LOCUS       NZ_CP149405             4593 bp    DNA     circular CON 05-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            Z1322HSL0036 plasmid pZ1322HSL0036-3, complete sequence.
ACCESSION   NZ_CP149405
VERSION     NZ_CP149405.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40439937
            Assembly: GCF_037888885.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Typhimurium (Salmonella
            typhimurium)
  ORGANISM  Salmonella enterica subsp. enterica serovar Typhimurium
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4593)
  AUTHORS   Chae,J.-C., Oh,J.Y., Jeong,J.H. and Kwak,S.M.
  TITLE     Complete genome sequence of Salmonella enterica subsp. enterica
            serovar Typhimurium isolated from humans and pigs
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4593)
  AUTHORS   Chae,J.-C., Oh,J.Y., Jeong,J.H. and Kwak,S.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-MAR-2024) Division of biotechnology, Jeonbuk National
            University, kobongro, Iksan 54596, South Korea
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 124X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037888885.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 21:19:55
            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)                     :: 4,731
            CDSs (total)                      :: 4,608
            Genes (coding)                    :: 4,501
            CDSs (with protein)               :: 4,501
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 107
            CDSs (without protein)            :: 107
            Pseudo Genes (ambiguous residues) :: 0 of 107
            Pseudo Genes (frameshifted)       :: 35 of 107
            Pseudo Genes (incomplete)         :: 77 of 107
            Pseudo Genes (internal stop)      :: 21 of 107
            Pseudo Genes (multiple problems)  :: 24 of 107
            Pseudo Genes (short protein)      :: 1 of 107
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP149405.1.
            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
                     Typhimurium"
                     /mol_type="genomic DNA"
                     /strain="Z1322HSL0036"
                     /serovar="Typhimurium"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pZ1322HSL0036-3"
                     /geo_loc_name="South Korea"
                     /collection_date="2022-08-08"
     gene            complement(144..335)
                     /locus_tag="WI405_RS23625"
                     /old_locus_tag="WI405_23625"
     CDS             complement(144..335)
                     /locus_tag="WI405_RS23625"
                     /old_locus_tag="WI405_23625"
                     /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            398..721
                     /locus_tag="WI405_RS23630"
                     /old_locus_tag="WI405_23630"
     CDS             398..721
                     /locus_tag="WI405_RS23630"
                     /old_locus_tag="WI405_23630"
                     /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            930..>1364
                     /locus_tag="WI405_RS23635"
                     /old_locus_tag="WI405_23635"
                     /pseudo=""
     CDS             930..>1364
                     /locus_tag="WI405_RS23635"
                     /old_locus_tag="WI405_23635"
                     /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            1399..1959
                     /locus_tag="WI405_RS23640"
                     /old_locus_tag="WI405_23640"
     CDS             1399..1959
