LOCUS       NZ_CP149402             4593 bp    DNA     circular CON 05-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            Z1323CSL0045 plasmid pZ1323CSL0045-3, complete sequence.
ACCESSION   NZ_CP149402
VERSION     NZ_CP149402.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40439938
            Assembly: GCF_037888875.1
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  JOURNAL   Unpublished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                   :: 126X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037888875.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 21:25:28
            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)                     :: 4,865
            CDSs (total)                      :: 4,743
            Genes (coding)                    :: 4,622
            CDSs (with protein)               :: 4,622
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 121
            CDSs (without protein)            :: 121
            Pseudo Genes (ambiguous residues) :: 0 of 121
            Pseudo Genes (frameshifted)       :: 47 of 121
            Pseudo Genes (incomplete)         :: 84 of 121
            Pseudo Genes (internal stop)      :: 23 of 121
            Pseudo Genes (multiple problems)  :: 30 of 121
            Pseudo Genes (short protein)      :: 1 of 121
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP149402.1.
            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="Z1323CSL0045"
                     /serovar="Typhimurium"
                     /host="Chicken"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pZ1323CSL0045-3"
                     /geo_loc_name="South Korea"
                     /collection_date="2023-03-22"
     gene            join(4324..4593,1..570)
                     /locus_tag="WI406_RS24295"
                     /old_locus_tag="WI406_24295"
     CDS             join(4324..4593,1..570)
                     /locus_tag="WI406_RS24295"
                     /old_locus_tag="WI406_24295"
                     /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(1258..1491)
                     /locus_tag="WI406_RS24300"
                     /old_locus_tag="WI406_24300"
     CDS             complement(1258..1491)
                     /locus_tag="WI406_RS24300"
                     /old_locus_tag="WI406_24300"
                     /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(1498..2058)
                     /locus_tag="WI406_RS24305"
                     /old_locus_tag="WI406_24305"
     CDS             complement(1498..2058)
                     /locus_tag="WI406_RS24305"
                     /old_locus_tag="WI406_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(<2093..2746)
                     /locus_tag="WI406_RS24310"
                     /old_locus_tag="WI406_24310"
                     /pseudo=""
     CDS             complement(<2093..2746)
                     /locus_tag="WI406_RS24310"
                     /old_locus_tag="WI406_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(2736..3059)
                     /locus_tag="WI406_RS24315"
                     /old_locus_tag="WI406_24315"
     CDS             complement(2736..3059)
                     /locus_tag="WI406_RS24315"
                     /old_locus_tag="WI406_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            3122..3313
