LOCUS       NZ_CP149384             4593 bp    DNA     circular CON 05-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            Z1323CSL0062 plasmid pZ1323CSL0062-3, complete sequence.
ACCESSION   NZ_CP149384
VERSION     NZ_CP149384.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40439944
            Assembly: GCF_037887095.1
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  JOURNAL   Unpublished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                   :: 130X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037887095.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 21:16:42
            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)                     :: 4,866
            CDSs (total)                      :: 4,743
            Genes (coding)                    :: 4,621
            CDSs (with protein)               :: 4,621
            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
            CP149384.1.
            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="Z1323CSL0062"
                     /serovar="Typhimurium"
                     /host="Chicken"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pZ1323CSL0062-3"
                     /geo_loc_name="South Korea"
                     /collection_date="2023-03-22"
     gene            308..457
                     /locus_tag="WI432_RS24300"
                     /old_locus_tag="WI432_24300"
     CDS             308..457
                     /locus_tag="WI432_RS24300"
                     /old_locus_tag="WI432_24300"
                     /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            649..1488
                     /locus_tag="WI432_RS24305"
                     /old_locus_tag="WI432_24305"
     CDS             649..1488
                     /locus_tag="WI432_RS24305"
                     /old_locus_tag="WI432_24305"
                     /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(2176..2409)
                     /locus_tag="WI432_RS24310"
                     /old_locus_tag="WI432_24310"
     CDS             complement(2176..2409)
                     /locus_tag="WI432_RS24310"
                     /old_locus_tag="WI432_24310"
                     /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(2416..2976)
                     /locus_tag="WI432_RS24315"
                     /old_locus_tag="WI432_24315"
     CDS             complement(2416..2976)
                     /locus_tag="WI432_RS24315"
                     /old_locus_tag="WI432_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            complement(<3011..3664)
                     /locus_tag="WI432_RS24320"
                     /old_locus_tag="WI432_24320"
                     /pseudo=""
     CDS             complement(<3011..3664)
                     /locus_tag="WI432_RS24320"
                     /old_locus_tag="WI432_24320"
                     /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(3654..3977)
                     /locus_tag="WI432_RS24325"
                     /old_locus_tag="WI432_24325"
     CDS             complement(3654..3977)
                     /locus_tag="WI432_RS24325"
                     /old_locus_tag="WI432_24325"
                     /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            4040..4231
