIKFVDLFSGTGGIRLGFEQAMKEIGLSTKCVKSSEIDKKACETY
                     KLNFDEESYCDIHDVDIDESFDVLLAGFPCQAFSYAGKQLGFADTRGTLFFEVERIIKK
                     NKPKLCLLENVRGLTSHDKGRTFSTILKSLHNLGYHVEYRLLNTSNFGVPQNRVRIYII
                     ASLEKEVTLTIPNDLGAKDTHNYKPSKGGHDFYTESKVSDILEDSPDESYDCSDWFKQR
                     LEDIFEGDLNKVHGIRLIDTRNGNSLHSWDLGLKGECSNDEITFMNLLIANRRKHIFGT
                     HQDGKALSKAQIETFFKHSETTNIIKNLIKKGYLKEKNGLYNPVCGNMSFEVFKFLDPN
                     KVSITLTASDANRLGVYHNNRLRRLTPRECARLQGYPDSYILHPKDSMAYKQLGNAVSV
                     PVIKNIFLDIMKNNFI"
                     /name="DNA cytosine methyltransferase"
     gene            complement(2422..2583)
                     /locus_tag="MA802_RS23450"
     CDS             complement(2422..2583)
                     /locus_tag="MA802_RS23450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001317076.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="mobilization protein"
                     /protein_id="WP_071778800.1"
                     /translation="MSYPWSVSASWKYRNAHWMVLHWDGETMKNGRLSGLRRANVVCTI
                     WLHRYSCG"
                     /name="mobilization protein"
     gene            complement(2614..2847)
                     /locus_tag="MA802_RS23280"
                     /old_locus_tag="MA802_23275"
     CDS             complement(2614..2847)
                     /locus_tag="MA802_RS23280"
                     /old_locus_tag="MA802_23275"
                     /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_052948116.1"
                     /translation="MTELETHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSERTERLSQLYSENRR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2854..3372)
                     /locus_tag="MA802_RS23285"
                     /old_locus_tag="MA802_23280"
     CDS             complement(2854..3372)
                     /locus_tag="MA802_RS23285"
                     /old_locus_tag="MA802_23280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /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_000067500.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNNEFRRLGESVSEAVTSNE
                     TKIRDAIALFTASTEESLEKHREGVKEAMMQHRRDVLKLAGNTGMMLLGIVFLLFTASG
                     GTLWYLGGRIQANLEEIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            complement(<3410..4108)
                     /locus_tag="MA802_RS23455"
                     /pseudo=""
     CDS             complement(<3410..4108)
                     /locus_tag="MA802_RS23455"
                     /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            complement(4050..4373)
                     /locus_tag="MA802_RS23295"
                     /old_locus_tag="MA802_23290"
     CDS             complement(4050..4373)
                     /locus_tag="MA802_RS23295"
                     /old_locus_tag="MA802_23290"
                     /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            4437..4628
                     /locus_tag="MA802_RS23300"
                     /old_locus_tag="MA802_23295"
     CDS             4437..4628
                     /locus_tag="MA802_RS23300"
                     /old_locus_tag="MA802_23295"
                     /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_042634456.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENH"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(4707..4791)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.837"
                     /coverage="100.0"
                     /evalue="1.41e-35"
     Typing          4802..5359
