LOCUS       NZ_CP149297             4593 bp    DNA     circular CON 05-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            Z1323SSL0058 plasmid pZ1323SSL0058-4, complete sequence.
ACCESSION   NZ_CP149297
VERSION     NZ_CP149297.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40439974
            Assembly: GCF_037854785.1
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  JOURNAL   Unpublished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                   :: 113X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037854785.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 21:18:05
            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)                     :: 4,920
            CDSs (total)                      :: 4,797
            Genes (coding)                    :: 4,682
            CDSs (with protein)               :: 4,682
            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)              :: 115
            CDSs (without protein)            :: 115
            Pseudo Genes (ambiguous residues) :: 0 of 115
            Pseudo Genes (frameshifted)       :: 36 of 115
            Pseudo Genes (incomplete)         :: 85 of 115
            Pseudo Genes (internal stop)      :: 21 of 115
            Pseudo Genes (multiple problems)  :: 25 of 115
            Pseudo Genes (short protein)      :: 1 of 115
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP149297.1.
            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="Z1323SSL0058"
                     /serovar="Typhimurium"
                     /host="Pig"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pZ1323SSL0058-4"
                     /geo_loc_name="South Korea"
                     /collection_date="2023-04-06"
     gene            378..1217
                     /locus_tag="WI421_RS24575"
                     /old_locus_tag="WI421_24575"
     CDS             378..1217
                     /locus_tag="WI421_RS24575"
                     /old_locus_tag="WI421_24575"
                     /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(1905..2138)
                     /locus_tag="WI421_RS24580"
                     /old_locus_tag="WI421_24580"
     CDS             complement(1905..2138)
                     /locus_tag="WI421_RS24580"
                     /old_locus_tag="WI421_24580"
                     /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(2145..2705)
                     /locus_tag="WI421_RS24585"
                     /old_locus_tag="WI421_24585"
     CDS             complement(2145..2705)
                     /locus_tag="WI421_RS24585"
                     /old_locus_tag="WI421_24585"
                     /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            complement(<2740..3393)
                     /locus_tag="WI421_RS24590"
                     /old_locus_tag="WI421_24590"
                     /pseudo=""
     CDS             complement(<2740..3393)
                     /locus_tag="WI421_RS24590"
                     /old_locus_tag="WI421_24590"
                     /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(3383..3706)
                     /locus_tag="WI421_RS24595"
                     /old_locus_tag="WI421_24595"
     CDS             complement(3383..3706)
                     /locus_tag="WI421_RS24595"
