LOCUS       NZ_CP091610             4267 bp    DNA     circular CON 28-JAN-2024
DEFINITION  Salmonella enterica strain 1810 plasmid p1810-3, complete sequence.
ACCESSION   NZ_CP091610
VERSION     NZ_CP091610.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25270680
            Assembly: GCF_026873325.1
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  JOURNAL   Unpublished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 13:39:45
            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)                     :: 4,742
            CDSs (total)                      :: 4,627
            Genes (coding)                    :: 4,504
            CDSs (with protein)               :: 4,504
            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)              :: 123
            CDSs (without protein)            :: 123
            Pseudo Genes (ambiguous residues) :: 0 of 123
            Pseudo Genes (frameshifted)       :: 48 of 123
            Pseudo Genes (incomplete)         :: 85 of 123
            Pseudo Genes (internal stop)      :: 29 of 123
            Pseudo Genes (multiple problems)  :: 36 of 123
            Pseudo Genes (short protein)      :: 1 of 123
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP091610.1.
            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="1810"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="p1810-3"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2021-08"
                     /collected_by="Meina Yue"
     gene            complement(join(4060..4267,1..1043))
                     /locus_tag="L5513_RS23680"
                     /old_locus_tag="L5513_23695"
     CDS             complement(join(4060..4267,1..1043))
                     /locus_tag="L5513_RS23680"
                     /old_locus_tag="L5513_23695"
                     /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(1455..1823)
                     /locus_tag="L5513_RS23685"
                     /old_locus_tag="L5513_23700"
     CDS             complement(1455..1823)
                     /locus_tag="L5513_RS23685"
                     /old_locus_tag="L5513_23700"
                     /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(2194..2343)
                     /locus_tag="L5513_RS23690"
                     /old_locus_tag="L5513_23705"
     CDS             complement(2194..2343)
                     /locus_tag="L5513_RS23690"
                     /old_locus_tag="L5513_23705"
                     /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            2907..3038
                     /locus_tag="L5513_RS23745"
     CDS             2907..3038
                     /locus_tag="L5513_RS23745"
                     /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(3258..4067)
                     /locus_tag="L5513_RS23695"
                     /old_locus_tag="L5513_23710"
     CDS             complement(3258..4067)
                     /locus_tag="L5513_RS23695"
                     /old_locus_tag="L5513_23710"
                     /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(2337..2553)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.781"
                     /coverage="100.0"
                     /evalue="4.32e-80"
     Typing          2500..3016
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.192"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ctattaccga cctgtctaaa tccatgccac ttagtcacat gaaatctgaa ccaatcagga
       61 tatgaatgca gtcttgctgc ctctctgacc gtgatgaccc taggatagat cggatgtata
      121 ggacgaggag atgtaaaagc acctctgtca cttgctgttc ctgcccttaa agtattacat
      181 agcccattca tcgagagctt tttaaacctg ctgattggtt ctaccgtgtc aggcaaagtt
      241 tcaacaaacc gccctctaga aatgtcagag tgatctgtca gtaaagaaca cgttaatttg
      301 tctttattaa aaatccttgg gtagctaaaa tcactaggat cttttcctac gccatgcaaa
      361 taggatgagt atagtgattg ctcaccaaat ttagcataaa cccaatctct accccatagc
      421 tcaggatatt tttccgcatc aggaatatcc ccaatagcgt ccccaaccgt tgttctaatg
      481 gataatggct cagggtatga tggcagagca attcctttcc ttccccccat taagaaaaga
      541 cgacggcgat cttgaggaac tccataatca gctgcgttta gcactttata atcgcttaca
      601 acgtcgtacc cgccatcttt aaatgcatcc attatctcta ctaaaaactg cttatgctta
      661 ccaaccgtca acccttttac attttcaaaa ataaagtatt taggctttag ctcaagaacc
      721 agccgtacat agtgatagac cagtttgttt ctatcatcat caagcgcgcg ttttcctatt