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.286"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2511..4060)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.519"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agttccaaga attagaaaat agcgcatgct tatattggcc caaagaactt gcagaaagag
       61 cagcatctat tagcgccata agccctctta tagagaccca agatgaattt ttatcaatac
      121 taacaatatc aacaaataag cctacatctt gttttgatgc cgtacggtta tgcaataaga
      181 tatcacccaa cctatttgtc aagcacttaa tggttttgtc agatattgga ggcgaaagac
      241 ttcatcgctt ctttaaagat ttagataaga tctaccccga cagaataatg gagttcaata
      301 taggaaatag ctcttactct taccaattca atagcaatag agcatggaca accaagaatt
      361 taaacgtgga aaaatcacgg ctcttgcaac ctgtaagtga ttttacacgt gaaatgcttg
      421 atgtttgcat gctgatccta tggggaggta atactataaa caatacaaat cttccaaccg
      481 aaatagaaaa taactgtgtt ttggggaatt taattggaaa caaagaagca atagaacagt
      541 ttgtaaaaga aagatatata atggttagca ggcaaacagg aggtgcaacg gcaaatgatc
      601 ttggacacat atgcgagatc tttataaaag aaaaacttta caagcttatt gataacaata
      661 tatctctaga tggacaccat atcgatggtg taactcataa cgataaagat cttacgactt
      721 ttgatattgt agcaaaaaac acaacaacaa aaaaatgtgt tggtattgaa ataagttttc
      781 aagttacaac aaactcaaca atagaaagaa aagcaggatt agccaaaagc agaagagatt
      841 tgctcaattc aagaggacat aaaatagcat atgtgattga tggatctggt aattttcagc
      901 gttcaaatgc catcaaaaca ataattaacc atagtgacat gaccgttaac ttttcagata
      961 atggtataaa ttcactagca acattcatct gcgagacatt gaaatgatta aatttgttga
     1021 ccttttttct ggcacaggtg gtattagact tggttttgag caagccatga aagaaattgg
     1081 attgtcaaca aaatgcgtaa aaagctcaga aattgacaaa aaagcatgcg aaacatacaa
     1141 acttaacttc gacgaagaat catattgtga tatacatgat gttgatatag atgaaagctt
     1201 cgatgtttta ttggcaggat ttccttgtca ggcgttctct tatgctggaa aacaacttgg
     1261 ttttgcagac acccgaggca cattattttt tgaagtagaa agaatcataa agaaaaacaa
     1321 gcctaagtta tgtcttttgg agaatgtgcg tggattaact tcacatgata aaggaagaac
     1381 attttcaaca atattaaaat ctcttcataa tttagggtat catgttgaat acagactatt
     1441 aaacacaagt aattttggcg tccctcaaaa tagggttaga atatatataa tagcctcatt
     1501 agaaaaagag gtaacactta ctattcctaa tgatcttgga gccaaagata cgcacaatta
     1561 caaaccatcc aaaggtggtc atgattttta tacagaatca aaagtttctg acatactaga
     1621 ggatagtcca gacgagtcat atgattgcag cgattggttc aagcaacgcc ttgaagacat
     1681 ttttgaaggt gacctaaata aagttcatgg aatcaggcta attgacacaa ggaacggaaa
     1741 ctccttgcac tcttgggatc ttgggctaaa aggcgagtgc tcaaatgatg aaataacttt
     1801 catgaattta ttaattgcaa accgtagaaa gcatattttt ggcacacacc aagacggcaa
     1861 ggctttgtca aaagcacaaa ttgaaacatt ttttaaacat agcgaaacca ccaacataat
     1921 aaaaaatcta attaaaaagg gttaccttaa agagaaaaac ggactataca acccagtttg
     1981 cggaaatatg tcttttgaag tattcaaatt ccttgaccca aataaagtgt caattacact
     2041 tacggcatct gatgccaata gacttggagt ctatcacaac aatagactgc gacgccttac
     2101 gccaagagaa tgcgcaagac tacaaggtta cccagactca tatatcttac acccaaaaga
     2161 tagcatggca tataaacaat tagggaatgc tgtaagcgta ccagtcatta aaaatatttt
     2221 tcttgatata atgaagaata actttatata aaccatatta ctagcaaaac tgctctatgg
     2281 ttatttaatt aaatttaaca gatttaccat aacgtcgcat tacgcgcacc gctaaaacgc
     2341 gttcagcgcg atcacggcag cagacaggta aaaatggcaa caaaccaccc gaaaaactgc
     2401 cgcgatcgcg cctgataaat tttaaccgca tgaataccta tgcaaccaga tggtacagac
     2461 cacattagcc cgtcttaatc cacttaacct gccatttttc atagtttcac catcccagtg
     2521 aaggaccatc cagtgtgcgt tcctgtattt ccagctggcg ctcacgctcc agggataact
     2581 catgttcgcg ttcctgtatc agccgttcgt cccttatctc ctgttctcgc tgtataactg
     2641 gctcaagcgt tctgtccgct cgctcaagtg ctgcacctgc tgactcaact gcatgacccg
     2701 ctcgttcagc atcgcgttgt cccgttgcgt aagcgaaaac attttctgca attccacgaa
