LOCUS       NZ_CP060851             4267 bp    DNA     circular CON 24-MAY-2024
DEFINITION  Salmonella enterica strain 724 plasmid p724-3, complete sequence.
ACCESSION   NZ_CP060851
VERSION     NZ_CP060851.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15941597
            Assembly: GCF_022559445.1
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  JOURNAL   Unpublished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_022559445.1-RS_2024_05_24
            Annotation Date                   :: 05/24/2024 04:14:07
            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)                     :: 4,807
            CDSs (total)                      :: 4,691
            Genes (coding)                    :: 4,573
            CDSs (with protein)               :: 4,573
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 118
            CDSs (without protein)            :: 118
            Pseudo Genes (ambiguous residues) :: 0 of 118
            Pseudo Genes (frameshifted)       :: 46 of 118
            Pseudo Genes (incomplete)         :: 83 of 118
            Pseudo Genes (internal stop)      :: 25 of 118
            Pseudo Genes (multiple problems)  :: 31 of 118
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP060851.1.
            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="724"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="p724-3"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2019-08"
                     /collected_by="Meina Yue"
     gene            277..1527
                     /locus_tag="IAR31_RS24000"
                     /old_locus_tag="IAR31_23850"
     CDS             277..1527
                     /locus_tag="IAR31_RS24000"
                     /old_locus_tag="IAR31_23850"
                     /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"
     gene            1520..2329
                     /locus_tag="IAR31_RS24005"
                     /old_locus_tag="IAR31_23855"
     CDS             1520..2329
                     /locus_tag="IAR31_RS24005"
                     /old_locus_tag="IAR31_23855"
                     /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(2549..2680)
                     /locus_tag="IAR31_RS24100"
     CDS             complement(2549..2680)
                     /locus_tag="IAR31_RS24100"
                     /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            3244..3393
                     /locus_tag="IAR31_RS24010"
                     /old_locus_tag="IAR31_23860"
     CDS             3244..3393
                     /locus_tag="IAR31_RS24010"
                     /old_locus_tag="IAR31_23860"
                     /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            3764..4132
                     /locus_tag="IAR31_RS24015"
                     /old_locus_tag="IAR31_23865"
     CDS             3764..4132
                     /locus_tag="IAR31_RS24015"
                     /old_locus_tag="IAR31_23865"
                     /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"
     Typing          3035..3251
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.781"
                     /coverage="100.0"
                     /evalue="4.32e-80"
     Typing          complement(2572..3052)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.925"
                     /coverage="92.0"
                     /evalue="0.0"
ORIGIN
        1 gaaacaggac ttaccccggc tgaatggcgt gaatttccgc gctatgcact tgcgcgcata
       61 ctcatgcatg ccgtaaaaac agagcctgcg cgtttctggc gggttttcgg gtggtttgtt
      121 gcctgttttg ccggtttccc gtcagaaacg ccctgagggc ctctcaggtg gtgcacgcaa
      181 gggatgttat gttcaatcga aatcagaaaa acgatcggta aagcgatcgt ttttctgata
      241 gcatcatgtt gattttatat aacgtgggtg taaagaatga ctagaccgat tgctgttgat
      301 ttatttgctg gagcgggtgg gctgagtctc ggtttcgagc aagctggctt tgatataatg
      361 gcatcagttg aaatagatcc aatacattgc tctgctcaca aatataactt tcctatgtgc
      421 aaaacgatat gtagaagtgt tgttgatgtt accggagaat acgttaggga agtttcaggt
      481 attggtgaga aagagattga tgtagtgatc ggaggcgctc cctgccaagg cttttcatta
      541 ataggaaaac gcgcgcttga tgatgataga aacaaactgg tctatcacta tgtacggctg
      601 gttcttgagc taaagcctaa atactttatt tttgaaaatg taaaagggtt gacggttggt
      661 aagcataagc agtttttagt agagataatg gatgcattta aagatggcgg gtacgacgtt
      721 gtaagcgatt ataaagtgct aaacgcagct gattatggag ttcctcaaga tcgccgtcgt
