LOCUS       NZ_CP092008             4774 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Kentucky strain N12-1542
            plasmid pN12-1542-b, complete sequence.
ACCESSION   NZ_CP092008
VERSION     NZ_CP092008.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25644152
            Assembly: GCF_022936405.1
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 4774)
  AUTHORS   Biggel,M.
  TITLE     Genomic analyses of human S. enterica Kentucky from Switzerland
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4774)
  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, 65x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:22:27
            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)                     :: 5,028
            CDSs (total)                      :: 4,906
            Genes (coding)                    :: 4,767
            CDSs (with protein)               :: 4,767
            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)              :: 139
            CDSs (without protein)            :: 139
            Pseudo Genes (ambiguous residues) :: 0 of 139
            Pseudo Genes (frameshifted)       :: 42 of 139
            Pseudo Genes (incomplete)         :: 108 of 139
            Pseudo Genes (internal stop)      :: 23 of 139
            Pseudo Genes (multiple problems)  :: 31 of 139
            Pseudo Genes (short protein)      :: 1 of 139
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP092008.1.
            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..4774
                     /organism="Salmonella enterica subsp. enterica serovar
                     Kentucky"
                     /mol_type="genomic DNA"
                     /strain="N12-1542"
                     /serovar="Kentucky"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:192955"
                     /plasmid="pN12-1542-b"
                     /geo_loc_name="Switzerland"
                     /collection_date="2012"
                     /collected_by="NENT, University of Zurich"
     gene            475..1026
                     /locus_tag="MA816_RS25080"
                     /old_locus_tag="MA816_25075"
     CDS             475..1026
                     /locus_tag="MA816_RS25080"
                     /old_locus_tag="MA816_25075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000654246.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000654246.1"
                     /translation="MKDMKAVVVFTGKDLNIMRTEGGSGYWHARTDRLNDADYLIAVRN
                     RRETWAVKDLEHGTAFLIAKITGCFKSPDYDDRNVITFDEYAEIHTPKAWKMLTDGQRY
                     PVAYLSAQEAFLRIGVTPEQLEWKKFHPSSPSVPNTVIPGLAEEKTEKLSLNEAIERAK
                     KDISNATGIDSSAITISIKI"
                     /name="hypothetical protein"
     gene            complement(1225..1440)
                     /locus_tag="MA816_RS25085"
                     /old_locus_tag="MA816_25080"
     CDS             complement(1225..1440)
                     /locus_tag="MA816_RS25085"
                     /old_locus_tag="MA816_25080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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_000137420.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMFGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSQG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1444..1929)
                     /locus_tag="MA816_RS25090"
                     /old_locus_tag="MA816_25085"
     CDS             complement(1444..1929)
                     /locus_tag="MA816_RS25090"
                     /old_locus_tag="MA816_25085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012565228.1"
                     /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_089624851.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKVAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSTLLTASGASILWWQGQQIL
                     DNYTIIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(<1964..2668)
                     /locus_tag="MA816_RS25210"
                     /pseudo=""