      781 aatgaaaagc cttggcaggg agcgcctccg atcactacat caatctcttt ctcaccaata
      841 cctgaaactt ccctaacgta ttctccggta acatcaacaa cacttctaca tatcgttttg
      901 cacataggaa agttatattt gtgagcagag caatgtattg gatctatttc aactgatgcc
      961 attatatcaa agccagcttg ctcgaaaccg agactcagcc cacccgctcc agcaaataaa
     1021 tcaacagcaa tcggtctagt cattctttac acccacgtta tataaaatca acatgatgct
     1081 atcagaaaaa cgatcgcttt accgatcgtt tttctgattt cgattgaaca taacatccct
     1141 tgcgtgcacc acctgagagg ccctcagggc gtttctgacg ggaaaccggc aaaacaggca
     1201 acaaaccacc cgaaaacccg ccagaaacgc gcaggctctg tttttacggc atgcatgagt
     1261 atgcgcgcaa gtgcatagcg cggaaattca cgccattcag ccggggtaag tcctgtttcc
     1321 ggcgttcttc ccatccgaaa acggtgaacg ggcgggaaat ttattgcgtg gccgtgaggc
     1381 gttggcaaga acatcaggca tgaagataag ggggcggatg tacgaacgtt tcacaaaaca
     1441 atttcgagtg gaaatcagaa ccccttcctc ctgccaatgc tatccctcaa tgactcagcc
     1501 agtctttgag attcatcttc cactcttctg aagtcattca cggacagaaa aaaaccattc
     1561 tctggcgcgc ctgctacaga aacagatttt tctgtagcag gcaaagaatc cgctgtagcg
     1621 agagacgatc catctgtatt ttttctcaac ctgtaaagag ccttatcaaa cgcaacctgt
     1681 gagatcttca gaccgtaacg ttcattcagt acagccacaa tttctctcct ggggatgcca
     1741 tttttcttcc agttttctat atcagccagg gaatctctga cagccgcaat cgctgttctt
     1801 ggaccaaggt taaaattcgc catacgccac ccataatgtc ttatcaatgt ctcattttag
     1861 tccaaaatat cacagaatgt cttataattg tcctatcctt gtctttcacg gttcatgtag
     1921 ccatgaaccg gcaggtatgt aacgcttttt tatttcgctc aggcctgcca gatatagatt
     1981 catgccttaa aagccaagtt gctttatccc ttaaatggtc atacaccata cgcaatcgcg
     2041 atttcatcgc aactgcatga atcaaatggg aaaaatggga tttttcgttt atacgtgtaa
     2101 tacgcaaggt attacagtca accgtaatta catgaaaata aagaaataag atgtaatacc
     2161 accgtattac acatacgctg gccagcgaaa aagctataac gcttcccgac cgacaggagg
     2221 cccggaatcc accggggcgt gcaggttatc ttcagtaacc ttcgccatta aatcaaaaag
     2281 gtcatactcg ccgggaagct gcgtatcagc agcatcccgt tgttcatcat gttcagatgg
     2341 catggggtga tatccagtag ctgagaggtt gttagcgggt ttcggggcgc agccctgaac
     2401 cagtcacgta gcgctagcgg agtgtatact ggcttagtat gttacggcga gatggagatt
     2461 cggggaagtg cttcatgtgg caagggggaa aatacggctg cggggcgtaa gtgcaaaatg
     2521 caggtaacga tgaaatgacg cctcctcgct cactcggtcg ctgcgctcct gccgtgagac
     2581 tgcggcgggc gttaccagct cacgaaggac gagataacga gattgcgctc aagtcaggaa
     2641 agtcaggaaa aaggatgcgg cgttgccgtt tttccatagg ctccgccccc ctgacaagca
     2701 tcacaaaatc tgacgctcaa atcagtggtg gcgaaacccg acaggactat aaagatccca
     2761 ggcgtttccc cctggtagct ccctcgtgcg ctctcctgtt cctgcctttc ggtttaccgg
     2821 tgtcattccg ctgttatggc cgcgtttgtc tcattccacg cctgacactc agttccgggt
     2881 aggcagttcg ctccaagctg gactgtatgc acgaaccccc cgttcagtcc gactgctgcg
     2941 ccttgtccgg taactatcgt cttgagtcca acccggaaag acatgcaaaa gcgccactgg
     3001 cagcagccac tggtaatcgg attcacggag cggagtagag ttatctacag agttcttgaa
     3061 gtggtggcct gactacggct acactgaaag gacagttttg gtatctgcgc tccgtgaaag
     3121 ccagttacct tcggaagaaa gagttggtag ctctaaattc cggcaaacga accaccgttg
     3181 gtagcggtgg tttttttgtt tacggcttag gagattacgg ctagaacgaa aggatctcaa
     3241 gaagatcctc tcagaaatta tacagacatg cggtagtttg agatgtcaga gctatctaac
     3301 tcttttgccg gaaccagttt gtaatgcctt tcctcaatca atttcacttg tccttcgtct
     3361 atctttagct caaacagtgc aatcaaatcg ctcgaaacaa actgagcgga aatagctcta
     3421 catctaacat ttgggtattt ttgttcacac cacgctgtat cttgcgatgt ttgcaccatt
     3481 gatatttgat ctgtcccacc ttttgcttga actggtatta tataatggca accgtattta
     3541 tctataccta cataaagttc atcgatctct atttgaccaa ttcccttcac cgtagttctt
     3601 aaatgattct gtaaagaata tgtggttata cctagaaata tatctattag ccggttatat
     3661 ctcaccttcg ccagcaatgc ctgctcgtcg tctaaagaat aacctgtaat tatctccggg
     3721 gtattgtctg gaatttttat tgccaccata ttaggatttg gcaaaatcct actaatagtt
     3781 actaatctaa atcgatactt tgacctacca gccagctcaa taatccactc cttaccttct
     3841 ggctgagtca acagaatact ttctggcata ggcgttctaa atctgattga atatataaca
     3901 tcaccaacat tagatgggag ttctatacct aaatcttttg cagcactgtt tatctctaac
     3961 ctttcaaaca aaacctctaa gtcaccatca acatatttat cgaaaaatat cttttctacc
     4021 aactgatggt atctattttt ggacctttct tttttatcct tactcacaaa caacctcctt
     4081 gttactattt tttattctct tagcaattac atttgatgac acaccaaaca tagatgcagc
     4141 atcggacata gaaatagcaa ccaaactttc atcaccgagt ttgattttct tcgttggttt
     4201 ttttggcgta acaccaagaa ccttcataat ctgcaagcca acacttctag ctagcatagg
     4261 aggaaca
//
