LOCUS       NZ_CP149390             4593 bp    DNA     circular CON 05-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            Z1323CSL0053 plasmid pZ1323CSL0053-3, complete sequence.
ACCESSION   NZ_CP149390
VERSION     NZ_CP149390.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40439942
            Assembly: GCF_037888835.1
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  JOURNAL   Unpublished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                   :: 111X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037888835.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 21:34:43
            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)                     :: 4,867
            CDSs (total)                      :: 4,745
            Genes (coding)                    :: 4,623
            CDSs (with protein)               :: 4,623
            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)              :: 122
            CDSs (without protein)            :: 122
            Pseudo Genes (ambiguous residues) :: 0 of 122
            Pseudo Genes (frameshifted)       :: 47 of 122
            Pseudo Genes (incomplete)         :: 85 of 122
            Pseudo Genes (internal stop)      :: 23 of 122
            Pseudo Genes (multiple problems)  :: 30 of 122
            Pseudo Genes (short protein)      :: 1 of 122
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP149390.1.
            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="Z1323CSL0053"
                     /serovar="Typhimurium"
                     /host="Chicken"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pZ1323CSL0053-3"
                     /geo_loc_name="South Korea"
                     /collection_date="2023-03-22"
     gene            join(4548..4593,1..278)
                     /locus_tag="WI411_RS24305"
                     /old_locus_tag="WI411_24305"
     CDS             join(4548..4593,1..278)
                     /locus_tag="WI411_RS24305"
                     /old_locus_tag="WI411_24305"
                     /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            487..>921
                     /locus_tag="WI411_RS24310"
                     /old_locus_tag="WI411_24310"
                     /pseudo=""
     CDS             487..>921
                     /locus_tag="WI411_RS24310"
                     /old_locus_tag="WI411_24310"
                     /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            956..1516
                     /locus_tag="WI411_RS24315"
                     /old_locus_tag="WI411_24315"
     CDS             956..1516
                     /locus_tag="WI411_RS24315"
                     /old_locus_tag="WI411_24315"
                     /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            1523..1756
                     /locus_tag="WI411_RS24320"
                     /old_locus_tag="WI411_24320"
     CDS             1523..1756
                     /locus_tag="WI411_RS24320"
                     /old_locus_tag="WI411_24320"
                     /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(2444..3283)
                     /locus_tag="WI411_RS24325"
                     /old_locus_tag="WI411_24325"
     CDS             complement(2444..3283)
                     /locus_tag="WI411_RS24325"
                     /old_locus_tag="WI411_24325"
                     /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(3475..3624)
