LOCUS       NZ_CP149226             3237 bp    DNA     circular CON 05-APR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar 4,[5],12:i:- strain
            Z1323HSL0018 plasmid pZ1323HSL0018-6, complete sequence.
ACCESSION   NZ_CP149226
VERSION     NZ_CP149226.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40440218
            Assembly: GCF_037837055.1
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 3237)
  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  JOURNAL   Unpublished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 3237)
  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                   :: 94X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_037837055.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 21:19:28
            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)                     :: 5,054
            CDSs (total)                      :: 4,931
            Genes (coding)                    :: 4,795
            CDSs (with protein)               :: 4,795
            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)              :: 136
            CDSs (without protein)            :: 136
            Pseudo Genes (ambiguous residues) :: 0 of 136
            Pseudo Genes (frameshifted)       :: 35 of 136
            Pseudo Genes (incomplete)         :: 113 of 136
            Pseudo Genes (internal stop)      :: 22 of 136
            Pseudo Genes (multiple problems)  :: 31 of 136
            Pseudo Genes (short protein)      :: 1 of 136
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP149226.1.
            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..3237
                     /organism="Salmonella enterica subsp. enterica serovar
                     4,[5],12:i:-"
                     /mol_type="genomic DNA"
                     /strain="Z1323HSL0018"
                     /serovar="4,[5],12:i:-"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:440524"
                     /plasmid="pZ1323HSL0018-6"
                     /geo_loc_name="South Korea"
                     /collection_date="2023-04-21"
     gene            complement(454..648)
                     /locus_tag="WIY59_RS25250"
                     /old_locus_tag="WIY59_25250"
     CDS             complement(454..648)
                     /locus_tag="WIY59_RS25250"
                     /old_locus_tag="WIY59_25250"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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_001041631.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQIRFEAESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1572..2018
                     /locus_tag="WIY59_RS25255"
                     /old_locus_tag="WIY59_25255"
     CDS             1572..2018
                     /locus_tag="WIY59_RS25255"
                     /old_locus_tag="WIY59_25255"
                     /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_000455629.1"
                     /translation="MEYFTLLAKELSKLDSVSNIQEELLKKGGKTTKAYKIDFDYAKLP
                     LTGLEVTDGVGLRFINLRLTISYPRDKYSVDFVLKVLNDFNSTSVCLKAFYVDDGDNNK
                     DFDIAYNIEDVFLASEHDLGPALEKKIEMLVRGPLSVHKEMDKE"
                     /name="hypothetical protein"
     gene            2020..2649
                     /locus_tag="WIY59_RS25260"
                     /old_locus_tag="WIY59_25260"
     CDS             2020..2649
                     /locus_tag="WIY59_RS25260"
                     /old_locus_tag="WIY59_25260"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001709653.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_339045090.1"
                     /translation="MNSNSINEFISKKATAVWVWLNKLAAYTISIVLPIIGANVEKWLK
                     PFLDKIDAPGFLKTDFAVYGSVFGACGILATIAVKRLVVIDARFNSEDAYKIRELKKEN
                     KSLRLKNKKLYTEKQKDKDLYEAKLSQSIADCENKNKQEIDSLKKKHEEEFARKIDDHE
                     REVRRLQEYIRLQEVAMDAMKNYKSVEQDIREYNVSGNTRKIHIDD"
                     /name="hypothetical protein"
     gene            complement(2864..3025)
                     /locus_tag="WIY59_RS25265"
                     /old_locus_tag="WIY59_25265"
     CDS             complement(2864..3025)
                     /locus_tag="WIY59_RS25265"
                     /old_locus_tag="WIY59_25265"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /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_071587668.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLTPLTAATGNRISRARFI
                     QMLTEFLK"
                     /name="replication initiation protein"
     Typing          287..373
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.727"
                     /coverage="100.0"
                     /evalue="5.25e-35"
