LOCUS       NZ_CP149277             3830 bp    DNA     circular CON 20-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain
            Z1322HSL0029 plasmid pZ1322HSL0029-3, complete sequence.
ACCESSION   NZ_CP149277
VERSION     NZ_CP149277.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40440204
            Assembly: GCF_038381885.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar 4,[5],12:i:-
  ORGANISM  Salmonella enterica subsp. enterica serovar 4,[5],12:i:-
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3830)
  AUTHORS   Chae,J.-C., Oh,J.Y., Jeong,J.H. and Kwak,S.M.
  TITLE     Complete genome sequence of Salmonella enterica subsp. enterica
            serovar 4,[5],12:i:- isolated from humans and pigs
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3830)
  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                   :: 114X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_038381885.1-RS_2024_04_19
            Annotation Date                   :: 04/19/2024 13:00:31
            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)                     :: 5,220
            CDSs (total)                      :: 5,097
            Genes (coding)                    :: 4,974
            CDSs (with protein)               :: 4,974
            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)              :: 123
            CDSs (without protein)            :: 123
            Pseudo Genes (ambiguous residues) :: 0 of 123
            Pseudo Genes (frameshifted)       :: 35 of 123
            Pseudo Genes (incomplete)         :: 100 of 123
            Pseudo Genes (internal stop)      :: 18 of 123
            Pseudo Genes (multiple problems)  :: 28 of 123
            Pseudo Genes (short protein)      :: 1 of 123
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP149277.1.
            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..3830
                     /organism="Salmonella enterica subsp. enterica serovar
                     4,[5],12:i:-"
                     /mol_type="genomic DNA"
                     /strain="Z1322HSL0029"
                     /serovar="4,[5],12:i:-"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:440524"
                     /plasmid="pZ1322HSL0029-3"
                     /geo_loc_name="South Korea"
                     /collection_date="2022-07-19"
     gene            654..920
                     /locus_tag="WIY56_RS26085"
                     /old_locus_tag="WIY56_26085"
     CDS             654..920
                     /locus_tag="WIY56_RS26085"
                     /old_locus_tag="WIY56_26085"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_213069224.1"
                     /translation="MKRSQLTLIDGCFMFGFSPGELMNLCPDERLLFVRMISAMLRRSG
                     GDAGAVMFEAYRHIVSDTNQARRSCMLDLLESVRHDYVHGGYT"
                     /name="hypothetical protein"
     gene            complement(968..1156)
                     /locus_tag="WIY56_RS26090"
                     /old_locus_tag="WIY56_26090"
     CDS             complement(968..1156)
                     /locus_tag="WIY56_RS26090"
                     /old_locus_tag="WIY56_26090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165998.1"
                     /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_000165998.1"
                     /translation="MTKQESAALNMAKFIRAQSLLLLEKLDVLDLDDEAADCERMHEQA
                     EALYQKLSARFGIQDGE"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1446..3350)
                     /locus_tag="WIY56_RS26095"
                     /old_locus_tag="WIY56_26095"