                     /locus_tag="WI411_RS24330"
                     /old_locus_tag="WI411_24330"
     CDS             complement(3475..3624)
                     /locus_tag="WI411_RS24330"
                     /old_locus_tag="WI411_24330"
                     /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"
     gene            complement(4294..4485)
                     /locus_tag="WI411_RS24335"
                     /old_locus_tag="WI411_24335"
     CDS             complement(4294..4485)
                     /locus_tag="WI411_RS24335"
                     /old_locus_tag="WI411_24335"
                     /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"
     Typing          4122..4206
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(3553..4111)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.761"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          269..1854
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.811"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aacgctgcga gggtaaacga ctggcagaat ggatgcggcg ggtctgtctg ggggagccgg
       61 ttgcgcgcac aggaaaactg ccgacactat cgccgccatt gctgcggcat ctggctgcca
      121 tcgggaacaa tctgaaccag acagcccgga aggtgaacag cggccactgg tcttcgattg
      181 accgggttca tgtggtggcc gctctgatgg ccatcgaggg tgaattgcgc cagttgcggc
      241 aggctgtcag ggaacagggg ggacgggatg atagttaaat ttcatgccag ggggaaaggc
      301 ggtggaagtg gcccggtcga ttacctgctg gggcgggagc gtaaccgcga aggcgcaacg
      361 gtgctccggg gtaacccgga agaaatccgg gaactcattg atgccacgcc attttcgaag
      421 aaatacacgt caggcgttct gtcgttcgcg gagaaggagt taccgccggg tgaacgcgaa
      481 agagtgatga cgagctttga gcgtgttctt atgcccggtc tcgaaaaaaa ccagtacagc
      541 attctctggg tggaacacca ggataagggg cggctcgaac tgaattttgt cattccgaac
      601 atggaactac agagcggtaa gcgcctccag ccgtactacg accgtgcgga caggccgagg
      661 ataaatgcct ggcagacgct ggttaatcat cattacgggc tgcgtgaccc gaacgcaccg
      721 gagaacagac ggacgcttgt cacaccgaat aatctgccaa aagcgaaaca ggaggccgca
      781 gaagcgatta cacggggtct tgaggcgctt taccgtgccg gagcaataaa aacgcgtcag
      841 gatgtcactg aggcgctcac agcggcaggt tttgaggtgg tgaggacaac cagaagcagt
      901 atcagtattg ccgacccgga gggggggcgg aatctcaggc taaagggggc gctgtatgag
      961 caatctttta caaatgggaa cggacttcga gaagaaactg aaagagcgag ccgcttctac
     1021 cgagaacatg ctgaacagcg agttcaggaa gctagaagag tctgtagaca aggcactgag
     1081 cttaaacagg cagaaaatca gagacgctat cagcgaacat acaacatccg tgaaacagca
     1141 actggatacg ctgagcacca ccgtgagcac gcagctcagc accacagagg ccgaactgtc
     1201 ccggcagcag aaaaacctgc tctggcaggt gatcaaaggg cgggtactgt ttccggcgct
     1261 gaccgcgctc agcgtcacgg gcggcatttt cctggggtgc tgggggctga ttcagtggca
     1321 ggaaagcagg attgcgaaaa atatcttgac catcagagag caggaaaaca cgctggcgaa
     1381 actcgaggca aaaacctggg gggtgacgtt cgtcaatggc gagaacggga aatttctggt
     1441 gctgccggac ggggtgaaag gggaaaacac ctggacggtg ggcgacaaga acgccgtgag
     1501 gctggtcagg gagtaaacga gtatgacgga actggaaggg catttgctga acgccttaga
     1561 gcatttgcaa caggactata tgcggcggct gaacgagtgg gagagcgcct tcgcagaatt
     1621 gcagaagatg cacgcggtta cgcaacagaa caacgcgata ctgaacgagc gtgtcgtgaa
     1681 cttgagtcag caggtgcagc tattagccgg acaagtcgac cgcttgagtc ggttatttat
     1741 cacgaacaac agataaggga tgaacaggag cgtcaggcgc aggagcttgc ccggcgctgg
     1801 catgaagagc aggaacccga agcgcggatc tggcgtggcc cgtcaatggg gatgtgaccg
