LOCUS       NZ_CP149396             4593 bp    DNA     circular CON 05-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            Z1323CSL0051 plasmid pZ1323CSL0051-3, complete sequence.
ACCESSION   NZ_CP149396
VERSION     NZ_CP149396.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40439940
            Assembly: GCF_037888855.1
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  JOURNAL   Unpublished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                   :: 99X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037888855.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 21:20:14
            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)                     :: 4,868
            CDSs (total)                      :: 4,745
            Genes (coding)                    :: 4,623
            CDSs (with protein)               :: 4,623
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            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
            CP149396.1.
            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="Z1323CSL0051"
                     /serovar="Typhimurium"
                     /host="Chicken"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pZ1323CSL0051-3"
                     /geo_loc_name="South Korea"
                     /collection_date="2023-03-22"
     gene            join(4450..4593,1..180)
                     /locus_tag="WI422_RS24310"
                     /old_locus_tag="WI422_24310"
     CDS             join(4450..4593,1..180)
                     /locus_tag="WI422_RS24310"
                     /old_locus_tag="WI422_24310"
                     /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            389..>823
                     /locus_tag="WI422_RS24315"
                     /old_locus_tag="WI422_24315"
                     /pseudo=""
     CDS             389..>823
                     /locus_tag="WI422_RS24315"
                     /old_locus_tag="WI422_24315"
                     /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            858..1418
                     /locus_tag="WI422_RS24320"
                     /old_locus_tag="WI422_24320"
     CDS             858..1418
                     /locus_tag="WI422_RS24320"
                     /old_locus_tag="WI422_24320"
                     /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            1425..1658
                     /locus_tag="WI422_RS24325"
                     /old_locus_tag="WI422_24325"
     CDS             1425..1658
                     /locus_tag="WI422_RS24325"
                     /old_locus_tag="WI422_24325"
                     /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(2346..3185)
                     /locus_tag="WI422_RS24330"
                     /old_locus_tag="WI422_24330"
     CDS             complement(2346..3185)
                     /locus_tag="WI422_RS24330"
                     /old_locus_tag="WI422_24330"
                     /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(3377..3526)
                     /locus_tag="WI422_RS24335"
                     /old_locus_tag="WI422_24335"
     CDS             complement(3377..3526)
                     /locus_tag="WI422_RS24335"
                     /old_locus_tag="WI422_24335"
