LOCUS       NZ_CP149387             4593 bp    DNA     circular CON 05-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            Z1323CSL0057 plasmid pZ1323CSL0057-3, complete sequence.
ACCESSION   NZ_CP149387
VERSION     NZ_CP149387.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40439943
            Assembly: GCF_037888705.1
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  JOURNAL   Unpublished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                   :: 83X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037888705.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 21:24:05
            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)                     :: 4,867
            CDSs (total)                      :: 4,744
            Genes (coding)                    :: 4,622
            CDSs (with protein)               :: 4,622
            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
            CP149387.1.
            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="Z1323CSL0057"
                     /serovar="Typhimurium"
                     /host="Chicken"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pZ1323CSL0057-3"
                     /geo_loc_name="South Korea"
                     /collection_date="2023-03-22"
     gene            join(4515..4593,1..113)
                     /locus_tag="WI438_RS24305"
                     /old_locus_tag="WI438_24305"
     CDS             join(4515..4593,1..113)
                     /locus_tag="WI438_RS24305"
                     /old_locus_tag="WI438_24305"
                     /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            783..932
                     /locus_tag="WI438_RS24310"
                     /old_locus_tag="WI438_24310"
     CDS             783..932
                     /locus_tag="WI438_RS24310"
                     /old_locus_tag="WI438_24310"
                     /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            1124..1963
                     /locus_tag="WI438_RS24315"
                     /old_locus_tag="WI438_24315"
     CDS             1124..1963
                     /locus_tag="WI438_RS24315"
                     /old_locus_tag="WI438_24315"
                     /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(2651..2884)
                     /locus_tag="WI438_RS24320"
                     /old_locus_tag="WI438_24320"
     CDS             complement(2651..2884)
                     /locus_tag="WI438_RS24320"
                     /old_locus_tag="WI438_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(2891..3451)
                     /locus_tag="WI438_RS24325"
                     /old_locus_tag="WI438_24325"
     CDS             complement(2891..3451)
                     /locus_tag="WI438_RS24325"
                     /old_locus_tag="WI438_24325"
                     /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(<3486..4139)
                     /locus_tag="WI438_RS24330"
                     /old_locus_tag="WI438_24330"
                     /pseudo=""
     CDS             complement(<3486..4139)
                     /locus_tag="WI438_RS24330"
                     /old_locus_tag="WI438_24330"