     CDS             complement(1446..3350)
                     /locus_tag="WIY56_RS26095"
                     /old_locus_tag="WIY56_26095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003839290.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="methyl-accepting chemotaxis protein"
                     /protein_id="WP_052895204.1"
                     /translation="MSWAYRISMQMKLFIALFPLLLALVWFAGSGIVSRINTEQQMNTI
                     GQLTTLARSAGDVVHQLQSERGMSAGFIGARGQKFRDDLAAQRQLTDKVLATFKRLLTD
                     TNKDLLQGNIAAPLKTFNESIQFLDSTRTAISELTIDSPKASQFYTQTISDVLKFVGGM
                     GHLSTSGSMVNELAAYYSLLNLKEQAGVERALLSNIFSMDRFDDGQFSMFSDVVGQQDA
                     WLTAARSFSTPVQAAELDKSLQSAEATRALELRETAFNKAAEGGFGVNPTDWFNLQTQR
                     IETLQKVENRAVDALQEHAALLAHNARVDWQSFLVISLVALLIAIAFAVMVARSIQQQL
                     NGTLKTIAEMDGDLTRRLDVPGSDELSALNRAYNQAIENIQHIVQEIKSGAVVLRSASS
                     DIAAGNQDLAQRTDEQAASIVETAASMEQISTAITQTADNASEAERLIHSMERDVLEAN
                     RVSNEASQSMAEIRSSSEQISQIVASIDEISFQTNLLALNAAVEAARAGELGKGFAVVA
                     TEVRNLSQRCAREASQIRELINQNMDKIGEGVARVTASGTALKAAAENTGRMKQYVSDI
                     ARAANEQSLGVSQVHQALNQLEQVTQQNAALVSQAASASQMLDGQSEAMSTLVDRFIV"
                     /name="methyl-accepting chemotaxis protein"
     gene            complement(3656..3805)
                     /locus_tag="WIY56_RS26100"
                     /old_locus_tag="WIY56_26100"
     CDS             complement(3656..3805)
                     /locus_tag="WIY56_RS26100"
                     /old_locus_tag="WIY56_26100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505258.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_077464408.1"
                     /translation="MHEPPVQSDCCAFSGNYRLESNPERHEKSPLAAATGKQDVREMYR
                     EFLK"
                     /name="replication initiation protein"
     Typing          338..510
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.379"
                     /coverage="100.0"
                     /evalue="9.47e-61"
     Typing          complement(2..364)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.681"
                     /coverage="98.0"
                     /evalue="1.71e-152"
     Typing          complement(3479..3830)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="82.667"
                     /coverage="99.0"
                     /evalue="3.16e-80"
ORIGIN
        1 ttcccggaac tgagtgtcag gcgtggaatg agataaacgc ggccataaca gcggaatgac
       61 accggtaaac cgaaaggcag gaacaggaga gcgcacgagg gagctaccag ggggaaacgc
      121 ctgggatctt tatagtcctg tcgggtttcg ccgccactga tttgagcgtc agatttcgtg
      181 atgcttgtca ggggggcgga gcctatggaa aaacggcttc gccgcggcct taccgtttcc
      241 ctgttaagtt tcttcctggc atctcccagg aaatttccgc cccattcgta atcccgcacc
      301 gctcgccgca gccgaacgac cgagcgcagc gagtcagtga gcgaggaagc ggaatatctc
      361 ctgtctcata tattccgctt acgctctgct gctgcatttt cctcctgcca catgaagcac
      421 ttcactgatt cccgcacccg tgcctacata ataagccagt atacactccg ctagcgctac
      481 gtgactggtt cagggctgcg ccccgacacc cgctaaaagc actgacgcgc ctgcggcttg
      541 cccaaccccg cgccgtccgg gaaagaattt cccgatcgac ccgacgtttc tgtttacctg
      601 tgatgttaac gtttggatct ttttcccggg tttacctatt ttaatgaagc gtaatgaagc
      661 gttcacagct gacgttaata gatgggtgct tcatgtttgg tttttcacca ggagaactta
      721 tgaacctttg ccccgatgaa cgtctgctct ttgtgcggat gatttccgct atgcttcgcc
      781 gttcgggcgg tgatgcgggt gctgttatgt ttgaggcgta tcgccatatt gtgtccgata
      841 ccaatcaagc tcgtcgttcc tgcatgctcg acctgctcga aagcgtcagg catgactatg
      901 tacacggtgg atatacatag ttgccctgga tacgcttttc gtctaagtga gcgttctttt
