LOCUS       NZ_CP064914             3171 bp    DNA     circular CON 03-SEP-2023
DEFINITION  Salmonella enterica subsp. enterica strain C18 plasmid pC18-3k,
            complete sequence.
ACCESSION   NZ_CP064914
VERSION     NZ_CP064914.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16789119
            Assembly: GCF_031035935.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica
  ORGANISM  Salmonella enterica subsp. enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3171)
  AUTHORS   Huang,T.-W.
  TITLE     Whole-genome sequencing of ceftriaxone-resistant Salmonella enterica
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3171)
  AUTHORS   Huang,T.-W.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-NOV-2020) Department of Microbiology and Immunology,
            School of Medicine, College of Medicine, Taipei Medical University,
            No. 250, Wuxin Street, Taipei 11031, Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2019
            Assembly Method                   :: Unicycer v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 150.0x
            Sequencing Technology             :: Illumina; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/01/2023 16:27:14
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,809
            CDSs (total)                      :: 4,689
            Genes (coding)                    :: 4,533
            CDSs (with protein)               :: 4,533
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 156
            CDSs (without protein)            :: 156
            Pseudo Genes (ambiguous residues) :: 0 of 156
            Pseudo Genes (frameshifted)       :: 70 of 156
            Pseudo Genes (incomplete)         :: 103 of 156
            Pseudo Genes (internal stop)      :: 25 of 156
            Pseudo Genes (multiple problems)  :: 40 of 156
            Pseudo Genes (short protein)      :: 1 of 156
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP064914.1.
            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..3171
                     /organism="Salmonella enterica subsp. enterica"
                     /mol_type="genomic DNA"
                     /strain="C18"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:59201"
                     /plasmid="pC18-3k"
                     /geo_loc_name="Taiwan"
                     /collection_date="1999-11"
     gene            complement(join(2985..3171,1..242))
                     /locus_tag="IYN89_RS24025"
                     /old_locus_tag="IYN89_23840"
     CDS             complement(join(2985..3171,1..242))
                     /locus_tag="IYN89_RS24025"
                     /old_locus_tag="IYN89_23840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000534558.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000534558.1"
                     /translation="MGSGAGAQNPQLNIVSFSETFNLYYTSRYSAKTLDKIDDFIEHFE
                     KYNLFGDPLKGYPAWTGKVSPSWKVPDHYENKEAIEKYARANKLWHAHLGDPVFKDTFH
                     GKYKVSDWVIHFQRLTPNHIKLLELGYHDPMKLPQNFE"
                     /name="hypothetical protein"
     gene            complement(206..376)
                     /locus_tag="IYN89_RS24030"
                     /old_locus_tag="IYN89_23845"
     CDS             complement(206..376)
                     /locus_tag="IYN89_RS24030"
                     /old_locus_tag="IYN89_23845"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001531327.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001531327.1"
                     /translation="MKTEQRHDLVKDIEVFGVSLSLLISRANEKSVTMPSGLSREQRRA
                     WAAEQARKIHN"
                     /name="hypothetical protein"
     gene            534..962
                     /locus_tag="IYN89_RS24035"
                     /old_locus_tag="IYN89_23850"
     CDS             534..962
                     /locus_tag="IYN89_RS24035"
                     /old_locus_tag="IYN89_23850"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000222531.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000222531.1"
                     /translation="MTYSVKNKWKAGGLSLGWTAVPTVLFFIQNEKKLTSVAFNTLLNL
                     IVHWWSLQEWPHPSMESLAIRMGVSVRTVQRAINDLEKANLLDKKPTSKSDRRYGGRNI
                     YDLTKLVDYLDTMGPSVAEQVKKPRHKKPVYTVRKTTA"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1351..1674)
                     /gene="mobA"
                     /locus_tag="IYN89_RS24040"
                     /old_locus_tag="IYN89_23855"
     CDS             complement(1351..1674)
                     /gene="mobA"
                     /locus_tag="IYN89_RS24040"
                     /old_locus_tag="IYN89_23855"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_001531325.1"
                     /translation="MTKRSGSNTRRRSISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            1958..2152
                     /locus_tag="IYN89_RS24045"