                     /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(4196..4387)
                     /locus_tag="WI422_RS24340"
                     /old_locus_tag="WI422_24340"
     CDS             complement(4196..4387)
                     /locus_tag="WI422_RS24340"
                     /old_locus_tag="WI422_24340"
                     /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          4024..4108
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(3455..4013)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.761"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          171..1756
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.811"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttgctgcggc atctggctgc catcgggaac aatctgaacc agacagcccg gaaggtgaac
       61 agcggccact ggtcttcgat tgaccgggtt catgtggtgg ccgctctgat ggccatcgag
      121 ggtgaattgc gccagttgcg gcaggctgtc agggaacagg ggggacggga tgatagttaa
      181 atttcatgcc agggggaaag gcggtggaag tggcccggtc gattacctgc tggggcggga
      241 gcgtaaccgc gaaggcgcaa cggtgctccg gggtaacccg gaagaaatcc gggaactcat
      301 tgatgccacg ccattttcga agaaatacac gtcaggcgtt ctgtcgttcg cggagaagga
      361 gttaccgccg ggtgaacgcg aaagagtgat gacgagcttt gagcgtgttc ttatgcccgg
      421 tctcgaaaaa aaccagtaca gcattctctg ggtggaacac caggataagg ggcggctcga
      481 actgaatttt gtcattccga acatggaact acagagcggt aagcgcctcc agccgtacta
      541 cgaccgtgcg gacaggccga ggataaatgc ctggcagacg ctggttaatc atcattacgg
      601 gctgcgtgac ccgaacgcac cggagaacag acggacgctt gtcacaccga ataatctgcc
      661 aaaagcgaaa caggaggccg cagaagcgat tacacggggt cttgaggcgc tttaccgtgc
      721 cggagcaata aaaacgcgtc aggatgtcac tgaggcgctc acagcggcag gttttgaggt
      781 ggtgaggaca accagaagca gtatcagtat tgccgacccg gagggggggc ggaatctcag
      841 gctaaagggg gcgctgtatg agcaatcttt tacaaatggg aacggacttc gagaagaaac
      901 tgaaagagcg agccgcttct accgagaaca tgctgaacag cgagttcagg aagctagaag
      961 agtctgtaga caaggcactg agcttaaaca ggcagaaaat cagagacgct atcagcgaac
     1021 atacaacatc cgtgaaacag caactggata cgctgagcac caccgtgagc acgcagctca
     1081 gcaccacaga ggccgaactg tcccggcagc agaaaaacct gctctggcag gtgatcaaag
     1141 ggcgggtact gtttccggcg ctgaccgcgc tcagcgtcac gggcggcatt ttcctggggt
     1201 gctgggggct gattcagtgg caggaaagca ggattgcgaa aaatatcttg accatcagag
     1261 agcaggaaaa cacgctggcg aaactcgagg caaaaacctg gggggtgacg ttcgtcaatg
     1321 gcgagaacgg gaaatttctg gtgctgccgg acggggtgaa aggggaaaac acctggacgg
     1381 tgggcgacaa gaacgccgtg aggctggtca gggagtaaac gagtatgacg gaactggaag
     1441 ggcatttgct gaacgcctta gagcatttgc aacaggacta tatgcggcgg ctgaacgagt
     1501 gggagagcgc cttcgcagaa ttgcagaaga tgcacgcggt tacgcaacag aacaacgcga
     1561 tactgaacga gcgtgtcgtg aacttgagtc agcaggtgca gctattagcc ggacaagtcg
     1621 accgcttgag tcggttattt atcacgaaca acagataagg gatgaacagg agcgtcaggc
     1681 gcaggagctt gcccggcgct ggcatgaaga gcaggaaccc gaagcgcgga tctggcgtgg
     1741 cccgtcaatg gggatgtgac cggggtaccc cctgaaatcg agccagtttg tggcacgccc
     1801 tacccggatg gcgccaatgt taatgtacgt acattagcat taacaatatc caaacctccc
     1861 cattttgccc cgttcgacgg ctggaacgtg cgaaactgat cgtcattcag tttcgcgcat
     1921 aactatgcat gaggttaaaa tttaccaggc gcgatcgcgg cagtttttcg ggtggtttgt
