LOCUS       NZ_CP091625             4267 bp    DNA     circular CON 28-JAN-2024
DEFINITION  Salmonella enterica strain 1382 plasmid p1382-1, complete sequence.
ACCESSION   NZ_CP091625
VERSION     NZ_CP091625.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25270675
            Assembly: GCF_026873425.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4267)
  AUTHORS   Ruan,Z.
  TITLE     Genome sequence of Salmonella Goldcoast recovered from children
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4267)
  AUTHORS   Ruan,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-JAN-2022) 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; Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/28/2024 13:25:14
            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)                     :: 4,499
            CDSs (total)                      :: 4,384
            Genes (coding)                    :: 4,281
            CDSs (with protein)               :: 4,281
            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)              :: 103
            CDSs (without protein)            :: 103
            Pseudo Genes (ambiguous residues) :: 0 of 103
            Pseudo Genes (frameshifted)       :: 43 of 103
            Pseudo Genes (incomplete)         :: 70 of 103
            Pseudo Genes (internal stop)      :: 26 of 103
            Pseudo Genes (multiple problems)  :: 34 of 103
            Pseudo Genes (short protein)      :: 1 of 103
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP091625.1.
            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="1382"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="p1382-1"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2021-02"
                     /collected_by="Meina Yue"
     gene            complement(join(3760..4267,1..743))
                     /locus_tag="L5508_RS22470"
                     /old_locus_tag="L5508_22485"
     CDS             complement(join(3760..4267,1..743))
                     /locus_tag="L5508_RS22470"
                     /old_locus_tag="L5508_22485"
                     /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            complement(1155..1523)
                     /locus_tag="L5508_RS22475"
                     /old_locus_tag="L5508_22490"
     CDS             complement(1155..1523)
                     /locus_tag="L5508_RS22475"
                     /old_locus_tag="L5508_22490"
                     /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            complement(1894..2043)
                     /locus_tag="L5508_RS22480"
                     /old_locus_tag="L5508_22495"
     CDS             complement(1894..2043)
                     /locus_tag="L5508_RS22480"
                     /old_locus_tag="L5508_22495"
                     /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            2607..2738
                     /locus_tag="L5508_RS22530"
     CDS             2607..2738
                     /locus_tag="L5508_RS22530"
                     /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            complement(2958..3767)
                     /locus_tag="L5508_RS22485"
                     /old_locus_tag="L5508_22500"
     CDS             complement(2958..3767)
                     /locus_tag="L5508_RS22485"
                     /old_locus_tag="L5508_22500"
                     /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"
     Typing          complement(2037..2253)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.781"
                     /coverage="100.0"
                     /evalue="4.32e-80"
     Typing          2200..2716
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.192"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tctttattaa aaatccttgg gtagctaaaa tcactaggat cttttcctac gccatgcaaa
       61 taggatgagt atagtgattg ctcaccaaat ttagcataaa cccaatctct accccatagc
      121 tcaggatatt tttccgcatc aggaatatcc ccaatagcgt ccccaaccgt tgttctaatg
      181 gataatggct cagggtatga tggcagagca attcctttcc ttccccccat taagaaaaga
      241 cgacggcgat cttgaggaac tccataatca gctgcgttta gcactttata atcgcttaca
      301 acgtcgtacc cgccatcttt aaatgcatcc attatctcta ctaaaaactg cttatgctta
      361 ccaaccgtca acccttttac attttcaaaa ataaagtatt taggctttag ctcaagaacc
      421 agccgtacat agtgatagac cagtttgttt ctatcatcat caagcgcgcg ttttcctatt
      481 aatgaaaagc cttggcaggg agcgcctccg atcactacat caatctcttt ctcaccaata
      541 cctgaaactt ccctaacgta ttctccggta acatcaacaa cacttctaca tatcgttttg
      601 cacataggaa agttatattt gtgagcagag caatgtattg gatctatttc aactgatgcc
