LOCUS       NZ_CP060843             4267 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Salmonella enterica strain 805 plasmid p805-4, complete sequence.
ACCESSION   NZ_CP060843
VERSION     NZ_CP060843.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15941600
            Assembly: GCF_022559385.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4267)
  AUTHORS   Yue,M. and Ruan,Z.
  TITLE     Whole genome sequencing of Salmonella enterica serotype Goldcoast
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4267)
  AUTHORS   Yue,M. and Ruan,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-AUG-2020) Department of Clinical laboratory, Sir Run
            Run Shaw Hospital, School of Medicine, Zhejiang University, 3
            Qingchun East Road, Hangzhou, Zhejiang 310016, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022559385.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:23:35
            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)                     :: 4,720
            CDSs (total)                      :: 4,605
            Genes (coding)                    :: 4,480
            CDSs (with protein)               :: 4,480
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 125
            CDSs (without protein)            :: 125
            Pseudo Genes (ambiguous residues) :: 0 of 125
            Pseudo Genes (frameshifted)       :: 47 of 125
            Pseudo Genes (incomplete)         :: 90 of 125
            Pseudo Genes (internal stop)      :: 28 of 125
            Pseudo Genes (multiple problems)  :: 36 of 125
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP060843.1.
            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..4267
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="805"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="p805-4"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2019-09"
                     /collected_by="Meina Yue"
     gene            join(3775..4267,1..317)
                     /locus_tag="IAR34_RS23580"
                     /old_locus_tag="IAR34_23420"
     CDS             join(3775..4267,1..317)
                     /locus_tag="IAR34_RS23580"
                     /old_locus_tag="IAR34_23420"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010222407.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_044525163.1"
                     /translation="MSKDKKERSKNRYHQLVEKIFFDKYVDGDLEVLFERLEINSAAKD
                     LGIELPSNVGDVIYSIRFRTPMPESILLTQPEGKEWIIELAGRSKYRFRLVTISRILPN
                     PNMVAIKIPDNTPEIITGYSLDDEQALLAKVRYNRLIDIFLGITTYSLQNHLRTTVKGI
                     GQIEIDELYVGIDKYGCHYIIPVQAKGGTDQISMVQTSQDTAWCEQKYPNVRCRAISAQ
                     FVSSDLIALFELKIDEGQVKLIEERHYKLVPAKELDSSDISNYRMSV"
                     /name="hypothetical protein"
     gene            complement(537..668)
                     /locus_tag="IAR34_RS23675"
     CDS             complement(537..668)
                     /locus_tag="IAR34_RS23675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_072013439.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHAKAPLAAATGNRIHGAE"
                     /name="replication initiation protein"
     gene            1232..1381
                     /locus_tag="IAR34_RS23585"
                     /old_locus_tag="IAR34_23425"
     CDS             1232..1381
                     /locus_tag="IAR34_RS23585"
                     /old_locus_tag="IAR34_23425"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_164840373.1"
                     /translation="MPSEHDEQRDAADTQLPGEYDLFDLMAKVTEDNLHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            1752..2120
                     /locus_tag="IAR34_RS23590"
                     /old_locus_tag="IAR34_23430"
     CDS             1752..2120
                     /locus_tag="IAR34_RS23590"
