LOCUS       NZ_CP149306             4593 bp    DNA     circular CON 05-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            Z1323SSL0045 plasmid pZ1323SSL0045-4, complete sequence.
ACCESSION   NZ_CP149306
VERSION     NZ_CP149306.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40439971
            Assembly: GCF_037855395.1
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  JOURNAL   Unpublished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                   :: 102X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037855395.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 21:24:13
            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)                     :: 4,858
            CDSs (total)                      :: 4,735
            Genes (coding)                    :: 4,599
            CDSs (with protein)               :: 4,599
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 136
            CDSs (without protein)            :: 136
            Pseudo Genes (ambiguous residues) :: 0 of 136
            Pseudo Genes (frameshifted)       :: 44 of 136
            Pseudo Genes (incomplete)         :: 99 of 136
            Pseudo Genes (internal stop)      :: 22 of 136
            Pseudo Genes (multiple problems)  :: 27 of 136
            Pseudo Genes (short protein)      :: 1 of 136
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP149306.1.
            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="Z1323SSL0045"
                     /serovar="Typhimurium"
                     /host="Pig"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pZ1323SSL0045-4"
                     /geo_loc_name="South Korea"
                     /collection_date="2023-04-06"
     gene            complement(join(4469..4593,1..394))
                     /locus_tag="WI427_RS24260"
                     /old_locus_tag="WI427_24260"
     CDS             complement(join(4469..4593,1..394))
                     /locus_tag="WI427_RS24260"
                     /old_locus_tag="WI427_24260"
                     /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_308415691.1"
                     /translation="MKERAASTENMLNSEFRKLEESVDKALSLNRQKIRDAISEHTTSV
                     KQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTALSVTGGIFLGCWGL
                     IQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVLPDGVKGENTWTVGD
                     KNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(<282..1124)
                     /locus_tag="WI427_RS24265"
                     /old_locus_tag="WI427_24265"
                     /pseudo=""
     CDS             complement(<282..1124)
                     /locus_tag="WI427_RS24265"
                     /old_locus_tag="WI427_24265"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557251.1"
                     /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(1114..1437)
                     /locus_tag="WI427_RS24270"
                     /old_locus_tag="WI427_24270"
     CDS             complement(1114..1437)
                     /locus_tag="WI427_RS24270"
                     /old_locus_tag="WI427_24270"
                     /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            1500..1691
                     /locus_tag="WI427_RS24275"
                     /old_locus_tag="WI427_24275"
     CDS             1500..1691
                     /locus_tag="WI427_RS24275"
                     /old_locus_tag="WI427_24275"
                     /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            2361..2510