     2761 ggcgctctcc cattcgctca gccgctgcat atagtcctgt tgcagctgct ctaaggcgtt
     2821 cagcaaatgt gtttccagct ctgtcactct gtgtcactcc ttcagatgta cccactcttt
     2881 cccctgaaag ggaatcacct ccgctgattt cccgtacgga aggacaagga atttcctgtt
     2941 cccgtcctgc acaaactcca cgccccatgt cttcgcgttc agtttctgca atgtctcttc
     3001 ctgcttcctg atttcttcca ggttcgcctg tatcctccct ccaagatacc agagcgtccc
     3061 gccactcgcg gtaaacagga gaaagactat ccccagtaac atcatgcccg tattccctgc
     3121 cagctttaac acgtccctcc tgtgctgcat catcgcctct ttcacccctt cccggtgttt
     3181 ttccagcgat tcctctgtcg aggctgtgaa cagggctata gcgtctctga ttttcgtctc
     3241 gtttgatgtc acagcctcgc ttacagattc gccgagcctc ctgaactcgt tgttcagcat
     3301 tttctctgta gattcggctc tctctttcag ctttttctcg aactccgcgc ccgtctgcaa
     3361 aagattgctc ataaaatgct cctttcagcc tgatattctt cccgccgttc ggatctgcaa
     3421 tgctgatact gcttcgcgtc accctgacca cttccagccc cgcctcagtg agcgcctgaa
     3481 tcacatcctg acggcctttt atctctccgg catggtaaag tgcatctata cctcgcgtga
     3541 cgccctcagc aagcgcctgt ttcgtttcag gcaggttatc agggagtgtc agcgtcctgc
     3601 ggttctccgg ggcgttcggg tcatgcagcc cgtaatggtg atttaccagc gtctgccagg
     3661 catcaattct aggcctgtct gcgcggtcgt agtacggctg gaggcgtttt ccggtctgta
     3721 gctccatgtt cggaatgaca aaattcagct caagccgtcc cttgtcctgg tgctccaccc
     3781 acaggatgct gtactgattt ttttcgagac cgggcatcag tacacgctca aagctcgcca
     3841 tcactttttc acgtcctccc ggcggcagct ccttctccgc gaacgacaga acaccggacg
     3901 tgtatttctt cgcaaatggc gtggcatcga tgagttcccg gacttcttcc ggattaccct
     3961 gaagcaccgt tgcgccttcg cggttacgct ccctccccag caggtaatca accggaccac
     4021 tgccaccacc ttttcccctg gcatgaaatt taactatcat cccgcgcccc ctgttccctg
     4081 acagccagac gcagccggcg cagctcatcc ccgatggcca tcagtgcggc caccacctga
     4141 acccggtcac cggaagacca ctgcccgctg ttcaccttac gggctgtctg attcaggtta
     4201 tttccgatgg cggccagctg acgcagtaac ggcggtgcca gtgtcggcag ttttccggaa
     4261 cgggcaacag gctcccccag gcagacccgc cgcatccata ccgccagttg tttaccctca
     4321 cagcgttcca gtaaccgggc atgttcatca tcagtaaccc gtattgtgag catcctctcg
     4381 cgtttcatcg gtatcattac cccatgaaca gaaatccccc ttacacggag gcatcagtga
     4441 ctaaacagga aaaaaccgcc cttaacatgg cccgctttat cagaagccag acattaacgc
     4501 tgctggagaa gctcaacgaa ctggacgcgg atgaacaggc agatatctgt gaatcgcttc
     4561 acgaccacgc cgatgagctt taccgcagct gcctcgcacg cttcggggat gacggtgaaa
     4621 accactgaca catgcagctc ccggagacgg tcacagcttg tctgtgagcg gatgccggga
     4681 gcagacaagc ccgtcagggc gcgtcagggg gtttcggggc gaagccctga accagtcacg
     4741 tagcgctagc ggagtgtata ctggcttaac tatgcggcat cagtgcagat tgtatggaaa
     4801 gtgccccatg ccgggtgtga aatgccgcac agatgcgtaa ggagaaaatg cgcgtccagg
     4861 cgcttttccg cttcctcgct cactgactcg ctgcgctcgg tcgttcggct gcggcgagcg
     4921 gtatcagctc actcaaagac ggtaatgcgg ttatccacag aatcagggga taacgccaaa
     4981 ggaaacatgt gagcaaaaaa caagaacccg gaaaaggcca cgccgctggc gtttttccat
     5041 aggctccgcc cccctgacga gcatcacaga aatcgacgct caagtcagag gtggcgaaac
     5101 ccgacaggac tataaagata ccaggcgttt ccccctggaa gctccctcgt gcgctctcct
     5161 gttccgaccc tgccgcttac cggatacctg tccgcctttc tcccttcggg aagcgtggcg
     5221 ctttctcata gctcacgctg ttggtatctc ggctcggtgt aggccgttcg ctccaagctg
     5281 ggctgtgtgc acgaaccccc cgttcagccc gaccgctgcg ccttatccgg taactatcgt
     5341 cttgagtcca acccggtaag acacgactta acgccactgt cagcagccat tggtagaggg
     5401 tgtacaagaa attgctgata cggagttctt gaagtgaagg cccgactgcg gctacactga
     5461 aaggacagat ttggtggcag cggtcttgta cgccctgtta ccttgggtta gaaagcctga
     5521 gaaacttcta accttcgaaa aacccacgcc tgagaacgtg ggttttttcg tttacgcccg
     5581 tagagattac ccatcatagg ggtgtaactc aaggtctatt tggatagttt taccaaggaa
     5641 taatcatgg
//