                     /locus_tag="WI405_RS23640"
                     /old_locus_tag="WI405_23640"
                     /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            1966..2199
                     /locus_tag="WI405_RS23645"
                     /old_locus_tag="WI405_23645"
     CDS             1966..2199
                     /locus_tag="WI405_RS23645"
                     /old_locus_tag="WI405_23645"
                     /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"
     gene            complement(2887..3726)
                     /locus_tag="WI405_RS23650"
                     /old_locus_tag="WI405_23650"
     CDS             complement(2887..3726)
                     /locus_tag="WI405_RS23650"
                     /old_locus_tag="WI405_23650"
                     /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(3918..4067)
                     /locus_tag="WI405_RS23655"
                     /old_locus_tag="WI405_23655"
     CDS             complement(3918..4067)
                     /locus_tag="WI405_RS23655"
                     /old_locus_tag="WI405_23655"
                     /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"
     Typing          complement(3996..4554)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.761"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          712..2297
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtatacactc cgctatcgct acgtgactgg gtcagggctg cgccccgaca cccgctaaaa
       61 cccgctgacg cgccctgacg ggcttgtctg ctcccggcat ccgctcacag gcaagctgtg
      121 aacgtctccg ggagctgcat gtttcagttg ctttcaccgt catcgccgaa gcgtgcgagg
      181 caactacggt agagttcgtc ggcgtggtcg tgaagtgatt cgcagatgtc tgcctgttcg
      241 tccgcgtcca gctcgttgag tttttccagc agggtcagcg tctggcttct gataaagcgg
      301 gccatgttaa gggctgtttt ttcctgtttg gtcatggtct taaggctcct taatagggga
      361 ttttttaggg ggaatgatac cgatgaaacg cgagaagatg ctcacgatac gggttagcga
      421 tgaggagcac gcccggttac tggaacgctg cgagggtaaa cgactggcag aatggatgcg
      481 gcgggtctgt ctgggggagc cggttgcgcg cacaggaaaa ctgccgacac tatcgccgcc
      541 attgctgcgg catctggctg ccatcgggaa caatctgaac cagacagccc ggaaggtgaa
      601 cagcggccac tggtcttcga ttgaccgggt tcatgtggtg gccgctctga tggccatcga
      661 gggtgaattg cgccagttgc ggcaggctgt cagggaacag gggggacggg atgatagtta
      721 aatttcatgc cagggggaaa ggcggtggaa gtggcccggt cgattacctg ctggggcggg
      781 agcgtaaccg cgaaggcgca acggtgctcc ggggtaaccc ggaagaaatc cgggaactca
      841 ttgatgccac gccattttcg aagaaataca cgtcaggcgt tctgtcgttc gcggagaagg
      901 agttaccgcc gggtgaacgc gaaagagtga tgacgagctt tgagcgtgtt cttatgcccg
      961 gtctcgaaaa agaccagtac agcattctct gggtggaaca ccaggataag gggcggctcg
     1021 aactgaattt tgtcattccg aacatggaac tacagagcgg taagcgcctc cagccgtact
     1081 acgaccgtgc ggacaggccg aggataaatg cctggcagac gctggttaat catcattacg
     1141 ggctgcgtga cccgaacgca ccggagaaca gacggacgct tgtcacaccg aataatctgc
     1201 caaaagcgaa acaggaggcc gcagaagcga ttacacgggg tcttgaggcg ctttaccgtg
     1261 ccggagcaat aaaaacgcgt caggatgtca ctgaggcgct cacagcggca ggttttgagg
     1321 tggtgaggac aaccagaagc agtatcagta ttgccgaccc ggaggggggg cggaatctca
     1381 ggctaaaggg ggcgctgtat gagcaatctt ttacaaatgg gaacggactt cgagaagaaa
     1441 ctgaaagagc gagccgcttc taccgagaac atgctgaaca gcgagttcag gaagctagaa
     1501 gagtctgtag acaaggcact gagcttaaac aggcagaaaa tcagagacgc tatcagcgaa
     1561 catacaacat ccgtgaaaca gcaactggat acgctgagca ccaccgtgag cacgcagctc
     1621 agcaccacag aggccgaact gtcccggcag cagaaaaacc tgctctggca ggtgatcaaa
     1681 gggcgggtac tgtttccggc gctgaccgcg ctcagcgtca cgggcggcat tttcctgggg
