LOCUS       NZ_CP040320             3372 bp    DNA     circular CON 16-MAR-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Rough O:-:- strain
            PNCS009887 plasmid p11-0883.2, complete sequence.
ACCESSION   NZ_CP040320
VERSION     NZ_CP040320.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06030095
            Assembly: GCF_005537135.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Rough O:-:-
  ORGANISM  Salmonella enterica subsp. enterica serovar Rough O:-:-
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3372)
  AUTHORS   Schonfeld,J., Clark,C., Johnson,R., Labbe,G., Liu,K., Robertson,J.
            and Nash,J.H.E.
  TITLE     Complete genome sequences of Canadian Typhimurium and I
            1,4,[5],12:i:-
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3372)
  AUTHORS   Schonfeld,J., Clark,C., Johnson,R., Labbe,G., Liu,K., Robertson,J.
            and Nash,J.H.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-MAY-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 Date                     :: 2004
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_005537135.1-RS_2024_03_16
            Annotation Date                   :: 03/16/2024 05:23:15
            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)                     :: 4,871
            CDSs (total)                      :: 4,745
            Genes (coding)                    :: 4,619
            CDSs (with protein)               :: 4,619
            Genes (RNA)                       :: 126
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 126
            CDSs (without protein)            :: 126
            Pseudo Genes (ambiguous residues) :: 0 of 126
            Pseudo Genes (frameshifted)       :: 49 of 126
            Pseudo Genes (incomplete)         :: 89 of 126
            Pseudo Genes (internal stop)      :: 22 of 126
            Pseudo Genes (multiple problems)  :: 32 of 126
            Pseudo Genes (short protein)      :: 1 of 126
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP040320.1.
            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..3372
                     /organism="Salmonella enterica subsp. enterica serovar
                     Rough O:-:-"
                     /mol_type="genomic DNA"
                     /strain="PNCS009887"
                     /serovar="Rough O:-:-"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:2579247"
                     /plasmid="p11-0883.2"
                     /geo_loc_name="Canada"
                     /collected_by="NML"
     gene            1..192
                     /locus_tag="CVI53_RS24595"
                     /old_locus_tag="CVI53_24595"
     CDS             1..192
                     /locus_tag="CVI53_RS24595"
                     /old_locus_tag="CVI53_24595"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165979.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNDLDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1508..1741)
                     /locus_tag="CVI53_RS24605"
                     /old_locus_tag="CVI53_24605"
     CDS             complement(1508..1741)
                     /locus_tag="CVI53_RS24605"
                     /old_locus_tag="CVI53_24605"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137389.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1748..2308)
                     /locus_tag="CVI53_RS24610"
                     /old_locus_tag="CVI53_24610"
     CDS             complement(1748..2308)
                     /locus_tag="CVI53_RS24610"
                     /old_locus_tag="CVI53_24610"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_000067487.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKKQLDTLSTTVSMQFSTTEAELSRQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(<2340..2996)
                     /locus_tag="CVI53_RS25010"
                     /old_locus_tag="CVI53_24615"
                     /pseudo=""
     CDS             complement(<2340..2996)
                     /locus_tag="CVI53_RS25010"
                     /old_locus_tag="CVI53_24615"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(2986..3309)
                     /locus_tag="CVI53_RS24620"
                     /old_locus_tag="CVI53_24620"
     CDS             complement(2986..3309)
                     /locus_tag="CVI53_RS24620"
                     /old_locus_tag="CVI53_24620"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_024132211.1"
                     /translation="MLTIRVTDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(274..354)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.805"