      961 cgtctcttta ttcgccgtcc tgtataccga agcgtgcgct cagcttctga taaagcgctt
     1021 ctgcctgttc gtgcattcgc tcacagtcgg ctgcctcgtc atcaagatcg agcacgtcga
     1081 gtttttcgag cagcagcagc gactgcgccc ggataaattt tgccatgttc agtgcggctg
     1141 attcctgttt tgtcatacgg ctttttcccg gttttatggt gatcgcagac tgaaatctta
     1201 cttcattcac ttgagtgcat agccatgcag gtacgcagaa atcatcaggg gcgttttttc
     1261 tcgatatggg cacagaaagg tgtatgtttc aggtcggagt cctcagaaac gctctcagag
     1321 cctctcaggc ggtgcacgca acgggagtta tggtaaatcc tagttatttg caggcataaa
     1381 aaagccgcct tttaggcggt tttttctgat tgtaagttat caagaccgga tgctgaacgg
     1441 cagtatcaga caataaagcg atcgaccagc gtggacatcg cttcagactg gccgtccagc
     1501 atctggctgg cgctcgccgc ctgagagacc agcgctgcgt tttgctgagt gacctgctcc
     1561 agctgattca gtgcctgatg cacctgcgac acgccaagcg actgctcatt cgccgcacgg
     1621 gcaatatcgc tcacgtactg tttcatccgc ccggtatttt ccgccgctgc tttcagcgcg
     1681 gtgccggacg cggtgactcg tgctacccct tcgccaatct tatccatatt ctggttaatc
     1741 agctcacgga tctgactggc ctctcgtgca cagcgctggg aaaggttacg cacctccgtc
     1801 gccactaccg caaagccttt gccaagctca ccggcacgtg ccgcttcaac ggcggcgtta
     1861 agcgccagca agttggtctg gaaagaaatc tcatcaattg acgcaacaat ctgggaaatc
     1921 tgctcgctgg aagaacgaat ttccgccatg ctctgactgg cctcgttaga gacgcgatta
     1981 gcttccagta cgtcccgctc catcgaatgt atcagacgct ccgcctcgct ggcgttatcg
     2041 gcggtctggg tgatcgcagt agaaatctgc tccatgctgg cggccgtttc cacaatcgat
     2101 gccgcctgtt catccgtacg ctgggccaga tcctgattac cggcagcgat atcactactg
     2161 gcgctacgca acaccaccgc accggactta atttcttgca cgatatgctg aatattctca
     2221 atcgcttggt tataggcacg gttcagggct gagagctcgt cgctgccggg gacgtcaaga
     2281 cgacgtgtca ggtcgccgtc catctctgcg atggttttca gcgtaccgtt cagttgctgc
     2341 tggatactgc gtgccaccat caccgcaaag gcgatagcaa tcagtagggc aaccaggctg
     2401 attaccagga aggactgcca gtcgacacgg gcattgtggg caagcagcgc agcatgttcc
     2461 tgcaaggcat ccaccgcgcg attttccacc ttttgcagcg tttcaatacg ctgggtctga
     2521 aggttaaacc agtcagtcgg gttgactcca aatccgcctt cggcggcttt attaaaagcc
     2581 gtctcccgca gttcaagagc acgagttgct tcagcggact gaagagattt gtccagctca
     2641 gccgcctgca caggtgtgct aaagctgcga gctgccgtca gccaggcatc ctgctggcct
     2701 accacatcgc taaacatgct gaactggccg tcgtcaaagc gatccatcga gaagatattg
     2761 gacagcagcg cacgttctac accagcctgc tccttcaaat tcaagagact ataataagcc
     2821 gccagttcgt tcaccatcga gcctgaggtg cttaaatgcc ccatcccgcc gacaaacttc
     2881 agcacgtcag agatggtttg ggtatagaac tgactcgctt ttggtgaatc gatagttaat
     2941 tcgctgatgg cggtacgggt tgagtcgaga aactgaatac tttcattaaa cgttttcagg
     3001 ggggcggcaa tatttccctg gagtaaatcc ttattcgtat cggtcagcaa ccgcttaaat
     3061 gttgccagca ccttgtcggt taactgccgc tgggcagcta agtcatcgcg aaacttttgg
     3121 ccgcgcgcgc cgataaatcc agcgctcatt ccacgttcgc tctggagttg atgcaccaca
     3181 tcacccgcgc tgcgggcgag cgtggtgagc tgtccaatgg tgttcatctg ctgttcggta
     3241 ttgatacggc tgacaatacc cgaaccggcg aaccagacca aggcaagcag tagcgggaat
     3301 aatgcaataa acaacttcat ttgcattgaa atacgataag cccatgacat atcgatactt
     3361 tccttacttt cttgagggat cgcaggagta tcggtagata catgcataaa ctttatagtt
     3421 tattgttggg ggaacgggca ccacattcgg cagtggcgct ggtagcaatc cataaaggat
     3481 cttcttgaga tcctttgacg atcgtcgtaa tctcttgctc tgtaaacgaa aaaaccaccc
     3541 ttgcaggtgg tttttcgaag gttagataat cctggcagat tctctaaccg tggtaacagt
     3601 cttgtgcgag acatgtcacc aaatttgtcc ttctagtgta gcctcagtca ggccactact
     3661 tcaagaactc tcgatacatc tctcgcacat cctgtttacc agtggccgct gccagtggcg
     3721 atttttcgtg tctttccggg ttggactcaa gacgatagtt accggaaaag gcgcagcagt
     3781 cggactgaac ggggggttcg tgcatacagt ccagcttgga gcgaactgcc
//