                     /locus_tag="WI432_RS24330"
                     /old_locus_tag="WI432_24330"
     CDS             4040..4231
                     /locus_tag="WI432_RS24330"
                     /old_locus_tag="WI432_24330"
                     /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          complement(4320..4404)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(199..650)
                     /name="ColRNAI_rep_cluster_1857"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          4424..4590
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.452"
                     /coverage="90.0"
                     /evalue="1.57e-63"
     Typing          complement(2079..3664)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.811"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agaaacatgt gagcaaaagg ccaggaacag gaagaaggcc gcgccgctgg cgtttttcca
       61 taggctccgc ccccctgacg agcatcacaa aaacagatgc tcaagtcaga ggtggcgaaa
      121 cccgacagga ctataaagat accaggcgtt tccccctgga agctccctcg tgcgctctcc
      181 tgttccgacc ctgccgctta ccggatacct gtccgccttt ctcccttcgg gaagcgtggc
      241 gctttctcat agctcacgct gttggtatct cggcccggtg taggtcgttc gctccaagct
      301 gggctgtgtg cacgaacccc ccgttcagcc cgaccgctgc gccttatccg gtaactatcg
      361 tcttgagtcc aacccggaaa gacacgtaaa aacgccactg gcagcagcca ttggtaaccg
      421 tttagaggag ttagtcttga agttatgcgc cggttaaggc taaactgaaa ggacagattt
      481 ggtggctgtg ctcctccaag ccagttacct tggttcaaag agttgctgct ctgagaacct
      541 tcgaaaagcc gccttgctgg gcggtttttt cgtttacgga caagactacc ttcaggatcg
      601 ttagatctca agacaatcat gcatagtgag catacacagg agccgaactt gcttacactg
      661 ttcatctttt ttgttttatt aatagctgca tgtttctttt gttttgctcc accacgaaga
      721 ggatatgaca gaaatgagat cattccatac aaaataaaac tatcaataaa taaatatcgc
      781 ctttacatat actcatcggg aaaggtaaga caataccttt tatttttagt tattttatca
      841 ctgtactact ccatagcgga accatttaag tctgagttaa taaaaaacat atcatattca
      901 ctgatggctg catttatttt tgatacaggg cttaatttta gcaaggagaa tataactaaa
      961 ggagtgattt caacaaggtg gcataatgac ctatattcat catttgagag aatgaaagca
     1021 attaataaaa tttactaccc atccaacaaa gagataaaca cagaaggtct atccaaagcc
     1081 atcacatcat ctcttttcaa tgatgacgcg aactcgttcg caaagagaga ttttcgcttg
     1141 atgtgggact tatcttctga aaaatatctt tcctataaag aaataataat aagaaaaggc
     1201 gataagcttg acgctgtatg cttgagattt ataaatgatg actacaagtt tttagttaat
     1261 ttcaacagag atgaagaggt tttcaaatac tttccatcta taatgcaacc ttcactcaaa
     1321 acatatagag cgttatcaag actagtaaac tcaatcaaag atccttctag atttaagttc
     1381 acgacagagt cattagaaat ggagttacta gaatacttag agttaagaaa tgaattattc
     1441 aatgacatag aagaagtaat gggtagctat gctcagaggg caccatagtt catgatagcc
     1501 ctcgatagta cttacttata tttttagaga ggtttaagtg taagtagagg gagtaacacc
     1561 tggtttttca gcatccactc caatgaatgc tgacaccgat acgcgataat tctctttatc
     1621 gtagcaaaat catcctccag attgcggttg agaataggtt catggtgcgc aatacgattg
     1681 cgcagttttc tcacgggact tgttagcagt aatgcttccc cccggggaca aacgacagag
     1741 atatacaaca aaggcccgca attaaaatac tccgtattta ccataacgtc gcattgcgcg
     1801 taccgcttaa acgcgttcag cgcgatcacg gcagcagaca ggtaaaaaca gcaacaaacc
     1861 acccgaaaaa ctgccgcgat cgcgcctggt aaattttaac ctcatgcata gttatgcgcg
     1921 aaactgaatg acgatcagtt tcgcacgttc cagccgtcga acggggcaaa atggggaggt