                     /coverage="93.0"
                     /evalue="8.68e-18"
     Typing          complement(1426..2996)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.817"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgaccaaac aggaaaaaac agcccttaac atggctcgct ttatcagaag ccagacgcta
       61 accctgctgg aaaaactcaa cgatctggac gcggacgaac aggcagacat ctgcgaatca
      121 cttcacgacc acgccgacga actctaccgc agttgcctcg cacgcttcgg cgatgacggt
      181 gaaagcaact gaaacatgca gctcccggag acgttcacag cttgcctgtg agcggatgcc
      241 gggagcagac aagcccgcca gggcgcgtca gtgcgggtgt cggggcgcag ccctgaccca
      301 gttcacagag cgatagcgat gtgtatactg gcttatctca ttttgcatcg gtgcagaatg
      361 gatgggaagt gcaccatgtc aggagtaaaa agccgcacag atgtaaaaac agcgcacccg
      421 ataaacagca cacacgcgga cactggcaca ggcgcgtaag tgcacaatgc ttgcatctgt
      481 gactcttccg cttcctcgcc cactcgctca ctacgttcgg tcgctggggc tgcggcgagc
      541 ggtgggatca ctctcgttgt gatgctgatc cgtttttttt ttttgcactg gagttatcag
      601 gagttgcggt gcacatggga tcgtgcgata tgccggatgg tgaaaggttg gagggaacgg
      661 caacaactca cccctcccag tgaagggacg ggtagtttgc cgctctcgat atgccggacg
      721 gagccaaggc catcgatcac ggggcgcgtc agtggaagaa cccgcgcctg cgtgacgtat
      781 gcgtcttcgc cgcaccatct cacccgtcac gccaccacat accgggaact gccgccaagg
      841 tctaactcaa ccaatctagc cgcgctacat acggtttttg tggcaactca tcaggtgtcc
      901 gctgtcgatg aaactctctg cgccggtagc ggaactctca cgcgtgcggt cgccgtcgtc
      961 acagctcccc caaccgcaaa cgattctcgc aaatacgcaa gtatctgcaa aaacaggttt
     1021 ttttcggggt tcctgggaga ctgtgctgtt gaaaaattct tgaagaatac agaaggctca
     1081 tgcaaactga atgaactggt ttctgttgtg gatctcaaca gtttccacag gaacattgag
     1141 gaggtcagag acctcaatga acccgaaaca gctcgccttc ctggcgagct gttttcgttc
     1201 tacgcccgcc gacgaaagat cgcaagtgca ataacgagat ttttcacgtc tttacgctca
     1261 aaaagtaaaa aaaccatgtt ttcccctggc tgaatcccca aaaacgcgtg aaatgcgttt
     1321 tcaggatgtt gcatagctat gcacaaatac ggcacacgat ttgtttcgct cgccccagcc
     1381 gtcgaactgg tcaaaatggc aagatttcgt cacttccccg gtcacatctc cattgatggc
     1441 ccactccgaa cccgtgccgc gcgttcctgt acctcatgtc tgtaccgggc acgctcctgt
     1501 tcatccctta gctgttgttc gcgataaata accgactcaa gcgatccact tgcccggcta
     1561 atctctgcac ctgctgactc aatatcacga cgcgctcgtt cagtatcgcg ttgttccgtt
     1621 gcgtaacctc gtgcatcttc tgcaattccg cgaaggcgct ctcccactcg ttcagccgcc
     1681 gcatatagtc ctgttgcaaa tgctctaagg cgttcagcaa atgcccttcc agttccgtca
     1741 tactcgttta ctccctgacc agcctcacgg cgttcttgtc gcccaccgtc caggtgtttt
     1801 cccctttcac cccgtccggc aacaccagaa atttcccgtt ctcgccattg acgaacgtca
     1861 ccccccaggt ttttgcctcg agtttcgcca gcgtgttttc ctgctctctg atagtcagga
     1921 tatttttcgc aatcttgctt tcctgccact ccatcagccc ccagcacccc aggaaaatgc
     1981 cgcccgtgac gctgagcgcg gtcagcgccg gaaacagtat ccgccctttg atcacccgcc
     2041 agagcagttt tttctgctgc cgggacagtt cggcctctgt ggtgctgaac tgcatgctca
     2101 cggtggtgct cagcgtatcc agttgctttt tcacggatgt tgtatgttcg ctgatagcgt
     2161 ctctgatttt ctgcctgttt aagctcaatg ccttgtctac agactcttcg agcttcctga
     2221 actcgctgtt cagcatgttc tcggtagaag cggctcgctc tttcagtttc ttctcgaagt
     2281 ctgttcccat ttgtaaaaga ttgctcatac agcgccccct ttagcctgag attccgcccc
     2341 ccctccgggt cggcaatact gatgctgctt ttggttgtcc tcaccacctc aaaacctgcc
     2401 gctgtaagcg cctctgtgac atcctgacgc gtttttattg ctccggcatg gtaaagagcc
     2461 tcaagacccc gtgtaatcgc ttctgcggcc tcctgtttcg cttttggcag attatttggc
     2521 gtgacaagcg tccgtctgtt ctccggtgcg ttcgggtcac gcagcccgta atgatgatta
     2581 accagcgtct gccaggcatt tatcctcggc ctgtccgcgc ggtcgtagta cggctggagg
     2641 cgcttaccgc tctgtagctc catgttcggg atgacaaaat tcagttcgag ccgcccctta
     2701 tcctggtgtt ccacccagag aatgctgtac tggtcttttt cgagaccggg cataagaaca
     2761 cgctcaaagc tcgtcatcac tctttcgcgt tcacccggcg gtaactcctt ctccgcgaac
     2821 gacagaacgc ctgaagtgta tttcttcgag aatggcgtgg aatcaatgag ttcccgcact
     2881 tcttccgggt taccccggag caccgttgcg ccttcgcggt tacgctcccg ccccagcagg
     2941 taatcgaccg ggccacttcc accgcctttc cccctggcat gaaatttaac tatcatcccg
     3001 taccccctgt tccctgacag cctgccgcaa ctggcgcaat tcaccctcga tggccatcag
     3061 tgcggccacc acatgaaccc ggtcaatcga agaccactgg ccgctgttca ccttccgggc
     3121 tgtctggttc aggttgttcc cgatggcagc cagatgccgc agcaatggcg gcgatagtgt
     3181 cggcagtttt cctgtgcgtg caaccggctc ccccagacag acccgccgca tccattccgc
     3241 cagtcgttta ccctcgcagc gttccagtaa ccgggcgtgc tcctcatcgg taacccgtat
     3301 cgtgagcatc ttctcgcgtt tcatcggtat cattccccct aacaaatccc ccatacaagg
     3361 agccttaaga cc
//