                     /old_locus_tag="IAR34_23430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880027.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_042114977.1"
                     /translation="MANFNLGPRTAIAAVRDSLADIENWKKNGIPRREIVAVLNERYGL
                     KISQVAFDKALYRLRKNTDGSSLATADSLPATEKSVSVAGAPENGFFLSVNDFRRVEDE
                     SQRLAESLRDSIGRRKGF"
                     /name="hypothetical protein"
     gene            2532..3782
                     /locus_tag="IAR34_RS23595"
                     /old_locus_tag="IAR34_23435"
     CDS             2532..3782
                     /locus_tag="IAR34_RS23595"
                     /old_locus_tag="IAR34_23435"
                     /EC_number="2.1.1.37"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015160339.1"
                     /GO_function="GO:0003886 - DNA
                     (cytosine-5-)-methyltransferase activity [Evidence IEA];
                     GO:0008168 - methyltransferase activity [Evidence IEA];
                     GO:1904047 - S-adenosyl-L-methionine binding [Evidence
                     IEA]"
                     /GO_process="GO:0006304 - DNA modification [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="WP_130574759.1"
                     /translation="MTRPIAVDLFAGAGGLSLGFEQAGFDIMASVEIDPIHCSAHKYNF
                     PMCKTICRSVVDVTGEYVREVSGIGEKEIDVVIGGAPCQGFSLIGKRALDDDRNKLVYH
                     YVRLVLELKPKYFIFENVKGLTVGKHKQFLVEIMDAFKDGGYDVVSDYKVLNAADYGVP
                     QDRRRLFLMGGRKGIALPSYPEPLSIRTTVGDAIGDIPDAEKYPELWGRDWVYAKFGEQ
                     SLYSSYLHGVGKDPSDFSYPRIFNKDKLTCSLLTDHSDISRGRFVETLPDTVEPISRFK
                     KLSMNGLCNTLRAGTASDRGAFTSPRPIHPIYPRVITVREAARLHSYPDWFRFHVTKWH
                     GFRQVGNSVPPMLARSVGLQIMKVLGVTPKKPTKKIKLGDESLVAISMSDAASMFGVSS
                     NVIAKRIKNSNKEVVCE"
                     /name="DNA cytosine methyltransferase"
     Typing          1023..1239
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.781"
                     /coverage="100.0"
                     /evalue="4.32e-80"
     Typing          complement(560..1040)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.925"
                     /coverage="92.0"
                     /evalue="0.0"
ORIGIN
        1 aaatagagat cgatgaactt tatgtaggta tagataaata cggttgccat tatataatac
       61 cagttcaagc aaaaggtggg acagatcaaa tatcaatggt gcaaacatcg caagatacag
      121 cgtggtgtga acaaaaatac ccaaatgtta gatgtagagc tatttccgct cagtttgttt
      181 cgagcgattt gattgcactg tttgagctaa agatagacga aggacaagtg aaattgattg
      241 aggaaaggca ttacaaactg gttccggcaa aagagttaga tagctctgac atctcaaact
      301 accgcatgtc tgtataattt ctgagaggat cttcttgaga tcctttcgtt ctagccgtaa
      361 tctcctaagc cgtaaacaaa aaaaccaccg ctaccaacgg tggttcgttt gccggaattt
      421 agagctacca actctttctt ccgaaggtaa ctggctttca cggagcgcag ataccaaaac
      481 tgtcctttca gtgtagccgt agtcaggcca ccacttcaag aactctgtag ataactctac
      541 tccgctccgt gaatccgatt accagtggct gctgccagtg gcgcttttgc atgtctttcc
      601 gggttggact caagacgata gttaccggac aaggcgcagc agtcggactg aacggggggt
      661 tcgtgcatac agtccagctt ggagcgaact gcctacccgg aactgagtgt caggcgtgga
      721 atgagacaaa cgcggccata acagcggaat gacaccggta aaccgaaagg caggaacagg
      781 agagcgcacg agggagctac cagggggaaa cgcctgggat ctttatagtc ctgtcgggtt
      841 tcgccaccac tgatttgagc gtcagatttt gtgatgcttg tcaggggggc ggagcctatg
      901 gaaaaacggc aacgccgcat cctttttcct gactttcctg acttgagcgc aatctcgtta
      961 tctcgtcctt cgtgagctgg taacgcccgc cgcagtctca cggcaggagc gcagcgaccg
     1021 agtgagcgag gaggcgtcat ttcatcgtta cctgcatttt gcacttacgc cccgcagccg
     1081 tattttcccc cttgccacat gaagcacttc cccgaatctc catctcgccg taacatacta
     1141 agccagtata cactccgcta gcgctacgtg actggttcag ggctgcgccc cgaaacccgc
     1201 taacaacctc tcagctactg gatatcaccc catgccatct gaacatgatg aacaacggga
