LOCUS       NZ_CP149393             4593 bp    DNA     circular CON 05-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            Z1323CSL0052 plasmid pZ1323CSL0052-3, complete sequence.
ACCESSION   NZ_CP149393
VERSION     NZ_CP149393.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40439941
            Assembly: GCF_037888845.1
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  JOURNAL   Unpublished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                   :: 110X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037888845.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 21:16:50
            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
            CP149393.1.
            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="Z1323CSL0052"
                     /serovar="Typhimurium"
                     /host="Chicken"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pZ1323CSL0052-3"
                     /geo_loc_name="South Korea"
                     /collection_date="2023-03-22"
     gene            complement(join(4061..4593,1..28))
                     /locus_tag="WI439_RS24305"
                     /old_locus_tag="WI439_24305"
     CDS             complement(join(4061..4593,1..28))
                     /locus_tag="WI439_RS24305"
                     /old_locus_tag="WI439_24305"
                     /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(<69..716)
                     /locus_tag="WI439_RS24310"
                     /old_locus_tag="WI439_24310"
                     /pseudo=""
     CDS             complement(<69..716)
                     /locus_tag="WI439_RS24310"
                     /old_locus_tag="WI439_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            complement(706..1029)
                     /locus_tag="WI439_RS24315"
                     /old_locus_tag="WI439_24315"
     CDS             complement(706..1029)
                     /locus_tag="WI439_RS24315"
                     /old_locus_tag="WI439_24315"
                     /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            1092..1283
                     /locus_tag="WI439_RS24320"
                     /old_locus_tag="WI439_24320"
     CDS             1092..1283
                     /locus_tag="WI439_RS24320"
                     /old_locus_tag="WI439_24320"
                     /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            1953..2102
                     /locus_tag="WI439_RS24325"
                     /old_locus_tag="WI439_24325"
     CDS             1953..2102
                     /locus_tag="WI439_RS24325"
                     /old_locus_tag="WI439_24325"
                     /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            2294..3133
                     /locus_tag="WI439_RS24330"
                     /old_locus_tag="WI439_24330"
     CDS             2294..3133
                     /locus_tag="WI439_RS24330"
                     /old_locus_tag="WI439_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(3821..4054)
                     /locus_tag="WI439_RS24335"
                     /old_locus_tag="WI439_24335"
     CDS             complement(3821..4054)
                     /locus_tag="WI439_RS24335"
