LOCUS       NZ_CP038600             2097 bp    DNA     circular CON 05-JUN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Hadar strain 12-2388
            plasmid p12-2388.5, complete sequence.
ACCESSION   NZ_CP038600
VERSION     NZ_CP038600.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06030204
            Assembly: GCF_004768645.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Hadar
  ORGANISM  Salmonella enterica subsp. enterica serovar Hadar
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 2097)
  AUTHORS   Robertson,J., Lin,J., Wren-Hedegus,A., Arya,G., Carrillo,C. and
            Nash,J.H.E.
  TITLE     Development of a multi-locus typing scheme for an Enterobacteriaceae
            linear plasmid that mediates inter-species transfer of flagella
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2097)
  AUTHORS   Robertson,J., Lin,J., Wren-Hedegus,A., Arya,G., Carrillo,C. and
            Nash,J.H.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-APR-2019) Public Health Agency of Canada, National
            Microbiology Laboratory at Guelph, 110 Stone Road West, Guelph,
            Ontario N1G3W4, Canada
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 4.5
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 60.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_004768645.1-RS_2024_06_05
            Annotation Date                   :: 06/05/2024 01:02:17
            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)                     :: 4,555
            CDSs (total)                      :: 4,433
            Genes (coding)                    :: 4,299
            CDSs (with protein)               :: 4,299
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 134
            CDSs (without protein)            :: 134
            Pseudo Genes (ambiguous residues) :: 0 of 134
            Pseudo Genes (frameshifted)       :: 70 of 134
            Pseudo Genes (incomplete)         :: 82 of 134
            Pseudo Genes (internal stop)      :: 25 of 134
            Pseudo Genes (multiple problems)  :: 40 of 134
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP038600.1.
            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..2097
                     /organism="Salmonella enterica subsp. enterica serovar
                     Hadar"
                     /mol_type="genomic DNA"
                     /strain="12-2388"
                     /serovar="Hadar"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:149385"
                     /plasmid="p12-2388.5"
                     /geo_loc_name="Canada"
                     /collected_by="NML"
     gene            complement(687..1676)
                     /locus_tag="CVJ63_RS23180"
                     /old_locus_tag="CVJ63_23180"
     CDS             complement(687..1676)
                     /locus_tag="CVJ63_RS23180"
                     /old_locus_tag="CVJ63_23180"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001362017.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_024136759.1"
                     /translation="MKNPDLQNLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYERYGAR
                     MALCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFRPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPGMLNGKSYVRHERWVELWRECLRVDYDPNVDVRAVKPRKPKGG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESG"
                     /name="protein rep"
     Typing          complement(604..685)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="90.0"
                     /evalue="3.4000000000000004e-27"
     Typing          770..961
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.964"
                     /coverage="100.0"
                     /evalue="6.14e-93"
ORIGIN
        1 gtgacaccaa ccaccatccc cagtgttttt cccgtgccgt cgtcaatcac aaaatcggaa
       61 cccacgccgg aggcgcgggc ccccgcgatt ttctgtttga cgaatcaggg aacggtgaac
      121 ggtacgcgga attttttcgc gttccgtgag gcgttggcgg ggtgtcgggg cgcagtcctg
      181 accaggttcg tagaaccgca cagggttgca aaggggtgtc ccctttggca caagcgacgg
      241 agcgaaacgc cccgttttgt gtacgccgct tatcgtgcct gtgttttagg agaacaaaaa
      301 aatgccgtgc atacagccca cacaatgacc cacataatca cccacaactc aaaacacaca
      361 gcccacacaa tcacccacac tttaacccac aaaaaagacc acaaccccat tgacacccca
      421 caaaacaacc cacacaaacg gcgagtaaat cattttgccg ttttcgtgcc gcagccgttc
      481 cgcgcaatcg acaaactggc agtcagggaa tctcacgaag tgcgcactta tacaaactca
      541 ccttaggttc gtttgtcgtg cggtctgcga cgctcaaaaa accgagaaac ggcgggaatt
      601 ttcgggacag gatgtgtaat tgtaataccg tcacacgcga cgctatcaca attgccatct
      661 ggtcaggggt gcaccccgac accccgctag cctgattcag ttttatcttt cgtcggtgag
      721 cgacggtact ttctgacctc ggttttccac tcgaacgcga ttcgtgaacc gtcatcgtcg
      781 ccctcggaaa tatcatcacc gatcaccatg tcggcgtcag tttcctgatc gagtttcagc
      841 acgtctttga gtgcgccgcc ggtcgccaca aagcggcgct tgtgcgtctg gcgggtcagt
      901 tcgaggaacc attcaggatc ggccaccatg tcagccggct tcgtggaata tttcagggtt
      961 tcggccaccg caccgcgcac cagttcggcg gtcgcgcagg ccagcgattc gccgcccttc
     1021 ggcttacgag gtttcactgc ccggacatca acattcgggt cataatcgac ccgcagacac
     1081 tcccgccaga gttcaaccca gcgttcatgc ctgacgtaac ttttcccatt tagcatgcca
     1141 ggcggcacca tcatcagggt gtggaagtgc gggtgtgcgc tgccgtcgct cccgcgggtg
     1201 acttccgtgg tacgtatcca gccctgcaca ggccggaact ccttgcgaac cttcatgcgc
     1261 tgaaaagctg cattcatccg gttcagcatc tcgcccagct ccccgatcgc acagttgcgc
     1321 acggtcagag tcaggaacat ccagcgggca tcgggataat ccgccacgat acgcggcagg
     1381 gactggtaga aacgggcttg ccacatcagg gagcgcctcc actggcagac aggacaatgc
     1441 cggacacggc agaaatgcgc ctcacgcagc ctcagacgcg tttctccggt ttccttgagg
     1501 gtagaccacc cgaaacgcag taaaccacca cagagggcca tacgcgcccc gtagcgctca
     1561 tattcggctg caagcaggta aatccctccc acgtcatcag aaacgcttct gtgagcgtcc
     1621 cagggcgcat ctgaggggga atagtccgtg aggttctgga gatcagggtt tttcatgcgc
     1681 accacccgat agtgggcgat ggctcatctg acgtgttatc attgccatat cacctgttgt
     1741 gttagtcgta tcaccaattc gaattcctac aggtggtcac acccccgaac gattgccctc
     1801 gttgcggggg tcgcttttaa tgcgaccact cccgacagaa taactccaaa accattttcc
     1861 gacaaatccc ccttcaggcc ttgcggcaca agggctggag gcgaatttga atcctagagt
     1921 tatcccttaa gtataaatac aaggatcgcg cgcgagattc gcttgaattt tgagcgggat
     1981 tttcagtaac ccaaaacacc caaccccacc cacttacacc catctcatcc acagactttc
     2041 accccgattt tgtgaacaac aaaaaaaaac cgtcttgcag gtggttggcc tcactgc
//