      781 cttttcttaa tggggggaag gaaaggaatt gctctgccat cataccctga gccattatcc
      841 attagaacaa cggttgggga cgctattggg gatattcctg atgcggaaaa atatcctgag
      901 ctatggggta gagattgggt ttatgctaaa tttggtgagc aatcactata ctcatcctat
      961 ttgcatggcg taggaaaaga tcctagtgat tttagctacc caaggatttt taataaagac
     1021 aaattaacgt gttctttact gacagatcac tctgacattt ctagagggcg gtttgttgaa
     1081 actttgcctg acacggtaga accaatcagc aggtttaaaa agctctcgat gaatgggcta
     1141 tgtaatactt taagggcagg aacagcaagt gacagaggtg cttttacatc tcctcgtcct
     1201 atacatccga tctatcctag ggtcatcacg gtcagagagg cagcaagact gcattcatat
     1261 cctgattggt tcagatttca tgtgactaag tggcatggat ttagacaggt cggtaatagt
     1321 gttcctccta tgctagctag aagtgttggc ttgcagatta tgaaggttct tggtgttacg
     1381 ccaaaaaaac caacgaagaa aatcaaactc ggtgatgaaa gtttggttgc tatttctatg
     1441 tccgatgctg catctatgtt tggtgtgtca tcaaatgtaa ttgctaagag aataaaaaat
     1501 agtaacaagg aggttgtttg tgagtaagga taaaaaagaa aggtccaaaa atagatacca
     1561 tcagttggta gaaaagatat ttttcgataa atatgttgat ggtgacttag aggttttgtt
     1621 tgaaaggtta gagataaaca gtgctgcaaa agatttaggt atagaactcc catctaatgt
     1681 tggtgatgtt atatattcaa tcagatttag aacgcctatg ccagaaagta ttctgttgac
     1741 tcagccagaa ggtaaggagt ggattattga gctggctggt aggtcaaagt atcgatttag
     1801 attagtaact attagtagga ttttgccaaa tcctaatatg gtggcaataa aaattccaga
     1861 caataccccg gagataatta caggttattc tttagacgac gagcaggcat tgctggcgaa
     1921 ggtgagatat aaccggctaa tagatatatt tctaggtata accacatatt ctttacagaa
     1981 tcatttaaga actacggtga agggaattgg tcaaatagag atcgatgaac tttatgtagg
     2041 tatagataaa tacggttgcc attatataat accagttcaa gcaaaaggtg ggacagatca
     2101 aatatcaatg gtgcaaacat cgcaagatac agcgtggtgt gaacaaaaat acccaaatgt
     2161 tagatgtaga gctatttccg ctcagtttgt ttcgagcgat ttgattgcac tgtttgagct
     2221 aaagatagac gaaggacaag tgaaattgat tgaggaaagg cattacaaac tggttccggc
     2281 aaaagagtta gatagctctg acatctcaaa ctaccgcatg tctgtataat ttctgagagg
     2341 atcttcttga gatcctttcg ttctagccgt aatctcctaa gccgtaaaca aaaaaaccac
     2401 cgctaccaac ggtggttcgt ttgccggaat ttagagctac caactctttc ttccgaaggt
     2461 aactggcttt cacggagcgc agataccaaa actgtccttt cagtgtagcc gtagtcaggc
     2521 caccacttca agaactctgt agataactct actccgctcc gtgaatccga ttaccagtgg
     2581 ctgctgccag tggcgctttt gcatgtcttt ccgggttgga ctcaagacga tagttaccgg
     2641 acaaggcgca gcagtcggac tgaacggggg gttcgtgcat acagtccagc ttggagcgaa
     2701 ctgcctaccc ggaactgagt gtcaggcgtg gaatgagaca aacgcggcca taacagcgga
     2761 atgacaccgg taaaccgaaa ggcaggaaca ggagagcgca cgagggagct accaggggga
     2821 aacgcctggg atctttatag tcctgtcggg tttcgccacc actgatttga gcgtcagatt
     2881 ttgtgatgct tgtcaggggg gcggagccta tggaaaaacg gcaacgccgc atcctttttc
     2941 ctgactttcc tgacttgagc gcaatctcgt tatctcgtcc ttcgtgagct ggtaacgccc
     3001 gccgcagtct cacggcagga gcgcagcgac cgagtgagcg aggaggcgtc atttcatcgt
     3061 tacctgcatt ttgcacttac gccccgcagc cgtattttcc cccttgccac atgaagcact
     3121 tccccgaatc tccatctcgc cgtaacatac taagccagta tacactccgc tagcgctacg
     3181 tgactggttc agggctgcgc cccgaaaccc gctaacaacc tctcagctac tggatatcac
     3241 cccatgccat ctgaacatga tgaacaacgg gatgctgctg atacgcagct tcccggcgag
     3301 tatgaccttt ttgatttaat ggcgaaggtt actgaagata acctgcacgc cccggtggat
     3361 tccgggcctc ctgtcggtcg ggaagcgtta tagctttttc gctggccagc gtatgtgtaa
     3421 tacggtggta ttacatctta tttctttatt ttcatgtaat tacggttgac tgtaatacct
     3481 tgcgtattac acgtataaac gaaaaatccc atttttccca tttgattcat gcagttgcga
     3541 tgaaatcgcg attgcgtatg gtgtatgacc atttaaggga taaagcaact tggcttttaa
     3601 ggcatgaatc tatatctggc aggcctgagc gaaataaaaa agcgttacat acctgccggt
     3661 tcatggctac atgaaccgtg aaagacaagg ataggacaat tataagacat tctgtgatat
     3721 tttggactaa aatgagacat tgataagaca ttatgggtgg cgtatggcga attttaacct
     3781 tggtccaaga acagcgattg cggctgtcag agattccctg gctgatatag aaaactggaa
     3841 gaaaaatggc atccccagga gagaaattgt ggctgtactg aatgaacgtt acggtctgaa
     3901 gatctcacag gttgcgtttg ataaggctct ttacaggttg agaaaaaata cagatggatc
     3961 gtctctcgct acagcggatt ctttgcctgc tacagaaaaa tctgtttctg tagcaggcgc
     4021 gccagagaat ggtttttttc tgtccgtgaa tgacttcaga agagtggaag atgaatctca
     4081 aagactggct gagtcattga gggatagcat tggcaggagg aaggggttct gatttccact
     4141 cgaaattgtt ttgtgaaacg ttcgtacatc cgccccctta tcttcatgcc tgatgttctt
     4201 gccaacgcct cacggccacg caataaattt cccgcccgtt caccgttttc ggatgggaag
     4261 aacgccg
//