                     /old_locus_tag="IYN89_23860"
     CDS             1958..2152
                     /locus_tag="IYN89_RS24045"
                     /old_locus_tag="IYN89_23860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041639.1"
                     /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_095470085.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALNADEQAAMCEKLHELA
                     EELQNSIQTRFEVENSTER"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(1684..1923)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.585"
                     /coverage="100.0"
                     /evalue="3.54e-121"
     Typing          2182..2710
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.393"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(1355..1674)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="5.33e-62"
ORIGIN
        1 tcaatagctt ctttgttttc gtaatgatca ggcactttcc acgatggcga tactttgcca
       61 gtccaagctg gatatccttt taaaggatcg ccaaagagat tgtatttttc aaaatgctca
      121 atgaaatcat cgattttatc gagtgttttt gcagaatatc tggatgtgta ataaaggttg
      181 aaggtctcag agaatgagac aatattcaat tgtggatttt gcgcgcctgc tccgctgccc
      241 atgctcttct ctgctcccga cttagaccag atggcattgt aacagacttc tcattcgctc
      301 tggaaatcaa cagagacaag gatacgccaa aaacctcaat atctttaaca agatcatgac
      361 gttgttcggt tttcatatcg ctaactccgt atctaattca ggcaggaaaa aatcttttcc
      421 tcgttttcag agtagtcttt tttagttgca caataatggc gccagtgtca ccctattcat
      481 atgaatatac catataatat atactttaaa tatttttggg cttaggaaaa tcaatgactt
      541 actccgttaa gaataaatgg aaagctggcg gtttgtctct tggctggaca gcagtgccta
      601 ccgtattgtt ttttatacaa aacgagaaaa agctaacttc agtggccttt aacacactac
      661 ttaacctgat cgttcactgg tggagtttgc aagagtggcc gcatccgtca atggaaagtc
      721 tagccatacg tatgggggtt tctgtacgga ctgttcagag agctatcaat gatcttgaaa
      781 aagctaatct cttggacaag aaaccaacat cgaagagtga tcgccgatat ggtggtcgca
      841 atatttatga tctaacaaag ctagttgact acctagatac aatgggtcca tcagtagctg
      901 aacaagttaa gaaaccacgc cataaaaaac cggtatatac cgtaagaaaa acgacagctt
      961 aaaaaagcac aatggaactg agcgcgagcg atgcacgata gcaaaacgat atattactta
     1021 ttgcattggt cttggtagcc ctgcttctgg ctaaaccact gtcaggagta attggctttg
     1081 cctgtaatgg gttcatcgct tcacagttaa agttatcgca tagctcatat atttaccata
     1141 atcccttaat tgtacgcacc gctgaaacgc gctgaacgcg attctgacgc agacaccgca
     1201 aaaagagatg ttttaccccg ggaaaacagg aaggatgcgt caggatcgtt ttcagctcgc
     1261 tgcatagcta tgcatgaaag ggaatggtga tcactttggg agcttacggt gttcataccg
     1321 tctgttttcg acagttttct ctccgggaag ctaatctgcc ataagtctgg ataacagggc
     1381 acggtgatac tccgtaatag cgatcagcac ctccgcatac tccctgtccc cgacacgctt
     1441 gccgtcgata aagagttttt tctgtaacgc ccccagtctc ataacttctt tcagtacccg
     1501 atcatcagtc agtgagttaa ctttcttacc gagagctgcc gcccgtaaaa aaccggaaac
     1561 ggtcttgccg cattcagcag ccctttttct gatttcctgg tcttcttctg ccgtcagacg
     1621 aacagggcga ctgatagacc gcctgcgcgt attacttcca cttcgttttg tcataaaaca
     1681 tggctccgta tctgacatgg gtgtcggggc aaagccctga ccagggtaat tgtaatagcg
     1741 tgcatgtatg cgcggtataa caattacaca tcctgtcctg tcagcaagtt cgaattaccg
     1801 acaaaggcac ggcagttttt tggcagtgac agtattgtca ggcagaaata cctgtcaaag
     1861 cgtcagacgg cagaataccg gcggtaaaac agtcgaaaag tggtacgcga tataatcaca
     1921 caacgcagat gacagacaga acggagaaaa cgaaaagatg aacaagcagc agcaagccgt
     1981 actcaacatg gcgggattca taaaaagtca gagcctgacg ctgctcgaaa aactggacgc
     2041 actcaatgcc gacgaacagg ccgccatgtg tgagaaactg cacgaactcg cagaagaact
     2101 ccagaacagc atccagacac gctttgaagt agaaaatagc acagagagat aactctcagg
     2161 acaggatgcc gaacggcaca acagagcgta aggagaaaat gtcacataag gcgctcttcc
     2221 gcttcctcgc tcactgactc gctacgctcg gtcgttcgac tgcggcgagc ggtgtcggct
     2281 cactcaaaag cggagatgcg gttatccaca gaatcagggg ataacgccaa aagaaacatg
     2341 tgagcaaaaa acgagaaccc ggaaaaggct gcgccgttgg cgtttttcca taggctccgc
     2401 ccccctgacg agcatcacaa aaatcgacgc tcaagtcaga ggtggcgaaa cccgacagga
     2461 ctataaagat accaggcgtt tccccctgga agctccctcg tgcgctctcc tgttccgacc
     2521 ctgccgctta ccggatacct gtccgccttt ctcccttcgg gaagcgtggc gctttctcat
     2581 agctcacgct gttggtatct cggttcggtg taggtcgttc gctccaagct gggctgtgtg
     2641 cacgaacccc ccgttcagcc cgaccgctgc gccttatccg gtaactatcg tcttgagtcc
     2701 aacccggtaa gacacgactt aacgccactg gcaacggcca ctggtaagca ggatgtgcga
     2761 gagatgtaac gagagttctt gaagtggcgg cctaactgag gctacactga aaggacagta
     2821 tttggtgaca tgtctcgcac aagactgtta ccacggttag agaatctgcc aggattaact
     2881 aaccttcgaa aaaccacctg ccagggtggt tttttcgttt ttacaatagt gagattacga
     2941 cgagactgaa tgaatctcaa gatttcattt agcctgccgc tcgatcattc aaagttttga
     3001 ggtagcttca ttgggtcatg gtatccaagc tctaaaagct ttatatggtt cggtgtcagc
     3061 cgctggaaat gaataaccca gtcagaaacc ttgtatttcc catgaaacgt atctttaaaa
     3121 accggatcgc ctaaatgagc atgccataat ttgttagctc tagcatactt c
//