     CDS             complement(<1964..2668)
                     /locus_tag="MA816_RS25210"
                     /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(2607..2930)
                     /locus_tag="MA816_RS25100"
                     /old_locus_tag="MA816_25095"
     CDS             complement(2607..2930)
                     /locus_tag="MA816_RS25100"
                     /old_locus_tag="MA816_25095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_000957080.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLAEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3568..3651
                     /locus_tag="MA816_RS25215"
     CDS             3568..3651
                     /locus_tag="MA816_RS25215"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_058652899.1"
                     /translation="MHEPPVQSDRCALSGNYRLESNPDRHD"
                     /name="hypothetical protein"
     gene            complement(4245..4712)
                     /locus_tag="MA816_RS25105"
                     /old_locus_tag="MA816_25100"
     CDS             complement(4245..4712)
                     /locus_tag="MA816_RS25105"
                     /old_locus_tag="MA816_25100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011899450.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_153266272.1"
                     /translation="MPAPNNYGVAGSPNSAIAHPDGLDCYGRVPEINSKGDVIPAGDIF
                     LRVGRHTGPNRGFGVRHIWAEHEQELVKLGYATVNDVARFVRDIIRRGVPIYCEFNSTS
                     GKHRPAVLKSSVGIVILEPREAPETESGWIYVVVTAYTRRTAHGTLVGHIE"
                     /name="hypothetical protein"
     Typing          complement(3032..3219)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.34"
                     /coverage="87.0"
                     /evalue="2.7100000000000003e-47"
     Typing          3165..3677
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.442"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1122..2617)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.385"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccaagaaaaa agcagagacg ataaaaagaa tccttatgga ttattttttt gtcctttcat
       61 ccttggcgca taaggatatc acacctgaaa atgtgacgtg cgaatcgccc tagcagctag
      121 atttaccata acatcccttg cccgcaccgc tccggacggg ttcagcgtga aagcggcgtt
      181 agcccggtaa aaccggcagt aaactccccg ctaaaccgcg cattctgcgc ctgataaatt
      241 tcacgcggct gcatagccat gcagccacgt gaatggctca tgctttcaat gtatatcctc
      301 gtccaagccc ctgttttaac cggtttatca aaaaaacaaa caggaagcct tatcactaac
      361 aataaaagag gtagggggcc gaattttatc gcataaaaaa catttacaac acgaattcta
      421 tcgtatagat ttcataaaaa gaatgaagtt gactcaccta ttaagggttt ctatatgaaa
      481 gatatgaaag ctgttgtggt ttttaccggg aaggatttga acataatgag aactgagggg
      541 gggtcaggct actggcatgc cagaacagac aggctcaacg atgccgatta cctcatagca
      601 gtaagaaaca gaagggaaac gtgggcagta aaagacctgg aacacggcac agcattcctg
      661 atcgccaaaa ttaccgggtg ttttaaaagc cctgattacg acgacaggaa cgtcataacc
      721 tttgatgaat acgcagaaat tcatactcca aaagcatgga aaatgctaac cgatggtcag
      781 cgctatccgg ttgcttacct gagcgcacag gaagcttttt tacgtattgg ggtaacaccg
      841 gaacaactgg aatggaagaa attccatcct tcatccccat cggttcctaa tacagtgatt
      901 cctggtctgg ctgaagagaa aacagaaaaa ctctccctta acgaggcaat tgaaagagcc
      961 aaaaaggata ttagcaacgc aacagggatt gatagctcag ccataacaat aagcatcaag
     1021 atctgatgaa gcgtgaacaa caagatagca gcctcatgtt ctagaactga acctatgcgc
     1081 cagaaacagc aagcccatgc ttttccggcg cacagattca aagtgacgga ccgttgtacg
     1141 ttcgctgtcg ctgagatcgt tccagctcca gcgctttctg atgctgcgcc gcccgttcct
     1201 gctcacgatg tgcctctatc acgttcagcc ttgtgacaac cggcgcagct gctcgctcaa
     1261 actctgcacc tgcctgctca agcccgtgac gcgctcgctc agcgccgcgt tctcccgttg
     1321 cataagacca aacatcgtcc gccattccgc gaaggcgttc tcccactcgt ccagcctttt
     1381 cgagtagtcc tgctgtagct gctctaatgc gctcagcaac tgtttttcca gctccgtcat
     1441 gtgctatttc cccgccagta tcatccagct cgaatcctct ccgaaccgtc ccgcttccgg
     1501 gttcaccctc acgcagcggc gcctctgctc tccgcaggtc gagagctgca cgccgctgtt
