LOCUS       NZ_CP091552             2953 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Salmonella enterica strain 628 plasmid p628-3, complete sequence.
ACCESSION   NZ_CP091552
VERSION     NZ_CP091552.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16419724
            Assembly: GCF_023330745.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2953)
  AUTHORS   Ruan,Z.
  TITLE     Genome sequence of Salmonella carrying the mcr gene in China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2953)
  AUTHORS   Ruan,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (25-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 GridION; Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:28:27
            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)                     :: 5,094
            CDSs (total)                      :: 4,973
            Genes (coding)                    :: 4,849
            CDSs (with protein)               :: 4,849
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 124
            CDSs (without protein)            :: 124
            Pseudo Genes (ambiguous residues) :: 0 of 124
            Pseudo Genes (frameshifted)       :: 53 of 124
            Pseudo Genes (incomplete)         :: 91 of 124
            Pseudo Genes (internal stop)      :: 21 of 124
            Pseudo Genes (multiple problems)  :: 39 of 124
            Pseudo Genes (short protein)      :: 1 of 124
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP091552.1.
            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..2953
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="628"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="p628-3"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2019-05-13"
                     /collected_by="Meina Yue"
     gene            join(2928..2953,1..526)
                     /locus_tag="INN82_RS25440"
                     /old_locus_tag="INN82_25440"
     CDS             join(2928..2953,1..526)
                     /locus_tag="INN82_RS25440"
                     /old_locus_tag="INN82_25440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001722544.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="RepA plasmid replication protein"
                     /protein_id="WP_033995415.1"
                     /translation="MQQITVATDAQRRIRQRELAMLDEKEAQEREEARKNKGFTQVYPL
                     GWKRIIELAKGNAGAFGLYSFFAENIDPTCGAVVCDQQFLADKMNVNRRTISRWLSYLE
                     ENRALVRIPVAGKVCAYALDPHEVWKGYDNAKDYAAFVTKTLVNKDGDIRRRIMSMFSG
                     EKQNDDRDPNTIDMFESTPQ"
                     /name="RepA plasmid replication protein"
     gene            553..873
                     /locus_tag="INN82_RS25445"
                     /old_locus_tag="INN82_25445"
     CDS             553..873
                     /locus_tag="INN82_RS25445"
                     /old_locus_tag="INN82_25445"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004028395.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MliC family protein"
                     /protein_id="WP_033995417.1"
                     /translation="MKKTFALAAMMAAIAPNLASAADEMIQTKYACEGGKTLDVVYVGD
                     YAVMLQMDELVPLKRAKSASGVRYISASKNYTYELWGKGNDMNLSTHDGGKEQTVLSSC
                     KP"
                     /name="MliC family protein"
     gene            complement(900..1874)
                     /gene="mobV"
                     /locus_tag="INN82_RS25450"
                     /old_locus_tag="INN82_25450"
     CDS             complement(900..1874)
                     /gene="mobV"
                     /locus_tag="INN82_RS25450"
                     /old_locus_tag="INN82_25450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000024818.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_033995413.1"
                     /translation="MAAYAIMRCKKLATMGSVAAALQHCYRERETPNADAERTPDNEHR
                     AATSTDAAMGRLRELLPEKRRKDAVLAVEYVMTASPEWWAKATPQQQAAFFDQAQGWLA
                     AKYGADRIVTASIHRDEATPHLSAFVVPLTQDGRLSAKEFIGGRDKMRADQTSFAEAVR