                     /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(4129..4452)
                     /locus_tag="WI438_RS24335"
                     /old_locus_tag="WI438_24335"
     CDS             complement(4129..4452)
                     /locus_tag="WI438_RS24335"
                     /old_locus_tag="WI438_24335"
                     /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"
     Typing          complement(202..286)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          297..852
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.907"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(2554..4139)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.811"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acgagctgga cgcggacgaa caggcagaca tctgcgaatc acttcacgac cacgccgacg
       61 aactctaccg tagttgcctc gcacgcttcg gcgatgacgg tgaaagcaac tgaaacatgc
      121 agctcccgga gacgttcaca gcttgcctgt gagcggatgc cgggagcaga caagcccgtc
      181 agggcgcgtc agcgggtttt agcgggtgtc ggggcgcagc cctgacccag tcacgtagcg
      241 atagcggagt gtatactggc ttaactatgt ggcatcagtg cggattataa gaaaagtgca
      301 ccatatgcgg tgtgaaatac cgcacagatg cgtaaggaga aaatgccgca tcaggcgctc
      361 ttccgcttcc tcgctcactg actcgctacg ctcggtcgtt cggctgcggc gagcggtatc
      421 agctcactca aagacggtga tgcggttatc cacagaatca ggggataacg ccaaaagaaa
      481 catgtgagca aaaggccagg aacaggaaga aggccgcgcc gctggcgttt ttccataggc
      541 tccgcccccc tgacgagcat cacaaaaaca gatgctcaag tcagaggtgg cgaaacccga
      601 caggactata aagataccag gcgtttcccc ctggaagctc cctcgtgcgc tctcctgttc
      661 cgaccctgcc gcttaccgga tacctgtccg cctttctccc ttcgggaagc gtggcgcttt
      721 ctcatagctc acgctgttgg tatctcggcc cggtgtaggt cgttcgctcc aagctgggct
      781 gtgtgcacga accccccgtt cagcccgacc gctgcgcctt atccggtaac tatcgtcttg
      841 agtccaaccc ggaaagacac gtaaaaacgc cactggcagc agccattggt aaccgtttag
      901 aggagttagt cttgaagtta tgcgccggtt aaggctaaac tgaaaggaca gatttggtgg
      961 ctgtgctcct ccaagccagt taccttggtt caaagagttg ctgctctgag aaccttcgaa
     1021 aagccgcctt gctgggcggt tttttcgttt acggacaaga ctaccttcag gatcgttaga
     1081 tctcaagaca atcatgcata gtgagcatac acaggagccg aacttgctta cactgttcat
     1141 cttttttgtt ttattaatag ctgcatgttt cttttgtttt gctccaccac gaagaggata
     1201 tgacagaaat gagatcattc catacaaaat aaaactatca ataaataaat atcgccttta
     1261 catatactca tcgggaaagg taagacaata ccttttattt ttagttattt tatcactgta
     1321 ctactccata gcggaaccat ttaagtctga gttaataaaa aacatatcat attcactgat
     1381 ggctgcattt atttttgata cagggcttaa ttttagcaag gagaatataa ctaaaggagt
     1441 gatttcaaca aggtggcata atgacctata ttcatcattt gagagaatga aagcaattaa
     1501 taaaatttac tacccatcca acaaagagat aaacacagaa ggtctatcca aagccatcac
     1561 atcatctctt ttcaatgatg acgcgaactc gttcgcaaag agagattttc gcttgatgtg
     1621 ggacttatct tctgaaaaat atctttccta taaagaaata ataataagaa aaggcgataa
     1681 gcttgacgct gtatgcttga gatttataaa tgatgactac aagtttttag ttaatttcaa
     1741 cagagatgaa gaggttttca aatactttcc atctataatg caaccttcac tcaaaacata
     1801 tagagcgtta tcaagactag taaactcaat caaagatcct tctagattta agttcacgac
     1861 agagtcatta gaaatggagt tactagaata cttagagtta agaaatgaat tattcaatga
     1921 catagaagaa gtaatgggta gctatgctca gagggcacca tagttcatga tagccctcga
     1981 tagtacttac ttatattttt agagaggttt aagtgtaagt agagggagta acacctggtt