                     /old_locus_tag="WI439_24335"
                     /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"
     Typing          complement(1372..1456)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          1467..2022
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.907"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(4..716)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.58"
                     /coverage="99.0"
                     /evalue="1.74e-156"
     Typing          complement(3724..4592)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="2.72e-168"
ORIGIN
        1 ccgttcccat ttgtaaaaga ttgctcatac agcgccccct ttagcctgag attccgcccc
       61 ccctccgggt cggcaatact gatactgctt ctggttgtcc tcaccacctc aaaacctgcc
      121 gctgtgagcg cctcagtgac atcctgacgc gtttttattg ctccggcacg gtaaagcgcc
      181 tcaagacccc gtgtaatcgc ttctgcggcc tcctgtttcg cttttggcag attattcggt
      241 gtgacaagcg tccgtctgtt ctccggtgcg ttcgggtcac gcagcccgta atgatgatta
      301 accagcgtct gccaggcatt tatcctcggc ctgtccgcac ggtcgtagta cggctggagg
      361 cgcttaccgc tctgtagttc catgttcgga atgacaaaat tcagttcgag ccgcccctta
      421 tcctggtgtt ccacccagag aatgctgtac tggttttttt cgagaccggg cataagaaca
      481 cgctcaaagc tcgtcatcac tctttcgcgt tcacccggcg gtaactcctt ctccgcgaac
      541 gacagaacgc ctgacgtgta tttcttcgaa aatggcgtgg catcaatgag ttcccggatt
      601 tcttccgggt taccccggag caccgttgcg ccttcgcggt tacgctcccg ccccagcagg
      661 taatcgaccg ggccacttcc accgcctttc cccctggcat gaaatttaac tatcatcccg
      721 tcccccctgt tccctgacag cctgccgcaa ctggcgcaat tcaccctcga tggccatcag
      781 agcggccacc acatgaaccc ggtcaatcga agaccagtgg ccgctgttca ccttccgggc
      841 tgtctggttc agattgttcc cgatggcagc cagatgccgc agcaatggcg gcgatagtgt
      901 cggcagtttt cctgtgcgcg caaccggctc ccccagacag acccgccgca tccattctgc
      961 cagtcgttta ccctcgcagc gttccagtaa ccgggcgtgc tcctcatcgc taacccgtat
     1021 cgtgagcatc ttctcgcgtt tcatcggtat cattccccct aaaaaatccc ctattaagga
     1081 gccttaagac catgaccaaa caggaaaaaa cagcccttaa catggcccgc tttatcagaa
     1141 gccagacgct gaccctgctg gaaaaactca acgagctgga cgcggacgaa caggcagaca
     1201 tctgcgaatc acttcacgac cacgccgacg aactctaccg tagttgcctc gcacgcttcg
     1261 gcgatgacgg tgaaagcaac tgaaacatgc agctcccgga gacgttcaca gcttgcctgt
     1321 gagcggatgc cgggagcaga caagcccgtc agggcgcgtc agcgggtttt agcgggtgtc
     1381 ggggcgcagc cctgacccag tcacgtagcg atagcggagt gtatactggc ttaactatgt
     1441 ggcatcagtg cggattataa gaaaagtgca ccatatgcgg tgtgaaatac cgcacagatg
     1501 cgtaaggaga aaatgccgca tcaggcgctc ttccgcttcc tcgctcactg actcgctacg
     1561 ctcggtcgtt cggctgcggc gagcggtatc agctcactca aagacggtga tgcggttatc
     1621 cacagaatca ggggataacg ccaaaagaaa catgtgagca aaaggccagg aacaggaaga
     1681 aggccgcgcc gctggcgttt ttccataggc tccgcccccc tgacgagcat cacaaaaaca
     1741 gatgctcaag tcagaggtgg cgaaacccga caggactata aagataccag gcgtttcccc
     1801 ctggaagctc cctcgtgcgc tctcctgttc cgaccctgcc gcttaccgga tacctgtccg
     1861 cctttctccc ttcgggaagc gtggcgcttt ctcatagctc acgctgttgg tatctcggcc
     1921 cggtgtaggt cgttcgctcc aagctgggct gtgtgcacga accccccgtt cagcccgacc
     1981 gctgcgcctt atccggtaac tatcgtcttg agtccaaccc ggaaagacac gtaaaaacgc