     1981 ttggatattg ttaatgctaa tgtacgtaca ttaacattgg cgccatccgg gtagggcgtg
     2041 ccacaaactg gctcgatttc agggggtacc ccggtcacat ccccattgac gggccacgcc
     2101 agatccgcgc ttcgggttcc tgctcttcat gccagcgccg ggcaagctcc tgcgcctgac
     2161 gctcctgttc atcccttatc tgttgttcgt gataaataac cgactcaagc ggtcgacttg
     2221 tccggctaat agctgcacct gctgactcaa gttcacgaca cgctcgttca gtatcgcgtt
     2281 gttctgttgc gtaaccgcgt gcatcttctg caattctgcg aaggcgctct cccactcgtt
     2341 cagccgccgc atatagtcct gttgcaaatg ctctaaggcg ttcagcaaat gcccttccag
     2401 ttccgtcata ctcgtttact ccctgaccag cctcacggcg ttcttgtcgc ccaccgtcca
     2461 ggtgttttcc cctttcaccc cgtccggcag caccagaaat ttcccgttct cgccattgac
     2521 gaacgtcacc ccccaggttt ttgcctcgag tttcgccagc gtgttttcct gctctctgat
     2581 ggtcaagata tttttcgcaa tcctgctttc ctgccactga atcagccccc agcaccccag
     2641 gaaaatgccg cccgtgacgc tgagcgcggt cagcgccgga aacagtaccc gccctttgat
     2701 cacctgccag agcaggtttt tctgctgccg ggacagttcg gcctctgtgg tgctgagctg
     2761 cgtgctcacg gtggtgctca gcgtatccag ttgctgtttc acggatgttg tatgttcgct
     2821 gatagcgtct ctgattttct gcctgtttaa gctcagtgcc ttgtctacag actcttctag
     2881 cttcctgaac tcgctgttca gcatgttctc ggtagaagcg gctcgctctt tcagtttctt
     2941 ctcgaagtcc gttcccattt gtaaaagatt gctcatacag cgcccccttt agcctgagat
     3001 tccgcccccc ctccgggtcg gcaatactga tactgcttct ggttgtcctc accacctcaa
     3061 aacctgccgc tgtgagcgcc tcagtgacat cctgacgcgt ttttattgct ccggcacggt
     3121 aaagcgcctc aagaccccgt gtaatcgctt ctgcggcctc ctgtttcgct tttggcagat
     3181 tattcggtgt gacaagcgtc cgtctgttct ccggtgcgtt cgggtcacgc agcccgtaat
     3241 gatgattaac cagcgtctgc caggcattta tcctcggcct gtccgcacgg tcgtagtacg
     3301 gctggaggcg cttaccgctc tgtagttcca tgttcggaat gacaaaattc agttcgagcc
     3361 gccccttatc ctggtgttcc acccagagaa tgctgtactg gtttttttcg agaccgggca
     3421 taagaacacg ctcaaagctc gtcatcactc tttcgcgttc acccggcggt aactccttct
     3481 ccgcgaacga cagaacgcct gacgtgtatt tcttcgaaaa tggcgtggca tcaatgagtt
     3541 cccggatttc ttccgggtta ccccggagca ccgttgcgcc ttcgcggtta cgctcccgcc
     3601 ccagcaggta atcgaccggg ccacttccac cgcctttccc cctggcatga aatttaacta
     3661 tcatcccgtc ccccctgttc cctgacagcc tgccgcaact ggcgcaattc accctcgatg
     3721 gccatcagag cggccaccac atgaacccgg tcaatcgaag accagtggcc gctgttcacc
     3781 ttccgggctg tctggttcag attgttcccg atggcagcca gatgccgcag caatggcggc
     3841 gatagtgtcg gcagttttcc tgtgcgcgca accggctccc ccagacagac ccgccgcatc
     3901 cattctgcca gtcgtttacc ctcgcagcgt tccagtaacc gggcgtgctc ctcatcgcta
     3961 acccgtatcg tgagcatctt ctcgcgtttc atcggtatca ttccccctaa aaaatcccct
     4021 attaaggagc cttaagacca tgaccaaaca ggaaaaaaca gcccttaaca tggcccgctt
     4081 tatcagaagc cagacgctga ccctgctgga aaaactcaac gagctggacg cggacgaaca
     4141 ggcagacatc tgcgaatcac ttcacgacca cgccgacgaa ctctaccgta gttgcctcgc
     4201 acgcttcggc gatgacggtg aaagcaactg aaacatgcag ctcccggaga cgttcacagc
     4261 ttgcctgtga gcggatgccg ggagcagaca agcccgtcag ggcgcgtcag cgggttttag
     4321 cgggtgtcgg ggcgcagccc tgacccagtc acgtagcgat agcggagtgt atactggctt
     4381 aactatgtgg catcagtgcg gattataaga aaagtgcacc atatgcggtg tgaaataccg
     4441 cacagatgcg taaggagaaa atgccgcatc aggcgctctt ccgcttcctc gctcactgac
     4501 tcgctacgct cggtcgttcg gctgcggcga gcggtatcag ctcactcaaa gacggtgatg
     4561 cggttatcca cagaatcagg ggataacgcc aaa
//