     1861 gggtaccccc tgaaatcgag ccagtttgtg gcacgcccta cccggatggc gccaatgtta
     1921 atgtacgtac attagcatta acaatatcca aacctcccca ttttgccccg ttcgacggct
     1981 ggaacgtgcg aaactgatcg tcattcagtt tcgcgcataa ctatgcatga ggttaaaatt
     2041 taccaggcgc gatcgcggca gtttttcggg tggtttgttg ctgtttttac ctgtctgctg
     2101 ccgtgatcgc gctgaacgcg tttaagcggt acgcgcaatg cgacgttatg gtaaatacgg
     2161 agtattttaa ttgcgggcct ttgttgtata tctctgtcgt ttgtccccgg ggggaagcat
     2221 tactgctaac aagtcccgtg agaaaactgc gcaatcgtat tgcgcaccat gaacctattc
     2281 tcaaccgcaa tctggaggat gattttgcta cgataaagag aattatcgcg tatcggtgtc
     2341 agcattcatt ggagtggatg ctgaaaaacc aggtgttact ccctctactt acacttaaac
     2401 ctctctaaaa atataagtaa gtactatcga gggctatcat gaactatggt gccctctgag
     2461 catagctacc cattacttct tctatgtcat tgaataattc atttcttaac tctaagtatt
     2521 ctagtaactc catttctaat gactctgtcg tgaacttaaa tctagaagga tctttgattg
     2581 agtttactag tcttgataac gctctatatg ttttgagtga aggttgcatt atagatggaa
     2641 agtatttgaa aacctcttca tctctgttga aattaactaa aaacttgtag tcatcattta
     2701 taaatctcaa gcatacagcg tcaagcttat cgccttttct tattattatt tctttatagg
     2761 aaagatattt ttcagaagat aagtcccaca tcaagcgaaa atctctcttt gcgaacgagt
     2821 tcgcgtcatc attgaaaaga gatgatgtga tggctttgga tagaccttct gtgtttatct
     2881 ctttgttgga tgggtagtaa attttattaa ttgctttcat tctctcaaat gatgaatata
     2941 ggtcattatg ccaccttgtt gaaatcactc ctttagttat attctccttg ctaaaattaa
     3001 gccctgtatc aaaaataaat gcagccatca gtgaatatga tatgtttttt attaactcag
     3061 acttaaatgg ttccgctatg gagtagtaca gtgataaaat aactaaaaat aaaaggtatt
     3121 gtcttacctt tcccgatgag tatatgtaaa ggcgatattt atttattgat agttttattt
     3181 tgtatggaat gatctcattt ctgtcatatc ctcttcgtgg tggagcaaaa caaaagaaac
     3241 atgcagctat taataaaaca aaaaagatga acagtgtaag caagttcggc tcctgtgtat
     3301 gctcactatg catgattgtc ttgagatcta acgatcctga aggtagtctt gtccgtaaac
     3361 gaaaaaaccg cccagcaagg cggcttttcg aaggttctca gagcagcaac tctttgaacc
     3421 aaggtaactg gcttggagga gcacagccac caaatctgtc ctttcagttt agccttaacc
     3481 ggcgcataac ttcaagacta actcctctaa acggttacca atggctgctg ccagtggcgt
     3541 ttttacgtgt ctttccgggt tggactcaag acgatagtta ccggataagg cgcagcggtc
     3601 gggctgaacg gggggttcgt gcacacagcc cagcttggag cgaacgacct acaccgggcc
     3661 gagataccaa cagcgtgagc tatgagaaag cgccacgctt cccgaaggga gaaaggcgga
     3721 caggtatccg gtaagcggca gggtcggaac aggagagcgc acgagggagc ttccaggggg
     3781 aaacgcctgg tatctttata gtcctgtcgg gtttcgccac ctctgacttg agcatctgtt
     3841 tttgtgatgc tcgtcagggg ggcggagcct atggaaaaac gccagcggcg cggccttctt
     3901 cctgttcctg gccttttgct cacatgtttc ttttggcgtt atcccctgat tctgtggata
     3961 accgcatcac cgtctttgag tgagctgata ccgctcgccg cagccgaacg accgagcgta
     4021 gcgagtcagt gagcgaggaa gcggaagagc gcctgatgcg gcattttctc cttacgcatc
     4081 tgtgcggtat ttcacaccgc atatggtgca cttttcttat aatccgcact gatgccacat
     4141 agttaagcca gtatacactc cgctatcgct acgtgactgg gtcagggctg cgccccgaca
     4201 cccgctaaaa cccgctgacg cgccctgacg ggcttgtctg ctcccggcat ccgctcacag
     4261 gcaagctgtg aacgtctccg ggagctgcat gtttcagttg ctttcaccgt catcgccgaa
     4321 gcgtgcgagg caactacggt agagttcgtc ggcgtggtcg tgaagtgatt cgcagatgtc
     4381 tgcctgttcg tccgcgtcca gctcgttgag tttttccagc agggtcagcg tctggcttct
     4441 gataaagcgg gccatgttaa gggctgtttt ttcctgtttg gtcatggtct taaggctcct
     4501 taatagggga ttttttaggg ggaatgatac cgatgaaacg cgagaagatg ctcacgatac
     4561 gggttagcga tgaggagcac gcccggttac tgg
//