     2041 cactggcagc agccattggt aaccgtttag aggagttagt cttgaagtta tgcgccggtt
     2101 aaggctaaac tgaaaggaca gatttggtgg ctgtgctcct ccaagccagt taccttggtt
     2161 caaagagttg ctgctctgag aaccttcgaa aagccgcctt gctgggcggt tttttcgttt
     2221 acggacaaga ctaccttcag gatcgttaga tctcaagaca atcatgcata gtgagcatac
     2281 acaggagccg aacttgctta cactgttcat cttttttgtt ttattaatag ctgcatgttt
     2341 cttttgtttt gctccaccac gaagaggata tgacagaaat gagatcattc catacaaaat
     2401 aaaactatca ataaataaat atcgccttta catatactca tcgggaaagg taagacaata
     2461 ccttttattt ttagttattt tatcactgta ctactccata gcggaaccat ttaagtctga
     2521 gttaataaaa aacatatcat attcactgat ggctgcattt atttttgata cagggcttaa
     2581 ttttagcaag gagaatataa ctaaaggagt gatttcaaca aggtggcata atgacctata
     2641 ttcatcattt gagagaatga aagcaattaa taaaatttac tacccatcca acaaagagat
     2701 aaacacagaa ggtctatcca aagccatcac atcatctctt ttcaatgatg acgcgaactc
     2761 gttcgcaaag agagattttc gcttgatgtg ggacttatct tctgaaaaat atctttccta
     2821 taaagaaata ataataagaa aaggcgataa gcttgacgct gtatgcttga gatttataaa
     2881 tgatgactac aagtttttag ttaatttcaa cagagatgaa gaggttttca aatactttcc
     2941 atctataatg caaccttcac tcaaaacata tagagcgtta tcaagactag taaactcaat
     3001 caaagatcct tctagattta agttcacgac agagtcatta gaaatggagt tactagaata
     3061 cttagagtta agaaatgaat tattcaatga catagaagaa gtaatgggta gctatgctca
     3121 gagggcacca tagttcatga tagccctcga tagtacttac ttatattttt agagaggttt
     3181 aagtgtaagt agagggagta acacctggtt tttcagcatc cactccaatg aatgctgaca
     3241 ccgatacgcg ataattctct ttatcgtagc aaaatcatcc tccagattgc ggttgagaat
     3301 aggttcatgg tgcgcaatac gattgcgcag ttttctcacg ggacttgtta gcagtaatgc
     3361 ttccccccgg ggacaaacga cagagatata caacaaaggc ccgcaattaa aatactccgt
     3421 atttaccata acgtcgcatt gcgcgtaccg cttaaacgcg ttcagcgcga tcacggcagc
     3481 agacaggtaa aaacagcaac aaaccacccg aaaaactgcc gcgatcgcgc ctggtaaatt
     3541 ttaacctcat gcatagttat gcgcgaaact gaatgacgat cagtttcgca cgttccagcc
     3601 gtcgaacggg gcaaaatggg gaggtttgga tattgttaat gctaatgtac gtacattaac
     3661 attggcgcca tccgggtagg gcgtgccaca aactggctcg atttcagggg gtaccccggt
     3721 cacatcccca ttgacgggcc acgccagatc cgcgcttcgg gttcctgctc ttcatgccag
     3781 cgccgggcaa gctcctgcgc ctgacgctcc tgttcatccc ttatctgttg ttcgtgataa
     3841 ataaccgact caagcggtcg acttgtccgg ctaatagctg cacctgctga ctcaagttca
     3901 cgacacgctc gttcagtatc gcgttgttct gttgcgtaac cgcgtgcatc ttctgcaatt
     3961 ctgcgaaggc gctctcccac tcgttcagcc gccgcatata gtcctgttgc aaatgctcta
     4021 aggcgttcag caaatgccct tccagttccg tcatactcgt ttactccctg accagcctca
     4081 cggcgttctt gtcgcccacc gtccaggtgt tttccccttt caccccgtcc ggcagcacca
     4141 gaaatttccc gttctcgcca ttgacgaacg tcacccccca ggtttttgcc tcgagtttcg
     4201 ccagcgtgtt ttcctgctct ctgatggtca agatattttt cgcaatcctg ctttcctgcc
     4261 actgaatcag cccccagcac cccaggaaaa tgccgcccgt gacgctgagc gcggtcagcg
     4321 ccggaaacag tacccgccct ttgatcacct gccagagcag gtttttctgc tgccgggaca
     4381 gttcggcctc tgtggtgctg agctgcgtgc tcacggtggt gctcagcgta tccagttgct
     4441 gtttcacgga tgttgtatgt tcgctgatag cgtctctgat tttctgcctg tttaagctca
     4501 gtgccttgtc tacagactct tctagcttcc tgaactcgct gttcagcatg ttctcggtag
     4561 aagcggctcg ctctttcagt ttcttctcga agt
//