     1741 tgctgggggc tgattcagtg gcaggaaagc aggattgcga aaaatatctt gaccatcaga
     1801 gagcaggaaa acacgctggc gaaactcgag gcaaaaacct ggggggtgac gttcgtcaat
     1861 ggcgagaacg ggaaatttct ggtgctgccg gacggggtga aaggggaaaa cacctggacg
     1921 gtgggcgaca agaacgccgt gaggctggtc agggagtaaa cgagtatgac ggaactggaa
     1981 gggcatttgc tgaacgcctt agagcatttg caacaggact atatgcggcg gctgaacgag
     2041 tgggagagcg ccttcgcaga attgcagaag atgcacgcgg ttacgcaaca gaacaacgcg
     2101 atactgaacg agcgtgtcgt gaacttgagt cagcaggtgc agctattagc cggacaagtc
     2161 gaccgcttga gtcggttatt tatcacgaac aacagataag ggatgaacag gagcgtcagg
     2221 cgcaggagct tgcccggcgc tggcatgaag agcaggaacc cgaagcgcgg atctggcgtg
     2281 gcccgtcaat ggggatgtga ccggggtacc ccctgaaatc gagccagttt gtggcacgcc
     2341 ctacccggat ggcgccaatg ttaatgtacg tacattagca ttaacaatat ccaaacctcc
     2401 ccattttgcc ccgttcgacg gctggaacgt gcgaaactga tcgtcattca gtttcgcgca
     2461 taactatgca tgaggttaaa atttaccagg cgcgatcgcg gcagtttttc gggtggtttg
     2521 ttgctgtttt tacctgtctg ctgccgtgat cgcgctgaac gcgtttaagc ggtacgcgca
     2581 atgcgacgtt atggtaaata cggagtattt taattgcggg cctttgttgt atatctctgt
     2641 cgtttgtccc cggggggaag cattactgct aacaagtccc gtgagaaaac tgcgcaatcg
     2701 tattgcgcac catgaaccta ttctcaaccg caatctggag gatgattttg ctacgataaa
     2761 gagaattatc gcgtatcggt gtcagcattc attggagtgg atgctgaaaa accaggtgtt
     2821 actccctcta cttacactta aacctctcta aaaatataag taagtactat cgagggctat
     2881 catgaactat ggtgccctct gagcatagct acccattact tcttctatgt cattgaataa
     2941 ttcatttctt aactctaagt attctagtaa ctccatttct aatgactctg tcgtgaactt
     3001 aaatctagaa ggatctttga ttgagtttac tagtcttgat aacgctctat atgttttgag
     3061 tgaaggttgc attatagatg gaaagtattt gaaaacctct tcatctctgt tgaaattaac
     3121 taaaaacttg tagtcatcat ttataaatct caagcataca gcgtcaagct tatcgccttt
     3181 tcttattatt atttctttat aggaaagata tttttcagaa gataagtccc acatcaagcg
     3241 aaaatctctc tttgcgaacg agttcgcgtc atcattgaaa agagatgatg tgatggcttt
     3301 ggatagacct tctgtgttta tctctttgtt ggatgggtag taaattttat taattgcttt
     3361 cattctctca aatgatgaat ataggtcatt atgccacctt gttgaaatca ctcctttagt
     3421 tatattctcc ttgctaaaat taagccctgt atcaaaaata aatgcagcca tcagtgaata
     3481 tgatatgttt tttattaact cagacttaaa tggttccgct atggagtagt acagtgataa
     3541 aataactaaa aataaaaggt attgtcttac ctttcccgat gagtatatgt aaaggcgata
     3601 tttatttatt gatagtttta ttttgtatgg aatgatctca tttctgtcat atcctcttcg
     3661 tggtggagca aaacaaaaga aacatgcagc tattaataaa acaaaaaaga tgaacagtgt
     3721 aagcaagttc ggctcctgtg tatgctcact atgcatgatt gtcttgagat ctaacgatcc
     3781 tgaaggtagt cttgtccgta aacgaaaaaa ccgcccagca aggcggcttt tcgaaggttc
     3841 tcagagcagc aactctttga accaaggtaa ctggcttgga ggagcacagc caccaaatct
     3901 gtcctttcag tttagcctta accggcgcat aacttcaaga ctaactcctc taaacggtta
     3961 ccaatggctg ctgccagtgg cgtttttacg tgtctttccg ggttggactc aagacgatag
     4021 ttaccggata aggcgcagcg gtcgggctga acggggggtt cgtgcacaca gcccagcttg
     4081 gagcgaacga cctacaccgg gccgagatac caacagcgtg agctatgaga aagcgccacg
     4141 cttcccgaag ggagaaaggc ggacaggtat ccggtaagcg gcagggtcgg aacaggagag
     4201 cgcacgaggg agcttccagg gggaaacgcc tggtatcttt atagtcctgt cgggtttcgc
     4261 cacctctgac ttgagcatct gtttttgtga tgctcgtcag gggggcggag cctatggaaa
     4321 aacgccagcg gcgcggcctt cttcctgttc ctggcctttt gctcacatgt ttcttttggc
     4381 gttatcccct gattctgtgg ataaccgcat caccgtcttt gagtgagctg ataccgctcg
     4441 ccgcagccga acgaccgagc gtagcgagtc agtgagcgag gaagcggaag agcgcctgat
     4501 gcggcatttt ctccttacgc atctgtgcgg tatttcacac cgcatatggt gcacttttct
     4561 tataatccgc actgatgcca catagttaag cca
//