      661 attatatcaa agccagcttg ctcgaaaccg agactcagcc cacccgctcc agcaaataaa
      721 tcaacagcaa tcggtctagt cattctttac acccacgtta tataaaatca acatgatgct
      781 atcagaaaaa cgatcgcttt accgatcgtt tttctgattt cgattgaaca taacatccct
      841 tgcgtgcacc acctgagagg ccctcagggc gtttctgacg ggaaaccggc aaaacaggca
      901 acaaaccacc cgaaaacccg ccagaaacgc gcaggctctg tttttacggc atgcatgagt
      961 atgcgcgcaa gtgcatagcg cggaaattca cgccattcag ccggggtaag tcctgtttcc
     1021 ggcgttcttc ccatccgaaa acggtgaacg ggcgggaaat ttattgcgtg gccgtgaggc
     1081 gttggcaaga acatcaggca tgaagataag ggggcggatg tacgaacgtt tcacaaaaca
     1141 atttcgagtg gaaatcagaa ccccttcctc ctgccaatgc tatccctcaa tgactcagcc
     1201 agtctttgag attcatcttc cactcttctg aagtcattca cggacagaaa aaaaccattc
     1261 tctggcgcgc ctgctacaga aacagatttt tctgtagcag gcaaagaatc cgctgtagcg
     1321 agagacgatc catctgtatt ttttctcaac ctgtaaagag ccttatcaaa cgcaacctgt
     1381 gagatcttca gaccgtaacg ttcattcagt acagccacaa tttctctcct ggggatgcca
     1441 tttttcttcc agttttctat atcagccagg gaatctctga cagccgcaat cgctgttctt
     1501 ggaccaaggt taaaattcgc catacgccac ccataatgtc ttatcaatgt ctcattttag
     1561 tccaaaatat cacagaatgt cttataattg tcctatcctt gtctttcacg gttcatgtag
     1621 ccatgaaccg gcaggtatgt aacgcttttt tatttcgctc aggcctgcca gatatagatt
     1681 catgccttaa aagccaagtt gctttatccc ttaaatggtc atacaccata cgcaatcgcg
     1741 atttcatcgc aactgcatga atcaaatggg aaaaatggga tttttcgttt atacgtgtaa
     1801 tacgcaaggt attacagtca accgtaatta catgaaaata aagaaataag atgtaatacc
     1861 accgtattac acatacgctg gccagcgaaa aagctataac gcttcccgac cgacaggagg
     1921 cccggaatcc accggggcgt gcaggttatc ttcagtaacc ttcgccatta aatcaaaaag
     1981 gtcatactcg ccgggaagct gcgtatcagc agcatcccgt tgttcatcat gttcagatgg
     2041 catggggtga tatccagtag ctgagaggtt gttagcgggt ttcggggcgc agccctgaac
     2101 cagtcacgta gcgctagcgg agtgtatact ggcttagtat gttacggcga gatggagatt
     2161 cggggaagtg cttcatgtgg caagggggaa aatacggctg cggggcgtaa gtgcaaaatg
     2221 caggtaacga tgaaatgacg cctcctcgct cactcggtcg ctgcgctcct gccgtgagac
     2281 tgcggcgggc gttaccagct cacgaaggac gagataacga gattgcgctc aagtcaggaa
     2341 agtcaggaaa aaggatgcgg cgttgccgtt tttccatagg ctccgccccc ctgacaagca
     2401 tcacaaaatc tgacgctcaa atcagtggtg gcgaaacccg acaggactat aaagatccca
     2461 ggcgtttccc cctggtagct ccctcgtgcg ctctcctgtt cctgcctttc ggtttaccgg
     2521 tgtcattccg ctgttatggc cgcgtttgtc tcattccacg cctgacactc agttccgggt
     2581 aggcagttcg ctccaagctg gactgtatgc acgaaccccc cgttcagtcc gactgctgcg
     2641 ccttgtccgg taactatcgt cttgagtcca acccggaaag acatgcaaaa gcgccactgg
     2701 cagcagccac tggtaatcgg attcacggag cggagtagag ttatctacag agttcttgaa
     2761 gtggtggcct gactacggct acactgaaag gacagttttg gtatctgcgc tccgtgaaag
     2821 ccagttacct tcggaagaaa gagttggtag ctctaaattc cggcaaacga accaccgttg
     2881 gtagcggtgg tttttttgtt tacggcttag gagattacgg ctagaacgaa aggatctcaa
     2941 gaagatcctc tcagaaatta tacagacatg cggtagtttg agatgtcaga gctatctaac
     3001 tcttttgccg gaaccagttt gtaatgcctt tcctcaatca atttcacttg tccttcgtct
     3061 atctttagct caaacagtgc aatcaaatcg ctcgaaacaa actgagcgga aatagctcta
     3121 catctaacat ttgggtattt ttgttcacac cacgctgtat cttgcgatgt ttgcaccatt
     3181 gatatttgat ctgtcccacc ttttgcttga actggtatta tataatggca accgtattta
     3241 tctataccta cataaagttc atcgatctct atttgaccaa ttcccttcac cgtagttctt
     3301 aaatgattct gtaaagaata tgtggttata cctagaaata tatctattag ccggttatat
     3361 ctcaccttcg ccagcaatgc ctgctcgtcg tctaaagaat aacctgtaat tatctccggg
     3421 gtattgtctg gaatttttat tgccaccata ttaggatttg gcaaaatcct actaatagtt
     3481 actaatctaa atcgatactt tgacctacca gccagctcaa taatccactc cttaccttct
     3541 ggctgagtca acagaatact ttctggcata ggcgttctaa atctgattga atatataaca
     3601 tcaccaacat tagatgggag ttctatacct aaatcttttg cagcactgtt tatctctaac
     3661 ctttcaaaca aaacctctaa gtcaccatca acatatttat cgaaaaatat cttttctacc
     3721 aactgatggt atctattttt ggacctttct tttttatcct tactcacaaa caacctcctt
     3781 gttactattt tttattctct tagcaattac atttgatgac acaccaaaca tagatgcagc
     3841 atcggacata gaaatagcaa ccaaactttc atcaccgagt ttgattttct tcgttggttt
     3901 ttttggcgta acaccaagaa ccttcataat ctgcaagcca acacttctag ctagcatagg
     3961 aggaacacta ttaccgacct gtctaaatcc atgccactta gtcacatgaa atctgaacca
     4021 atcaggatat gaatgcagtc ttgctgcctc tctgaccgtg atgaccctag gatagatcgg
     4081 atgtatagga cgaggagatg taaaagcacc tctgtcactt gctgttcctg cccttaaagt
     4141 attacatagc ccattcatcg agagcttttt aaacctgctg attggttcta ccgtgtcagg
     4201 caaagtttca acaaaccgcc ctctagaaat gtcagagtga tctgtcagta aagaacacgt
     4261 taatttg
//