                     /locus_tag="WI406_RS24320"
                     /old_locus_tag="WI406_24320"
     CDS             3122..3313
                     /locus_tag="WI406_RS24320"
                     /old_locus_tag="WI406_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            3983..4132
                     /locus_tag="WI406_RS24325"
                     /old_locus_tag="WI406_24325"
     CDS             3983..4132
                     /locus_tag="WI406_RS24325"
                     /old_locus_tag="WI406_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"
     Typing          complement(3402..3486)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          3497..4052
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.907"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1161..2746)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.811"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tttgatacag ggcttaattt tagcaaggag aatataacta aaggagtgat ttcaacaagg
       61 tggcataatg acctatattc atcatttgag agaatgaaag caattaataa aatttactac
      121 ccatccaaca aagagataaa cacagaaggt ctatccaaag ccatcacatc atctcttttc
      181 aatgatgacg cgaactcgtt cgcaaagaga gattttcgct tgatgtggga cttatcttct
      241 gaaaaatatc tttcctataa agaaataata ataagaaaag gcgataagct tgacgctgta
      301 tgcttgagat ttataaatga tgactacaag tttttagtta atttcaacag agatgaagag
      361 gttttcaaat actttccatc tataatgcaa ccttcactca aaacatatag agcgttatca
      421 agactagtaa actcaatcaa agatccttct agatttaagt tcacgacaga gtcattagaa
      481 atggagttac tagaatactt agagttaaga aatgaattat tcaatgacat agaagaagta
      541 atgggtagct atgctcagag ggcaccatag ttcatgatag ccctcgatag tacttactta
      601 tatttttaga gaggtttaag tgtaagtaga gggagtaaca cctggttttt cagcatccac
      661 tccaatgaat gctgacaccg atacgcgata attctcttta tcgtagcaaa atcatcctcc
      721 agattgcggt tgagaatagg ttcatggtgc gcaatacgat tgcgcagttt tctcacggga
      781 cttgttagca gtaatgcttc cccccgggga caaacgacag agatatacaa caaaggcccg
      841 caattaaaat actccgtatt taccataacg tcgcattgcg cgtaccgctt aaacgcgttc
      901 agcgcgatca cggcagcaga caggtaaaaa cagcaacaaa ccacccgaaa aactgccgcg
      961 atcgcgcctg gtaaatttta acctcatgca tagttatgcg cgaaactgaa tgacgatcag
     1021 tttcgcacgt tccagccgtc gaacggggca aaatggggag gtttggatat tgttaatgct
     1081 aatgtacgta cattaacatt ggcgccatcc gggtagggcg tgccacaaac tggctcgatt
     1141 tcagggggta ccccggtcac atccccattg acgggccacg ccagatccgc gcttcgggtt
     1201 cctgctcttc atgccagcgc cgggcaagct cctgcgcctg acgctcctgt tcatccctta
     1261 tctgttgttc gtgataaata accgactcaa gcggtcgact tgtccggcta atagctgcac
     1321 ctgctgactc aagttcacga cacgctcgtt cagtatcgcg ttgttctgtt gcgtaaccgc
     1381 gtgcatcttc tgcaattctg cgaaggcgct ctcccactcg ttcagccgcc gcatatagtc
     1441 ctgttgcaaa tgctctaagg cgttcagcaa atgcccttcc agttccgtca tactcgttta
     1501 ctccctgacc agcctcacgg cgttcttgtc gcccaccgtc caggtgtttt cccctttcac
     1561 cccgtccggc agcaccagaa atttcccgtt ctcgccattg acgaacgtca ccccccaggt
     1621 ttttgcctcg agtttcgcca gcgtgttttc ctgctctctg atggtcaaga tatttttcgc
     1681 aatcctgctt tcctgccact gaatcagccc ccagcacccc aggaaaatgc cgcccgtgac
     1741 gctgagcgcg gtcagcgccg gaaacagtac ccgccctttg atcacctgcc agagcaggtt
     1801 tttctgctgc cgggacagtt cggcctctgt ggtgctgagc tgcgtgctca cggtggtgct
     1861 cagcgtatcc agttgctgtt tcacggatgt tgtatgttcg ctgatagcgt ctctgatttt