     Typing          685..783
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          908..1163
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.86"
                     /coverage="89.0"
                     /evalue="1.25e-96"
     Typing          complement(3..263)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.045"
                     /coverage="97.0"
                     /evalue="1.51e-98"
     Typing          complement(2917..3237)
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.516"
                     /coverage="99.0"
                     /evalue="1e-153"
ORIGIN
        1 aatttttgtg atgctcgtca ggggggcgga gcctatggaa aaacgccagc ggcgcggcct
       61 tcttcccgtt cttggttttt ttgctcacat gttctttccg gccttatccc ctgattctgt
      121 ggataaccgt gttaccgttt ttgtgtgagt cagtaccgct cgccgcagcc gaacggccga
      181 gcgtagcgag tcagtgagcg aggaagcgga atagcgccgg aagctgcatt ttctccttac
      241 acatctgtgc ggcatttcac accgtatatg gtgcgctttt catacaatcc gcactgatgt
      301 cgcatggtta agtcagtata cactccgcta tcgctacgtg actgggtcat ggctgcgccc
      361 cgacacccgc taaaaccccc tgacgcgccc tgacgggctt gtctgctgac gaaaacgccc
      421 acgggaaagc cgtgaccgcc tccgtcagct tcgttatgtt cctgtttcac tttcggcctc
      481 aaagcgaatc tggatgctgt tctggagttc ttctgcgagt tcgtgcagtc gttcgcacat
      541 ggccgcctgt tcgtcggcat ccagagcatc cagtttttca agcagtgtca ggctctggct
      601 tttgataaat cgcgccatat tcagcgcagt ttgttgttgt ttgttcacct tccgttgttc
      661 tccgtcagtt ccgggtgtcg gggggaccct gagcaggtgg taattgtaag acgttgcggg
      721 cgacggtatt acaattgcac atcctgtcct gtttctttag gacgtatcat ggcacagcat
      781 atcaactgat aaataatccc tgtgcagtgc agccgctgtt gcataaaatt tcgctctgcg
      841 tcgagtgttt cttaatcaat aattccgctg atactccgga aaaacgcgag tctgttctca
      901 tgcctgaaat gcccacaccc cacgcaaaaa caattttttg ctgatttttc tttataaata
      961 gagagttatg acaaattagt tcttcttgct ctctttgtga tatttaaaaa agcggtgttg
     1021 gcgcagctac aacaccgcgc cgacaccgct ttttaggggt ggtactgact attttcataa
     1081 aaaacatcat cttatattag gggtgctgct agcggcgcgg tgtgtttttt tacaggacgc
     1141 ccctgggggc gctgctaggg gtgtctgttc agatatgtag caatgagtca gggattcacg
     1201 aactgaaaat gtccgaaaat gtgtctcatg ggtactgtat gcgcccaaac cgatcgtcat
     1261 tcactttcat gcatagctat gcagtgagct gaaagcgatc ctgacgcatt tttccggttt
     1321 accccgtgga aaacatctct ttttgcggtg tttgcggcag aatcgcgttc agcgcgtttt
     1381 agcggtgcgc gtaatgcgac gttatggtaa atcgcctgtt aattgccttt tagctcctgt
     1441 gttatttttt taagtgttat ttcttgtgta caagatgaca agttaattga atgcgatatt
     1501 aggtaatgtt ttatcttttt attgcatggt gtaaaataac ttatttctct gtatgttgca
     1561 aaggtgttaa attggaatac tttactcttt tagcaaaaga actttcaaag ttagatagtg
     1621 ttagtaatat tcaagaggaa ttgctaaaga aaggaggtaa aacaacaaaa gcttataaaa
     1681 ttgattttga ttacgctaag cttcctctta caggtcttga ggttacagat ggggttgggt
     1741 tgagatttat caatcttaga ttaacaattt cataccctag ggataaatat tctgtagact
     1801 tcgtattaaa ggttttaaat gacttcaatt cgacgagcgt gtgtttaaag gctttctatg
     1861 tcgatgatgg tgataataat aaagattttg atatagcata taatatagag gatgtttttt
     1921 tagcatctga gcatgatctt ggtcctgctc tcgagaaaaa gatagagatg cttgttcgtg
     1981 gtccattgag tgttcataag gaaatggata aggaatgaaa tgaattccaa ctcaataaat
     2041 gaattcatta gtaagaaggc taccgccgta tgggtgtggt tgaataaact tgccgcatat
     2101 actatttcga tagtccttcc tattattggt gctaatgttg aaaaatggct taagcctttc
     2161 ttggataaaa ttgatgcccc tgggttcctg aagacggatt tcgctgttta tggttctgtg
     2221 tttggggcat gtggcattct tgcgacgatt gctgtcaaaa gacttgttgt cattgatgca
     2281 agatttaata gcgaagatgc ttataaaata agagagctga aaaaagaaaa taaatcgctt
     2341 aggttaaaaa acaaaaagtt atacactgaa aaacaaaaag ataaagattt gtatgaggcc
     2401 aagttgagtc agtcaatagc agactgtgaa aataaaaata aacaagaaat tgatagttta
     2461 aaaaagaaac acgaagaaga atttgctagg aaaatagacg atcatgagcg agaggtgagg
     2521 cggttacaag aatatataag gcttcaggag gttgctatgg atgccatgaa aaactacaag
     2581 tcagtcgagc aagatatccg ggagtataac gtttccggta atactcggaa aattcacata
     2641 gatgactaat cgtgcatatc tcatagggat tcttacggtt gtcaccattt tttcttgaga
     2701 ttattgatgt ctcgtcgtag tcttgtttcg caaacgaaaa aaccgccttg cagggcggtt
     2761 ttttcaacgg ttcaagaact tgcaggtttt gaaccgaggt aactggcttc agcagagcgc
     2821 agataccaaa ttctgtcctt ccagtgtagc cgtagttgga ctatcacttc aagaactctg
     2881 taagcatctg gataaatctt gctctgctaa tccggttacc agtggctgct gtcagtggcg
     2941 ttaagtcgtg tcttaccggg ttggactcaa gacgatagtt accggataag gcgcagcggt
     3001 cgggctgaac ggggggttcg tgcacacagc ccagcttgga gcgaacgacc tacaccgaac
     3061 tgagatacca acagcgtgag ctatgagaaa gcgccacgct tcccgaaggg agaaaggcgg
     3121 acaggtatcc ggtaagcggc agggtcggaa caggagagcg cacgagggag cttccagggg
     3181 gaaacgcctg gtatctttat agtcctgtcg ggtttcgcca cctctgactt gagcgtc
//