                     /locus_tag="WI427_RS24280"
                     /old_locus_tag="WI427_24280"
     CDS             2361..2510
                     /locus_tag="WI427_RS24280"
                     /old_locus_tag="WI427_24280"
                     /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            2702..3541
                     /locus_tag="WI427_RS24285"
                     /old_locus_tag="WI427_24285"
     CDS             2702..3541
                     /locus_tag="WI427_RS24285"
                     /old_locus_tag="WI427_24285"
                     /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(4229..4462)
                     /locus_tag="WI427_RS24290"
                     /old_locus_tag="WI427_24290"
     CDS             complement(4229..4462)
                     /locus_tag="WI427_RS24290"
                     /old_locus_tag="WI427_24290"
                     /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(1780..1864)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          1875..2430
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.907"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(4..1124)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(4132..4592)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="1.05e-79"
ORIGIN
        1 ttgcctcgag tttcgccagc gtgttttcct gctctctgat ggtcaagata tttttcgcaa
       61 tcctgctttc ctgccactga atcagccccc agcaccccag gaaaatgccg cccgtgacgc
      121 tgagcgcggt cagcgccgga aacagtaccc gccctttgat cacctgccag agcaggtttt
      181 tctgctgccg ggacagttcg gcctctgtgg tgctgagctg cgtgctcacg gtggtgctca
      241 gcgtatccag ttgctgtttc acggatgttg tatgttcgct gatagcgtct ctgattttct
      301 gcctgtttaa gctcagtgcc ttgtctacag actcttctag cttcctgaac tcgctgttca
      361 gcatgttctc ggtagaagcg gctcgctctt tcagtttctt ctcgaagtcc gttcccattt
      421 gtaaaagatt gctcatacag cgcccccttt agcctgagat tccgcccccc ctccgggtcg
      481 gcaatactga tactgcttct ggttgtcctc accacctcaa aacctgccgc tgtgagcgcc
      541 tcagtgacat cctgacgcgt ttttattgct ccggcacggt aaagcgcctc aagaccccgt
      601 gtaatcgctt ctgcggcctc ctgtttcgct tttggcagat tattcggtgt gacaagcgtc
      661 cgtctgttct ccggtgcgtt cgggtcacgc agcccgtaat gatgattaac cagcgtctgc
      721 caggcattta tcctcggcct gtccgcacgg tcgtagtacg gctggaggcg cttaccgctc
      781 tgtagttcca tgttcggaat gacaaaattc agttcgagcc gccccttatc ctggtgttcc
      841 acccagagaa tgctgtactg gtctttttcg agaccgggca taagaacacg ctcaaagctc
      901 gtcatcactc tttcgcgttc acccggcggt aactccttct ccgcgaacga cagaacgcct
      961 gacgtgtatt tcttcgaaaa tggcgtggca tcaatgagtt cccggatttc ttccgggtta
     1021 ccccggagca ccgttgcgcc ttcgcggtta cgctcccgcc ccagcaggta atcgaccggg
     1081 ccacttccac cgcctttccc cctggcatga aatttaacta tcatcccgtc ccccctgttc
     1141 cctgacagcc tgccgcaact ggcgcaattc accctcgatg gccatcagag cggccaccac
     1201 atgaacccgg tcaatcgaag accagtggcc gctgttcacc ttccgggctg tctggttcag
     1261 attgttcccg atggcagcca gatgccgcag caatggcggc gatagtgtcg gcagttttcc
     1321 tgtgcgcgca accggctccc ccagacagac ccgccgcatc cattctgcca gtcgtttacc
     1381 ctcgcagcgt tccagtaacc gggcgtgctc ctcatcgcta acccgtatcg tgagcatctt
     1441 ctcgcgtttc atcggtatca ttccccctaa aaaatcccct attaaggagc cttaagacca
     1501 tgaccaaaca ggaaaaaaca gcccttaaca tggcccgctt tatcagaagc cagacgctga
     1561 ccctgctgga aaaactcaac gagctggacg cggacgaaca ggcagacatc tgcgaatcac
     1621 ttcacgacca cgccgacgaa ctctaccgta gttgcctcgc acgcttcggc gatgacggtg
     1681 aaagcaactg aaacatgcag ctcccggaga cgttcacagc ttgcctgtga gcggatgccg
     1741 ggagcagaca agcccgtcag ggcgcgtcag cgggttttag cgggtgtcgg ggcgcagccc