     1921 ctgcctgttt aagctcagtg ccttgtctac agactcttct agcttcctga actcgctgtt
     1981 cagcatgttc tcggtagaag cggctcgctc tttcagtttc ttctcgaagt ccgttcccat
     2041 ttgtaaaaga ttgctcatac agcgccccct ttagcctgag attccgcccc ccctccgggt
     2101 cggcaatact gatactgctt ctggttgtcc tcaccacctc aaaacctgcc gctgtgagcg
     2161 cctcagtgac atcctgacgc gtttttattg ctccggcacg gtaaagcgcc tcaagacccc
     2221 gtgtaatcgc ttctgcggcc tcctgtttcg cttttggcag attattcggt gtgacaagcg
     2281 tccgtctgtt ctccggtgcg ttcgggtcac gcagcccgta atgatgatta accagcgtct
     2341 gccaggcatt tatcctcggc ctgtccgcac ggtcgtagta cggctggagg cgcttaccgc
     2401 tctgtagttc catgttcgga atgacaaaat tcagttcgag ccgcccctta tcctggtgtt
     2461 ccacccagag aatgctgtac tggttttttt cgagaccggg cataagaaca cgctcaaagc
     2521 tcgtcatcac tctttcgcgt tcacccggcg gtaactcctt ctccgcgaac gacagaacgc
     2581 ctgacgtgta tttcttcgaa aatggcgtgg catcaatgag ttcccggatt tcttccgggt
     2641 taccccggag caccgttgcg ccttcgcggt tacgctcccg ccccagcagg taatcgaccg
     2701 ggccacttcc accgcctttc cccctggcat gaaatttaac tatcatcccg tcccccctgt
     2761 tccctgacag cctgccgcaa ctggcgcaat tcaccctcga tggccatcag agcggccacc
     2821 acatgaaccc ggtcaatcga agaccagtgg ccgctgttca ccttccgggc tgtctggttc
     2881 agattgttcc cgatggcagc cagatgccgc agcaatggcg gcgatagtgt cggcagtttt
     2941 cctgtgcgcg caaccggctc ccccagacag acccgccgca tccattctgc cagtcgttta
     3001 ccctcgcagc gttccagtaa ccgggcgtgc tcctcatcgc taacccgtat cgtgagcatc
     3061 ttctcgcgtt tcatcggtat cattccccct aaaaaatccc ctattaagga gccttaagac
     3121 catgaccaaa caggaaaaaa cagcccttaa catggcccgc tttatcagaa gccagacgct
     3181 gaccctgctg gaaaaactca acgagctgga cgcggacgaa caggcagaca tctgcgaatc
     3241 acttcacgac cacgccgacg aactctaccg tagttgcctc gcacgcttcg gcgatgacgg
     3301 tgaaagcaac tgaaacatgc agctcccgga gacgttcaca gcttgcctgt gagcggatgc
     3361 cgggagcaga caagcccgtc agggcgcgtc agcgggtttt agcgggtgtc ggggcgcagc
     3421 cctgacccag tcacgtagcg atagcggagt gtatactggc ttaactatgt ggcatcagtg
     3481 cggattataa gaaaagtgca ccatatgcgg tgtgaaatac cgcacagatg cgtaaggaga
     3541 aaatgccgca tcaggcgctc ttccgcttcc tcgctcactg actcgctacg ctcggtcgtt
     3601 cggctgcggc gagcggtatc agctcactca aagacggtga tgcggttatc cacagaatca
     3661 ggggataacg ccaaaagaaa catgtgagca aaaggccagg aacaggaaga aggccgcgcc
     3721 gctggcgttt ttccataggc tccgcccccc tgacgagcat cacaaaaaca gatgctcaag
     3781 tcagaggtgg cgaaacccga caggactata aagataccag gcgtttcccc ctggaagctc
     3841 cctcgtgcgc tctcctgttc cgaccctgcc gcttaccgga tacctgtccg cctttctccc
     3901 ttcgggaagc gtggcgcttt ctcatagctc acgctgttgg tatctcggcc cggtgtaggt
     3961 cgttcgctcc aagctgggct gtgtgcacga accccccgtt cagcccgacc gctgcgcctt
     4021 atccggtaac tatcgtcttg agtccaaccc ggaaagacac gtaaaaacgc cactggcagc
     4081 agccattggt aaccgtttag aggagttagt cttgaagtta tgcgccggtt aaggctaaac
     4141 tgaaaggaca gatttggtgg ctgtgctcct ccaagccagt taccttggtt caaagagttg
     4201 ctgctctgag aaccttcgaa aagccgcctt gctgggcggt tttttcgttt acggacaaga
     4261 ctaccttcag gatcgttaga tctcaagaca atcatgcata gtgagcatac acaggagccg
     4321 aacttgctta cactgttcat cttttttgtt ttattaatag ctgcatgttt cttttgtttt
     4381 gctccaccac gaagaggata tgacagaaat gagatcattc catacaaaat aaaactatca
     4441 ataaataaat atcgccttta catatactca tcgggaaagg taagacaata ccttttattt
     4501 ttagttattt tatcactgta ctactccata gcggaaccat ttaagtctga gttaataaaa
     4561 aacatatcat attcactgat ggctgcattt att
//