                     /old_locus_tag="WI421_24595"
                     /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            3769..3960
                     /locus_tag="WI421_RS24600"
                     /old_locus_tag="WI421_24600"
     CDS             3769..3960
                     /locus_tag="WI421_RS24600"
                     /old_locus_tag="WI421_24600"
                     /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_001677262.1"
                     /translation="MTKQEKTAINMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(4049..4133)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(2..379)
                     /name="ColRNAI_rep_cluster_1857"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          4144..4593
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.142"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1808..3393)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggcccggtgt aggtcgttcg ctccaagctg ggctgtgtgc acgaaccccc cgttcagccc
       61 gaccgctgcg ccttatccgg taactatcgt cttgagtcca acccggaaag acacgtaaaa
      121 acgccactgg cagcagccat tggtaaccgt ttagaggagt tagtcttgaa gttatgcgcc
      181 ggttaaggct aaactgaaag gacagatttg gtggctgtgc tcctccaagc cagttacctt
      241 ggttcaaaga gttgctgctc tgagaacctt cgaaaagccg ccttgctggg cggttttttc
      301 gtttacggac aagactacct tcaggatcgt tagatctcaa gacaatcatg catagtgagc
      361 atacacagga gccgaacttg cttacactgt tcatcttttt tgttttatta atagctgcat
      421 gtttcttttg ttttgctcca ccacgaagag gatatgacag aaatgagatc attccataca
      481 aaataaaact atcaataaat aaatatcgcc tttacatata ctcatcggga aaggtaagac
      541 aatacctttt atttttagtt attttatcac tgtactactc catagcggaa ccatttaagt
      601 ctgagttaat aaaaaacata tcatattcac tgatggctgc atttattttt gatacagggc
      661 ttaattttag caaggagaat ataactaaag gagtgatttc aacaaggtgg cataatgacc
      721 tatattcatc atttgagaga atgaaagcaa ttaataaaat ttactaccca tccaacaaag
      781 agataaacac agaaggtcta tccaaagcca tcacatcatc tcttttcaat gatgacgcga
      841 actcgttcgc aaagagagat tttcgcttga tgtgggactt atcttctgaa aaatatcttt
      901 cctataaaga aataataata agaaaaggcg ataagcttga cgctgtatgc ttgagattta
      961 taaatgatga ctacaagttt ttagttaatt tcaacagaga tgaagaggtt ttcaaatact
     1021 ttccatctat aatgcaacct tcactcaaaa catatagagc gttatcaaga ctagtaaact
     1081 caatcaaaga tccttctaga tttaagttca cgacagagtc attagaaatg gagttactag
     1141 aatacttaga gttaagaaat gaattattca atgacataga agaagtaatg ggtagctatg
     1201 ctcagagggc accatagttc atgatagccc tcgatagtac ttacttatat ttttagagag
     1261 gtttaagtgt aagtagaggg agtaacacct ggtttttcag catccactcc aatgaatgct
     1321 gacaccgata cgcgataatt ctctttatcg tagcaaaatc atcctccaga ttgcggttga
     1381 gaataggttc atggtgcgca atacgattgc gcagttttct cacgggactt gttagcagta
     1441 atgcttcccc ccggggacaa acgacagaga tatacaacaa aggcccgcaa ttaaaatact
     1501 ccgtatttac cataacgtcg cattgcgcgt accgcttaaa cgcgttcagc gcgatcacgg
     1561 cagcagacag gtaaaaacag caacaaacca cccgaaaaac tgccgcgatc gcgcctggta
     1621 aattttaacc tcatgcatag ttatgcgcga aactgaatga cgatcagttt cgcacgttcc
     1681 agccgtcgaa cggggcaaaa tggggaggtt tggatattgt taatgctaat gtacgtacat
     1741 taacattggc gccatccggg tagggcgtgc cacaaactgg ctcgatttca gggggtaccc
     1801 cggtcacatc cccattgacg ggccacgcca gatccgcgct tcgggttcct gctcttcatg
     1861 ccagcgccgg gcaagctcct gcgcctgacg ctcctgttca tcccttatct gttgttcgtg