     1801 tgacccagtc acgtagcgat agcggagtgt atactggctt aactatgtgg catcagtgcg
     1861 gattataaga aaagtgcacc atatgcggtg tgaaataccg cacagatgcg taaggagaaa
     1921 atgccgcatc aggcgctctt ccgcttcctc gctcactgac tcgctacgct cggtcgttcg
     1981 gctgcggcga gcggtatcag ctcactcaaa gacggtgatg cggttatcca cagaatcagg
     2041 ggataacgcc aaaagaaaca tgtgagcaaa aggccaggaa caggaagaag gccgcgccgc
     2101 tggcgttttt ccataggctc cgcccccctg acgagcatca caaaaacaga tgctcaagtc
     2161 agaggtggcg aaacccgaca ggactataaa gataccaggc gtttccccct ggaagctccc
     2221 tcgtgcgctc tcctgttccg accctgccgc ttaccggata cctgtccgcc tttctccctt
     2281 cgggaagcgt ggcgctttct catagctcac gctgttggta tctcggcccg gtgtaggtcg
     2341 ttcgctccaa gctgggctgt gtgcacgaac cccccgttca gcccgaccgc tgcgccttat
     2401 ccggtaacta tcgtcttgag tccaacccgg aaagacacgt aaaaacgcca ctggcagcag
     2461 ccattggtaa ccgtttagag gagttagtct tgaagttatg cgccggttaa ggctaaactg
     2521 aaaggacaga tttggtggct gtgctcctcc aagccagtta ccttggttca aagagttgct
     2581 gctctgagaa ccttcgaaaa gccgccttgc tgggcggttt tttcgtttac ggacaagact
     2641 accttcagga tcgttagatc tcaagacaat catgcatagt gagcatacac aggagccgaa
     2701 cttgcttaca ctgttcatct tttttgtttt attaatagct gcatgtttct tttgttttgc
     2761 tccaccacga agaggatatg acagaaatga gatcattcca tacaaaataa aactatcaat
     2821 aaataaatat cgcctttaca tatactcatc gggaaaggta agacaatacc ttttattttt
     2881 agttatttta tcactgtact actccatagc ggaaccattt aagtctgagt taataaaaaa
     2941 catatcatat tcactgatgg ctgcatttat ttttgataca gggcttaatt ttagcaagga
     3001 gaatataact aaaggagtga tttcaacaag gtggcataat gacctatatt catcatttga
     3061 gagaatgaaa gcaattaata aaatttacta cccatccaac aaagagataa acacagaagg
     3121 tctatccaaa gccatcacat catctctttt caatgatgac gcgaactcgt tcgcaaagag
     3181 agattttcgc ttgatgtggg acttatcttc tgaaaaatat ctttcctata aagaaataat
     3241 aataagaaaa ggcgataagc ttgacgctgt atgcttgaga tttataaatg atgactacaa
     3301 gtttttagtt aatttcaaca gagatgaaga ggttttcaaa tactttccat ctataatgca
     3361 accttcactc aaaacatata gagcgttatc aagactagta aactcaatca aagatccttc
     3421 tagatttaag ttcacgacag agtcattaga aatggagtta ctagaatact tagagttaag
     3481 aaatgaatta ttcaatgaca tagaagaagt aatgggtagc tatgctcaga gggcaccata
     3541 gttcatgata gccctcgata gtacttactt atatttttag agaggtttaa gtgtaagtag
     3601 agggagtaac acctggtttt tcagcatcca ctccaatgaa tgctgacacc gatacgcgat
     3661 aattctcttt atcgtagcaa aatcatcctc cagattgcgg ttgagaatag gttcatggtg
     3721 cgcaatacga ttgcgcagtt ttctcacggg acttgttagc agtaatgctt ccccccgggg
     3781 acaaacgaca gagatataca acaaaggccc gcaattaaaa tactccgtat ttaccataac
     3841 gtcgcattgc gcgtaccgct taaacgcgtt cagcgcgatc acggcagcag acaggtaaaa
     3901 acagcaacaa accacccgaa aaactgccgc gatcgcgcct ggtaaatttt aacctcatgc
     3961 atagttatgc gcgaaactga atgacgatca gtttcgcacg ttccagccgt cgaacggggc
     4021 aaaatgggga ggtttggata ttgttaatgc taatgtacgt acattaacat tggcgccatc
     4081 cgggtagggc gtgccacaaa ctggctcgat ttcagggggt accccggtca catccccatt
     4141 gacgggccac gccagatccg cgcttcgggt tcctgctctt catgccagcg ccgggcaagc
     4201 tcctgcgcct gacgctcctg ttcatccctt atctgttgtt cgtgataaat aaccgactca
     4261 agcggtcgac ttgtccggct aatagctgca cctgctgact caagttcacg acacgctcgt
     4321 tcagtatcgc gttgttctgt tgcgtaaccg cgtgcatctt ctgcaattct gcgaaggcgc
     4381 tctcccactc gttcagccgc cgcatatagt cctgttgcaa atgctctaag gcgttcagca
     4441 aatgcccttc cagttccgtc atactcgttt actccctgac cagcctcacg gcgttcttgt
     4501 cgcccaccgt ccaggtgttt tcccctttca ccccgtccgg cagcaccaga aatttcccgt
     4561 tctcgccatt gacgaacgtc accccccagg ttt
//