                     DLGLERGIEGSRATHQRVQSYYGAIERQPGHATITPQAIEPRVLRKGIFSKDVETPEAV
                     AARVTAAVREGYGPTVAAAAGARQEREKARQAQETARSLRDRLKPVLDALGPLNRDMQA
                     KAAQIIKAVGEKLLAEQREATRQRQAQRLRSRGRDRDDGGLSR"
                     /name="mobV"
ORIGIN
        1 cgcccagcgt cgtatccgcc agcgagagct ggccatgctg gacgagaaag aggctcagga
       61 gcgcgaagag gcgcggaaga acaaggggtt cacgcaggtg tatcccttgg gttggaagcg
      121 catcattgag cttgctaaag gcaatgctgg ggccttcggc ctgtattcat tctttgctga
      181 aaatatcgac ccaacctgcg gcgcggtggt ctgcgatcag cagtttttgg cagacaagat
      241 gaacgtcaac aggcggacaa tcagccgttg gttgtcttac ctggaagaaa atcgcgcgct
      301 tgtccgcatc cctgttgctg gcaaggtttg cgcctatgcg ctggatcctc acgaggtctg
      361 gaagggctac gacaacgcca aggattacgc agctttcgtg accaaaacct tggtcaacaa
      421 ggatggcgat atccgccgcc ggatcatgtc gatgttcagc ggcgagaagc agaacgacga
      481 ccgcgacccg aacaccattg acatgtttga aagcactccc caatgagcaa cgaaacgaag
      541 gagaaaatct ttatgaaaaa aacgttcgct cttgctgcca tgatggcggc aatcgctccg
      601 aatcttgctt cagcagcgga tgagatgatc cagaccaagt acgcttgcga aggcggaaag
      661 acgttggatg tcgtgtacgt cggagactat gccgtgatgc tgcaaatgga tgagcttgtc
      721 ccactgaaac gcgccaagag cgcatcagga gtgcgctaca tctccgctag caaaaactac
      781 acctacgaac tgtggggtaa gggcaacgac atgaaccttt cgacccacga tggcgggaag
      841 gagcaaaccg tcctcagtag ctgcaagcca taaacccctt ccgtcggcca cctgtagggt
      901 caacgagaca gcccgccgtc gtcgcgatcc cggccgcgac tgcgaagccg ttgggcctgc
      961 cgctggcgtg tcgcctcgcg ctgttcggcg agcagcttct cgcccacggc cttgatgatc
     1021 tgggccgcct tggcctgcat atcgcgatta agcggcccca gagcgtccag aacgggcttc
     1081 aggcggtcac gcaggctccg ggctgtctcc tgtgcctgcc gggccttctc gcgctcctga
     1141 cgcgctcctg cggccgctgc gacggtcggg ccataccctt ccctgacggc agcggtcacg
     1201 cgggcggcca cggcctccgg cgtctccacg tccttcgaga aaatcccctt gcgcagcacc
     1261 cgcggctcga tggcctgcgg cgtgatggtg gcgtgcccgg gctggcgctc gatggcgccg
     1321 tagtagctct ggacgcgctg atgggtggcc cggctgccct cgatgccgcg ttccagcccg
     1381 agatccctca ccgcctcggc aaagctggtc tggtcggccc gcatcttgtc gcggccaccg
     1441 atgaactcct tggccgacag ccgcccgtcc tgcgtcagcg gcacgacgaa ggccgacagg
     1501 tgcggggtgg cctcgtcgcg gtggatgctg gccgtcacga tgcgatccgc gccgtatttg
     1561 gccgccagcc agccctgcgc ctggtcgaag aacgcggcct gctgctgggg cgtggccttg
     1621 gcccaccatt ccgggctggc cgtcatcacg tattcgaccg ccagcaccgc gtccttgcgc
     1681 cgcttctccg gcagcaactc gcgcagccgc cccatcgccg catcggttga ggtggccgcc
     1741 cggtgctcgt tgtccggcgt gcgttcggcg tcagcgttgg gcgtttcgcg ctcgcggtag
     1801 cagtgctgca acgccgccgc cacgctgccc atcgtcgcca gcttcttgca tcgcatgatc
     1861 gcgtaggccg ccatgcctgc ccctcccctt ggtgtccgaa tccggccagt cggggcagcg
     1921 caaggcggtg cctccggcgg gccactatca gatgatagtg tactcactag actttgcgaa
     1981 gcaaagtcgt gcccgcctgc ggcggttgca gcgcccttcg ggcttgctcc tgcggcggcc
     2041 ttcggccttg cccaaagggg ctttgcccct ctggactccc caccctcgcc gccgggaggc
     2101 tcggggggca ggggtggcgg gcttcgccct tcgtccctgc ccccactcgc acaggctggg
     2161 gcgctgcggt cagcgtcaag ggttcggctt cgcccgcgtc ctcgcccggt ccctgcgctt
     2221 cgctccgggc tgcggcctgc gggcgcgccc ttgaccctgc cctccgctga aggcgtcagc
     2281 cagtggcccg ctggcgtgtc ggaaatcgcc tcatggccgg gtaggaaatt tccgacagcg
     2341 ccggagtgga aggcgggtca agggcgcagg gggtggctgg cgcggcccgc agcccgcagg
     2401 gcgaggacac gggccacccc cggagagcgc agcggccctt gacgcgcctg gaacgacccc
     2461 acgctccccg gtaggggtgc aggagtgaag ggccgcaggc ccgtagcccc tgcacccctg
     2521 ccacgtggcg aacgcggggg gtggcggggg gcagcgccca ccgccccaag gctgcgcagc
     2581 ggccgccgga ggccccccaa acaacgtcac ccggccggtg gccgggtggg ccttttccag
     2641 aggccccgca ggggccgtca gcggggtgcc aaggccgcgt agcggccgcc ggcggggcgg
     2701 cagcccctta gaggagaaag ggggaaatgc taagttattg atttataagg atttgtagaa
     2761 atgcattgag acacataggg tgtcctaacg ttgagacatg catggatgtc tcaacaggta
     2821 gcaaggttga gacgcaaact gtctcgacgt gagacataat ttgtcgtatc attgcgactc
     2881 gaaatggcgc aatgagcgga caaatttccc gactttggag gaaccccatg cagcagatca
     2941 cggtggcgac cga
//