     1981 tgctgttttt acctgtctgc tgccgtgatc gcgctgaacg cgtttaagcg gtacgcgcaa
     2041 tgcgacgtta tggtaaatac ggagtatttt aattgcgggc ctttgttgta tatctctgtc
     2101 gtttgtcccc ggggggaagc attactgcta acaagtcccg tgagaaaact gcgcaatcgt
     2161 attgcgcacc atgaacctat tctcaaccgc aatctggagg atgattttgc tacgataaag
     2221 agaattatcg cgtatcggtg tcagcattca ttggagtgga tgctgaaaaa ccaggtgtta
     2281 ctccctctac ttacacttaa acctctctaa aaatataagt aagtactatc gagggctatc
     2341 atgaactatg gtgccctctg agcatagcta cccattactt cttctatgtc attgaataat
     2401 tcatttctta actctaagta ttctagtaac tccatttcta atgactctgt cgtgaactta
     2461 aatctagaag gatctttgat tgagtttact agtcttgata acgctctata tgttttgagt
     2521 gaaggttgca ttatagatgg aaagtatttg aaaacctctt catctctgtt gaaattaact
     2581 aaaaacttgt agtcatcatt tataaatctc aagcatacag cgtcaagctt atcgcctttt
     2641 cttattatta tttctttata ggaaagatat ttttcagaag ataagtccca catcaagcga
     2701 aaatctctct ttgcgaacga gttcgcgtca tcattgaaaa gagatgatgt gatggctttg
     2761 gatagacctt ctgtgtttat ctctttgttg gatgggtagt aaattttatt aattgctttc
     2821 attctctcaa atgatgaata taggtcatta tgccaccttg ttgaaatcac tcctttagtt
     2881 atattctcct tgctaaaatt aagccctgta tcaaaaataa atgcagccat cagtgaatat
     2941 gatatgtttt ttattaactc agacttaaat ggttccgcta tggagtagta cagtgataaa
     3001 ataactaaaa ataaaaggta ttgtcttacc tttcccgatg agtatatgta aaggcgatat
     3061 ttatttattg atagttttat tttgtatgga atgatctcat ttctgtcata tcctcttcgt
     3121 ggtggagcaa aacaaaagaa acatgcagct attaataaaa caaaaaagat gaacagtgta
     3181 agcaagttcg gctcctgtgt atgctcacta tgcatgattg tcttgagatc taacgatcct
     3241 gaaggtagtc ttgtccgtaa acgaaaaaac cgcccagcaa ggcggctttt cgaaggttct
     3301 cagagcagca actctttgaa ccaaggtaac tggcttggag gagcacagcc accaaatctg
     3361 tcctttcagt ttagccttaa ccggcgcata acttcaagac taactcctct aaacggttac
     3421 caatggctgc tgccagtggc gtttttacgt gtctttccgg gttggactca agacgatagt
     3481 taccggataa ggcgcagcgg tcgggctgaa cggggggttc gtgcacacag cccagcttgg
     3541 agcgaacgac ctacaccggg ccgagatacc aacagcgtga gctatgagaa agcgccacgc
     3601 ttcccgaagg gagaaaggcg gacaggtatc cggtaagcgg cagggtcgga acaggagagc
     3661 gcacgaggga gcttccaggg ggaaacgcct ggtatcttta tagtcctgtc gggtttcgcc
     3721 acctctgact tgagcatctg tttttgtgat gctcgtcagg ggggcggagc ctatggaaaa
     3781 acgccagcgg cgcggccttc ttcctgttcc tggccttttg ctcacatgtt tcttttggcg
     3841 ttatcccctg attctgtgga taaccgcatc accgtctttg agtgagctga taccgctcgc
     3901 cgcagccgaa cgaccgagcg tagcgagtca gtgagcgagg aagcggaaga gcgcctgatg
     3961 cggcattttc tccttacgca tctgtgcggt atttcacacc gcatatggtg cacttttctt
     4021 ataatccgca ctgatgccac atagttaagc cagtatacac tccgctatcg ctacgtgact
     4081 gggtcagggc tgcgccccga cacccgctaa aacccgctga cgcgccctga cgggcttgtc
     4141 tgctcccggc atccgctcac aggcaagctg tgaacgtctc cgggagctgc atgtttcagt
     4201 tgctttcacc gtcatcgccg aagcgtgcga ggcaactacg gtagagttcg tcggcgtggt
     4261 cgtgaagtga ttcgcagatg tctgcctgtt cgtccgcgtc cagctcgttg agtttttcca
     4321 gcagggtcag cgtctggctt ctgataaagc gggccatgtt aagggctgtt ttttcctgtt
     4381 tggtcatggt cttaaggctc cttaataggg gattttttag ggggaatgat accgatgaaa
     4441 cgcgagaaga tgctcacgat acgggttagc gatgaggagc acgcccggtt actggaacgc
     4501 tgcgagggta aacgactggc agaatggatg cggcgggtct gtctggggga gccggttgcg
     4561 cgcacaggaa aactgccgac actatcgccg cca
//