     1261 tgctgctgat acgcagcttc ccggcgagta tgaccttttt gatttaatgg cgaaggttac
     1321 tgaagataac ctgcacgccc cggtggattc cgggcctcct gtcggtcggg aagcgttata
     1381 gctttttcgc tggccagcgt atgtgtaata cggtggtatt acatcttatt tctttatttt
     1441 catgtaatta cggttgactg taataccttg cgtattacac gtataaacga aaaatcccat
     1501 ttttcccatt tgattcatgc agttgcgatg aaatcgcgat tgcgtatggt gtatgaccat
     1561 ttaagggata aagcaacttg gcttttaagg catgaatcta tatctggcag gcctgagcga
     1621 aataaaaaag cgttacatac ctgccggttc atggctacat gaaccgtgaa agacaaggat
     1681 aggacaatta taagacattc tgtgatattt tggactaaaa tgagacattg ataagacatt
     1741 atgggtggcg tatggcgaat tttaaccttg gtccaagaac agcgattgcg gctgtcagag
     1801 attccctggc tgatatagaa aactggaaga aaaatggcat ccccaggaga gaaattgtgg
     1861 ctgtactgaa tgaacgttac ggtctgaaga tctcacaggt tgcgtttgat aaggctcttt
     1921 acaggttgag aaaaaataca gatggatcgt ctctcgctac agcggattct ttgcctgcta
     1981 cagaaaaatc tgtttctgta gcaggcgcgc cagagaatgg tttttttctg tccgtgaatg
     2041 acttcagaag agtggaagat gaatctcaaa gactggctga gtcattgagg gatagcattg
     2101 gcaggaggaa ggggttctga tttccactcg aaattgtttt gtgaaacgtt cgtacatccg
     2161 cccccttatc ttcatgcctg atgttcttgc caacgcctca cggccacgca ataaatttcc
     2221 cgcccgttca ccgttttcgg atgggaagaa cgccggaaac aggacttacc ccggctgaat
     2281 ggcgtgaatt tccgcgctat gcacttgcgc gcatactcat gcatgccgta aaaacagagc
     2341 ctgcgcgttt ctggcgggtt ttcgggtggt ttgttgcctg ttttgccggt ttcccgtcag
     2401 aaacgccctg agggcctctc aggtggtgca cgcaagggat gttatgttca atcgaaatca
     2461 gaaaaacgat cggtaaagcg atcgtttttc tgatagcatc atgttgattt tatataacgt
     2521 gggtgtaaag aatgactaga ccgattgctg ttgatttatt tgctggagcg ggtgggctga
     2581 gtctcggttt cgagcaagct ggctttgata taatggcatc agttgaaata gatccaatac
     2641 attgctctgc tcacaaatat aactttccta tgtgcaaaac gatatgtaga agtgttgttg
     2701 atgttaccgg agaatacgtt agggaagttt caggtattgg tgagaaagag attgatgtag
     2761 tgatcggagg cgctccctgc caaggctttt cattaatagg aaaacgcgcg cttgatgatg
     2821 atagaaacaa actggtctat cactatgtac ggctggttct tgagctaaag cctaaatact
     2881 ttatttttga aaatgtaaaa gggttgacgg ttggtaagca taagcagttt ttagtagaga
     2941 taatggatgc atttaaagat ggcgggtacg acgttgtaag cgattataaa gtgctaaacg
     3001 cagctgatta tggagttcct caagatcgcc gtcgtctttt cttaatgggg ggaaggaaag
     3061 gaattgctct gccatcatac cctgagccat tatccattag aacaacggtt ggggacgcta
     3121 ttggggatat tcctgatgcg gaaaaatatc ctgagctatg gggtagagat tgggtttatg
     3181 ctaaatttgg tgagcaatca ctatactcat cctatttgca tggcgtagga aaagatccta
     3241 gtgattttag ctacccaagg atttttaata aagacaaatt aacgtgttct ttactgacag
     3301 atcactctga catttctaga gggcggtttg ttgaaacttt gcctgacacg gtagaaccaa
     3361 tcagcaggtt taaaaagctc tcgatgaatg ggctatgtaa tactttaagg gcaggaacag
     3421 caagtgacag aggtgctttt acatctcctc gtcctataca tccgatctat cctagggtca
     3481 tcacggtcag agaggcagca agactgcatt catatcctga ttggttcaga tttcatgtga
     3541 ctaagtggca tggatttaga caggtcggta atagtgttcc tcctatgcta gctagaagtg
     3601 ttggcttgca gattatgaag gttcttggtg ttacgccaaa aaaaccaacg aagaaaatca
     3661 aactcggtga tgaaagtttg gttgctattt ctatgtccga tgctgcatct atgtttggtg
     3721 tgtcatcaaa tgtaattgct aagagaataa aaaatagtaa caaggaggtt gtttgtgagt
     3781 aaggataaaa aagaaaggtc caaaaataga taccatcagt tggtagaaaa gatatttttc
     3841 gataaatatg ttgatggtga cttagaggtt ttgtttgaaa ggttagagat aaacagtgct
     3901 gcaaaagatt taggtataga actcccatct aatgttggtg atgttatata ttcaatcaga
     3961 tttagaacgc ctatgccaga aagtattctg ttgactcagc cagaaggtaa ggagtggatt
     4021 attgagctgg ctggtaggtc aaagtatcga tttagattag taactattag taggattttg
     4081 ccaaatccta atatggtggc aataaaaatt ccagacaata ccccggagat aattacaggt
     4141 tattctttag acgacgagca ggcattgctg gcgaaggtga gatataaccg gctaatagat
     4201 atatttctag gtataaccac atattcttta cagaatcatt taagaactac ggtgaaggga
     4261 attggtc
//