     1561 cctctcggac agcatggcct gcgtgctctt ctgctcccgg atgatcgtgt aattgtcgag
     1621 tatctgctgc ccctgccacc atagaatgct tgcgcccgat gctgtcagca gtgtagacac
     1681 caggacgatg gtcagccacg tctggctgac catacgcacc atgcctttcg tgcgctggct
     1741 catggctgag gacagcttcc ggtcgtggtc gaggatggcg gcgctgattc tcttctcgct
     1801 ttcgctcagt tccgctctga cagacttctc gtgctcgctg aatgcgactt tcagcatctc
     1861 gccggtactc tgctgctgcg ctttcgattt ctgctctaag tccttcgcca gcgttaaaag
     1921 actgttcata gatggctccc ttcagtcgga tgtttcgccc cccgtccggg tcggcaatgc
     1981 tgatgctgct ttttgtggtg cgcaccacct caaaacctgc gctttctagc gcctcagtga
     2041 cgtcctggcg ggttttcagc tccccggacg aggctaaggc cagtaaaccc cgtgtaattg
     2101 cctgagcggc ttcctgcttc gttttcggca gcgcggacgg cgtgaccagc gcccgccggt
     2161 tttcaggtgc gttcgggtca tgcagcccca gcctgccgtt cacgatggtc tgccaggcat
     2221 caatgcgcgg acggtcggcg cggtcgtaat acggctggag acgcctgcct gtcagcagct
     2281 ccatgttcgg gatcaggaag ttcagctcca gccgcccctt atcctggtgc tcaacccaca
     2341 gcacgctgta ctggtcttta tcgagtccgg gcatcagaac ccgttcaaag ctcgccatca
     2401 gcttttcgcg ctgcccgggc ggtaaatcct tttcggcaaa ggacaggacg ccggatgtgt
     2461 acttttttgc gtagggcgag gcgtcgataa gctccctgac ttcttccggc ttcccctgca
     2521 gaacggtggc gccgtcgcgc tgtcggtctt tccccagcag ataatccacc ggaccggcgc
     2581 caccgccgcg ccctcgcggg tgaaacttaa cgatcatcgt ctgcaccctt ttccagcacg
     2641 gcatgccgca gccgctcgag tccggcatct atggccatca gcgcggcgac gacctgcacg
     2701 cggtcgtgcc cgctgccgcc accggcgtta acctgccggg caatctggtt gaggttattc
     2761 cccatgccgg caagctgacg aagcagcgcc ggcgagatcg agggaagctt gccggcgcgg
     2821 gcgggtttct cggccaggca cgtctggcgc atccaggctg caagctgttt accgtcgcag
     2881 cgttccagca gacggcggtg ctcatcttcg gtcacccaca tggtgagcat cttgttccgt
     2941 ttctctgaca aaccgatctc ctgataacgc cgggacgggc gggaaatctt ttcccggtcg
     3001 gcgcggtgtt ggacaagccg caggcgcgtc agtggtttta gcaggtttcg gggcgcagcc
     3061 ctgaaccagt cacgtagcgc tagcggagtg tatactggct caatatgtta cggcggagta
     3121 acacgtaatg aaagtgcttc atgtggcagg ggaaaaatgc agctgcaggg cgtacaggag
     3181 aaaatggagg ttacggtgat atgacgcctc ctcactcact cggtcgcttc cgctcctgac
     3241 gttcggctgc ggcgggcgtt acgtgcaaac ggataagagc aaaggcatac ggcatggcaa
     3301 gcaggacagg aaaaggatgc ggcgctgccg tttttccata ggctccgccc ccctgacaag
     3361 catcacgaaa tctgacgctc aaatcagtgg tggcgaaacc cgacaggact taaagatacc
     3421 aggcgtttcc ccctggtggc tccctcgtgc gctctcctgt tcctgccttt cggtttaccg
     3481 gtgtcattcc gctgttatgg ccgcgtttat ctcattccac gcctgacact cagttccggg
     3541 taggcagttc gctccaagct ggactgtatg cacgaacccc ccgttcagtc cgaccgctgc
     3601 gccttgtccg gtaactatcg tcttgagtcc aacccggata gacacgacta atcgccattg
     3661 gcaacggcca ctggtaagca ggatgtgcga gagatgtaac gagagttctt gaagtggcgg
     3721 cctaactgag gctacactga aaggacagta tttggtgaca tgtctcgcac aagactgtta
     3781 ccacggttag agaatctgcc aggattaact aaccttcgaa aaaaccacct gccagggtgg
     3841 ttttttcgtt tctgagcaag agactacgac gagccactga tgatctcaag tgttcatttc
     3901 tgatattcac agcagaataa ctgttaggat atagggtatc tatagccagg agcttcaaga
     3961 aatccagaca cagcaatgga ttccagggtt atcgaaaaaa attagtatat aggttgcaac
     4021 caaaatgttg gttgcaaatc tacatcacga tgtttatgat tattgtactg caagagcatt
     4081 cgcagggggc atcaaccagt aataggcctt ctgtgccggg cagtcagatg gctggtcatc
     4141 tgccgggtag ttacgacaag cgtcggtttc tgaaccctat gtgctaagga aatgctgcga
     4201 ctaccaacga attcataaag ggcgcttttt agcgccctat ttttttattc aatatgacca
     4261 accaaagtac cgtgcgccgt ccttcgtgtg tacgcagtca caacgacata gatccaacct
     4321 gactcagttt caggcgcttc tctgggctca agaattacga tgcctaccga cgactttagc
     4381 actgcaggcc gatgtttacc gcttgtactg ttgaactcgc aatatattgg tacgccacga
     4441 cgaataatat cccggacaaa acgagccaca tcattaacgg tcgcatatcc cagcttaacc
     4501 agttcctgct cgtgctcagc ccagatatgg cgaacaccaa agccccggtt agggccagta
     4561 tgcctaccaa cacgcaagaa gatgtcgcca gcaggaataa catcaccttt agaattaatt
     4621 tcagggacac gaccatagca atcaagccca tcagggtgag ctatagcgct gttaggtgaa
     4681 ccagctacac cgtaattgtt tggagcaggc acaaaacgat ccttattgag tagagtccgc
     4741 atatggtacc agagaggaaa caagcggaag gagc
//
