LOCUS       NZ_CP149414             3372 bp    DNA     circular CON 05-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            Z1322HSL0016 plasmid pZ1322HSL0016-3, complete sequence.
ACCESSION   NZ_CP149414
VERSION     NZ_CP149414.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40439933
            Assembly: GCF_037888925.1
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 3372)
  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  JOURNAL   Unpublished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 3372)
  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                   :: 115X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037888925.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 21:14:24
            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)                      :: 4,744
            Genes (coding)                    :: 4,621
            CDSs (with protein)               :: 4,621
            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)              :: 123
            CDSs (without protein)            :: 123
            Pseudo Genes (ambiguous residues) :: 0 of 123
            Pseudo Genes (frameshifted)       :: 47 of 123
            Pseudo Genes (incomplete)         :: 85 of 123
            Pseudo Genes (internal stop)      :: 24 of 123
            Pseudo Genes (multiple problems)  :: 30 of 123
            Pseudo Genes (short protein)      :: 1 of 123
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP149414.1.
            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..3372
                     /organism="Salmonella enterica subsp. enterica serovar
                     Typhimurium"
                     /mol_type="genomic DNA"
                     /strain="Z1322HSL0016"
                     /serovar="Typhimurium"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pZ1322HSL0016-3"
                     /geo_loc_name="South Korea"
                     /collection_date="2022-06-14"
     gene            complement(871..1104)
                     /locus_tag="WI415_RS24310"
                     /old_locus_tag="WI415_24310"
     CDS             complement(871..1104)
                     /locus_tag="WI415_RS24310"
                     /old_locus_tag="WI415_24310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /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_000137389.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1111..1671)
                     /locus_tag="WI415_RS24315"
                     /old_locus_tag="WI415_24315"
     CDS             complement(1111..1671)
                     /locus_tag="WI415_RS24315"
                     /old_locus_tag="WI415_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_000067487.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKKQLDTLSTTVSMQFSTTEAELSRQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(<1703..2359)
                     /locus_tag="WI415_RS24320"
                     /old_locus_tag="WI415_24320"
                     /pseudo=""
     CDS             complement(<1703..2359)
                     /locus_tag="WI415_RS24320"
                     /old_locus_tag="WI415_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(2349..2672)
                     /locus_tag="WI415_RS24325"
                     /old_locus_tag="WI415_24325"
     CDS             complement(2349..2672)
                     /locus_tag="WI415_RS24325"
                     /old_locus_tag="WI415_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_024132211.1"
                     /translation="MLTIRVTDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2736..2927
                     /locus_tag="WI415_RS24330"
                     /old_locus_tag="WI415_24330"
     CDS             2736..2927
                     /locus_tag="WI415_RS24330"
                     /old_locus_tag="WI415_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_000165979.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNDLDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(3009..3089)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.805"
                     /coverage="93.0"
                     /evalue="8.68e-18"
     Typing          complement(789..2359)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.817"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tggtgaaagg ttggagggaa cggcaacaac tcacccctcc cagtgaaggg acgggtagtt