     1921 ataaataacc gactcaagcg gtcgacttgt ccggctaata gctgcacctg ctgactcaag
     1981 ttcacgacac gctcgttcag tatcgcgttg ttctgttgcg taaccgcgtg catcttctgc
     2041 aattctgcga aggcgctctc ccactcgttc agccgccgca tatagtcctg ttgcaaatgc
     2101 tctaaggcgt tcagcaaatg cccttccagt tccgtcatac tcgtttactc cctgaccagc
     2161 ctcacggcgt tcttgtcgcc caccgtccag gtgttttccc ctttcacccc gtccggcagc
     2221 accagaaatt tcccgttctc gccattgacg aacgtcaccc cccaggtttt tgcctcgagt
     2281 ttcgccagcg tgttttcctg ctctctgatg gtcaagatat ttttcgcaat cctgctttcc
     2341 tgccactgaa tcagccccca gcaccccagg aaaatgccgc ccgtgacgct gagcgcggtc
     2401 agcgccggaa acagtacccg ccctttgatc acctgccaga gcaggttttt ctgctgccgg
     2461 gacagttcgg cctctgtggt gctgagctgc gtgctcacgg tggtgctcag cgtatccagt
     2521 tgctgtttca cggatgttgt atgttcgctg atagcgtctc tgattttctg cctgtttaag
     2581 ctcagtgcct tgtctacaga ctcttctagc ttcctgaact cgctgttcag catgttctcg
     2641 gtagaagcgg ctcgctcttt cagtttcttc tcgaagtccg ttcccatttg taaaagattg
     2701 ctcatacagc gcccccttta gcctgagatt ccgccccccc tccgggtcgg caatactgat
     2761 actgcttctg gttgtcctca ccacctcaaa acctgccgct gtgagcgcct cagtgacatc
     2821 ctgacgcgtt tttattgctc cggcacggta aagcgcctca agaccccgtg taatcgcttc
     2881 tgcggcctcc tgtttcgctt ttggcagatt attcggtgtg acaagcgtcc gtctgttctc
     2941 cggtgcgttc gggtcacgca gcccgtaatg atgattaacc agcgtctgcc aggcatttat
     3001 cctcggcctg tccgcacggt cgtagtacgg ctggaggcgc ttaccgctct gtagttccat
     3061 gttcggaatg acaaaattca gttcgagccg ccccttatcc tggtgttcca cccagagaat
     3121 gctgtactgg tctttttcga gaccgggcat aagaacacgc tcaaagctcg tcatcactct
     3181 ttcgcgttca cccggcggta actccttctc cgcgaacgac agaacgcctg acgtgtattt
     3241 cttcgaaaat ggcgtggcat caatgagttc ccggatttct tccgggttac cccggagcac
     3301 cgttgcgcct tcgcggttac gctcccgccc cagcaggtaa tcgaccgggc cacttccacc
     3361 gcctttcccc ctggcatgaa atttaactat catcccgtcc cccctgttcc ctgacagcct
     3421 gccgcaactg gcgcaattca ccctcgatgg ccatcagagc ggccaccaca tgaacccggt
     3481 caatcgaaga ccagtggccg ctgttcacct tccgggctgt ctggttcaga ttgttcccga
     3541 tggcagccag atgccgcagc aatggcggcg atagtgtcgg cagttttcct gtgcgcgcaa
     3601 ccggctcccc cagacagacc cgccgcatcc attctgccag tcgtttaccc tcgcagcgtt
     3661 ccagtaaccg ggcgtgctcc tcatcgctaa cccgtatcgt gagcatcttc tcgcgtttca
     3721 tcggtatcat tccccctaaa aaatccccta ttaaggagcc ttaagaccat gaccaaacag
     3781 gaaaaaacag ccattaacat ggcccgcttt atcagaagcc agacgctgac cctgctggaa
     3841 aaactcaacg agctggacgc ggacgaacag gcagacatct gcgaatcact tcacgaccac
     3901 gccgacgaac tctaccgtag ttgcctcgca cgcttcggcg atgacggtga aagcaactga
     3961 aacatgcagc tcccggagac gttcacagct tgcctgtgag cggatgccgg gagcagacaa
     4021 gcccgtcagg gcgcgtcagc gggttttagc gggtgtcggg gcgcagccct gacccagtca
     4081 cgtagcgata gcggagtgta tactggctta actatgtggc atcagtgcgg attataagaa
     4141 aagtgcacca tatgcggtgt gaaataccgc acagatgcgt aaggagaaaa tgccgcatca
     4201 ggcgctcttc cgcttcctcg ctcactgact cgctacgctc ggtcgttcgg ctgcggcgag
     4261 cggtatcagc tcactcaaag acggtgatgc ggttatccac agaatcaggg gataacgcca
     4321 aaagaaacat gtgagcaaaa ggccaggaac aggaagaagg ccgcgccgct ggcgtttttc
     4381 cataggctcc gcccccctga cgagcatcac aaaaacagat gctcaagtca gaggtggcga
     4441 aacccgacag gactataaag ataccaggcg tttccccctg gaagctccct cgtgcgctct
     4501 cctgttccga ccctgccgct taccggatac ctgtccgcct ttctcccttc gggaagcgtg
     4561 gcgctttctc atagctcacg ctgttggtat ctc
//