     2041 tttcagcatc cactccaatg aatgctgaca ccgatacgcg ataattctct ttatcgtagc
     2101 aaaatcatcc tccagattgc ggttgagaat aggttcatgg tgcgcaatac gattgcgcag
     2161 ttttctcacg ggacttgtta gcagtaatgc ttccccccgg ggacaaacga cagagatata
     2221 caacaaaggc ccgcaattaa aatactccgt atttaccata acgtcgcatt gcgcgtaccg
     2281 cttaaacgcg ttcagcgcga tcacggcagc agacaggtaa aaacagcaac aaaccacccg
     2341 aaaaactgcc gcgatcgcgc ctggtaaatt ttaacctcat gcatagttat gcgcgaaact
     2401 gaatgacgat cagtttcgca cgttccagcc gtcgaacggg gcaaaatggg gaggtttgga
     2461 tattgttaat gctaatgtac gtacattaac attggcgcca tccgggtagg gcgtgccaca
     2521 aactggctcg atttcagggg gtaccccggt cacatcccca ttgacgggcc acgccagatc
     2581 cgcgcttcgg gttcctgctc ttcatgccag cgccgggcaa gctcctgcgc ctgacgctcc
     2641 tgttcatccc ttatctgttg ttcgtgataa ataaccgact caagcggtcg acttgtccgg
     2701 ctaatagctg cacctgctga ctcaagttca cgacacgctc gttcagtatc gcgttgttct
     2761 gttgcgtaac cgcgtgcatc ttctgcaatt ctgcgaaggc gctctcccac tcgttcagcc
     2821 gccgcatata gtcctgttgc aaatgctcta aggcgttcag caaatgccct tccagttccg
     2881 tcatactcgt ttactccctg accagcctca cggcgttctt gtcgcccacc gtccaggtgt
     2941 tttccccttt caccccgtcc ggcagcacca gaaatttccc gttctcgcca ttgacgaacg
     3001 tcacccccca ggtttttgcc tcgagtttcg ccagcgtgtt ttcctgctct ctgatggtca
     3061 agatattttt cgcaatcctg ctttcctgcc actgaatcag cccccagcac cccaggaaaa
     3121 tgccgcccgt gacgctgagc gcggtcagcg ccggaaacag tacccgccct ttgatcacct
     3181 gccagagcag gtttttctgc tgccgggaca gttcggcctc tgtggtgctg agctgcgtgc
     3241 tcacggtggt gctcagcgta tccagttgct gtttcacgga tgttgtatgt tcgctgatag
     3301 cgtctctgat tttctgcctg tttaagctca gtgccttgtc tacagactct tctagcttcc
     3361 tgaactcgct gttcagcatg ttctcggtag aagcggctcg ctctttcagt ttcttctcga
     3421 agtccgttcc catttgtaaa agattgctca tacagcgccc cctttagcct gagattccgc
     3481 cccccctccg ggtcggcaat actgatactg cttctggttg tcctcaccac ctcaaaacct
     3541 gccgctgtga gcgcctcagt gacatcctga cgcgttttta ttgctccggc acggtaaagc
     3601 gcctcaagac cccgtgtaat cgcttctgcg gcctcctgtt tcgcttttgg cagattattc
     3661 ggtgtgacaa gcgtccgtct gttctccggt gcgttcgggt cacgcagccc gtaatgatga
     3721 ttaaccagcg tctgccaggc atttatcctc ggcctgtccg cacggtcgta gtacggctgg
     3781 aggcgcttac cgctctgtag ttccatgttc ggaatgacaa aattcagttc gagccgcccc
     3841 ttatcctggt gttccaccca gagaatgctg tactggtttt tttcgagacc gggcataaga
     3901 acacgctcaa agctcgtcat cactctttcg cgttcacccg gcggtaactc cttctccgcg
     3961 aacgacagaa cgcctgacgt gtatttcttc gaaaatggcg tggcatcaat gagttcccgg
     4021 atttcttccg ggttaccccg gagcaccgtt gcgccttcgc ggttacgctc ccgccccagc
     4081 aggtaatcga ccgggccact tccaccgcct ttccccctgg catgaaattt aactatcatc
     4141 ccgtcccccc tgttccctga cagcctgccg caactggcgc aattcaccct cgatggccat
     4201 cagagcggcc accacatgaa cccggtcaat cgaagaccag tggccgctgt tcaccttccg
     4261 ggctgtctgg ttcagattgt tcccgatggc agccagatgc cgcagcaatg gcggcgatag
     4321 tgtcggcagt tttcctgtgc gcgcaaccgg ctcccccaga cagacccgcc gcatccattc
     4381 tgccagtcgt ttaccctcgc agcgttccag taaccgggcg tgctcctcat cgctaacccg
     4441 tatcgtgagc atcttctcgc gtttcatcgg tatcattccc cctaaaaaat cccctattaa
     4501 ggagccttaa gaccatgacc aaacaggaaa aaacagccct taacatggcc cgctttatca
     4561 gaagccagac gctgaccctg ctggaaaaac tca
//