       61 tgccgctctc gatatgccgg acggagccaa ggccatcgat cacggggcgc gtcagtggaa
      121 gaacccgcgc ctgcgtgacg tatgcgtctt cgccgcacca tctcacccgt cacgccacca
      181 cataccggga actgccgcca aggtctaact caaccaatct agccgcgcta catacggttt
      241 ttgtggcaac tcatcaggtg tccgctgtcg atgaaactct ctgcgccggt agcggaactc
      301 tcacgcgtgc ggtcgccgtc gtcacagctc ccccaaccgc aaacgattct cgcaaatacg
      361 caagtatctg caaaaacagg tttttttcgg ggttcctggg agactgtgct gttgaaaaat
      421 tcttgaagaa tacagaaggc tcatgcaaac tgaatgaact ggtttctgtt gtggatctca
      481 acagtttcca caggaacatt gaggaggtca gagacctcaa tgaacccgaa acagctcgcc
      541 ttcctggcga gctgttttcg ttctacgccc gccgacgaaa gatcgcaagt gcaataacga
      601 gatttttcac gtctttacgc tcaaaaagta aaaaaaccat gttttcccct ggctgaatcc
      661 ccaaaaacgc gtgaaatgcg ttttcaggat gttgcatagc tatgcacaaa tacggcacac
      721 gatttgtttc gctcgcccca gccgtcgaac tggtcaaaat ggcaagattt cgtcacttcc
      781 ccggtcacat ctccattgat ggcccactcc gaacccgtgc cgcgcgttcc tgtacctcat
      841 gtctgtaccg ggcacgctcc tgttcatccc ttagctgttg ttcgcgataa ataaccgact
      901 caagcgatcc acttgcccgg ctaatctctg cacctgctga ctcaatatca cgacgcgctc
      961 gttcagtatc gcgttgttcc gttgcgtaac ctcgtgcatc ttctgcaatt ccgcgaaggc
     1021 gctctcccac tcgttcagcc gccgcatata gtcctgttgc aaatgctcta aggcgttcag
     1081 caaatgccct tccagttccg tcatactcgt ttactccctg accagcctca cggcgttctt
     1141 gtcgcccacc gtccaggtgt tttccccttt caccccgtcc ggcaacacca gaaatttccc
     1201 gttctcgcca ttgacgaacg tcacccccca ggtttttgcc tcgagtttcg ccagcgtgtt
     1261 ttcctgctct ctgatagtca ggatattttt cgcaatcttg ctttcctgcc actccatcag
     1321 cccccagcac cccaggaaaa tgccgcccgt gacgctgagc gcggtcagcg ccggaaacag
     1381 tatccgccct ttgatcaccc gccagagcag ttttttctgc tgccgggaca gttcggcctc
     1441 tgtggtgctg aactgcatgc tcacggtggt gctcagcgta tccagttgct ttttcacgga
     1501 tgttgtatgt tcgctgatag cgtctctgat tttctgcctg tttaagctca atgccttgtc
     1561 tacagactct tcgagcttcc tgaactcgct gttcagcatg ttctcggtag aagcggctcg
     1621 ctctttcagt ttcttctcga agtctgttcc catttgtaaa agattgctca tacagcgccc
     1681 cctttagcct gagattccgc cccccctccg ggtcggcaat actgatgctg cttttggttg
     1741 tcctcaccac ctcaaaacct gccgctgtaa gcgcctctgt gacatcctga cgcgttttta
     1801 ttgctccggc atggtaaaga gcctcaagac cccgtgtaat cgcttctgcg gcctcctgtt
     1861 tcgcttttgg cagattattt ggcgtgacaa gcgtccgtct gttctccggt gcgttcgggt
     1921 cacgcagccc gtaatgatga ttaaccagcg tctgccaggc atttatcctc ggcctgtccg
     1981 cgcggtcgta gtacggctgg aggcgcttac cgctctgtag ctccatgttc gggatgacaa
     2041 aattcagttc gagccgcccc ttatcctggt gttccaccca gagaatgctg tactggtctt
     2101 tttcgagacc gggcataaga acacgctcaa agctcgtcat cactctttcg cgttcacccg
     2161 gcggtaactc cttctccgcg aacgacagaa cgcctgaagt gtatttcttc gagaatggcg
     2221 tggaatcaat gagttcccgc acttcttccg ggttaccccg gagcaccgtt gcgccttcgc
     2281 ggttacgctc ccgccccagc aggtaatcga ccgggccact tccaccgcct ttccccctgg
     2341 catgaaattt aactatcatc ccgtaccccc tgttccctga cagcctgccg caactggcgc
     2401 aattcaccct cgatggccat cagtgcggcc accacatgaa cccggtcaat cgaagaccac
     2461 tggccgctgt tcaccttccg ggctgtctgg ttcaggttgt tcccgatggc agccagatgc
     2521 cgcagcaatg gcggcgatag tgtcggcagt tttcctgtgc gtgcaaccgg ctcccccaga
     2581 cagacccgcc gcatccattc cgccagtcgt ttaccctcgc agcgttccag taaccgggcg
     2641 tgctcctcat cggtaacccg tatcgtgagc atcttctcgc gtttcatcgg tatcattccc
     2701 cctaacaaat cccccataca aggagcctta agaccatgac caaacaggaa aaaacagccc
     2761 ttaacatggc tcgctttatc agaagccaga cgctaaccct gctggaaaaa ctcaacgatc
     2821 tggacgcgga cgaacaggca gacatctgcg aatcacttca cgaccacgcc gacgaactct
     2881 accgcagttg cctcgcacgc ttcggcgatg acggtgaaag caactgaaac atgcagctcc
     2941 cggagacgtt cacagcttgc ctgtgagcgg atgccgggag cagacaagcc cgccagggcg
     3001 cgtcagtgcg ggtgtcgggg cgcagccctg acccagttca cagagcgata gcgatgtgta
     3061 tactggctta tctcattttg catcggtgca gacatggatg ggaagtgcac catgtcagga
     3121 gtaaaaagcc gcacagatgt aaaaacagcg cacccgataa acagcacaca cgcggacact
     3181 ggcacaggcg cgtaagtgca caatgcttgc atctgtgact cttccgcttc ctcgcccact
     3241 cgctcactac gttcggtcgc tggggctgcg gcgagcggtg ggatcactct cgttgtgatg
     3301 cagatccgtt tttttttttg cactggagtt atcaggagtt gcggtgcaca tgggatcgtg
     3361 cgatatgccg ga
//
