LOCUS       NZ_CP030004             4593 bp    DNA     circular CON 12-SEP-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Brandenburg strain
            SA20064858 plasmid pSA20064858.2, complete sequence.
ACCESSION   NZ_CP030004
VERSION     NZ_CP030004.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN09237639
            Assembly: GCF_003324855.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Brandenburg
  ORGANISM  Salmonella enterica subsp. enterica serovar Brandenburg
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4593)
  AUTHORS   Nash,J.H.E., Robertson,J. and Bessonov,K.
  TITLE     Salmonella Enterica genomes from various sources
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4593)
  AUTHORS   Nash,J.H.E., Robertson,J. and Bessonov,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-JUN-2018) 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. 0.4.3
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 104x
            Sequencing Technology             :: Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/12/2023 01:41:13
            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)                     :: 4,691
            CDSs (total)                      :: 4,572
            Genes (coding)                    :: 4,413
            CDSs (with protein)               :: 4,413
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 159
            CDSs (without protein)            :: 159
            Pseudo Genes (ambiguous residues) :: 0 of 159
            Pseudo Genes (frameshifted)       :: 65 of 159
            Pseudo Genes (incomplete)         :: 116 of 159
            Pseudo Genes (internal stop)      :: 27 of 159
            Pseudo Genes (multiple problems)  :: 42 of 159
            Pseudo Genes (short protein)      :: 1 of 159
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP030004.1.
            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..4593
                     /organism="Salmonella enterica subsp. enterica serovar
                     Brandenburg"
                     /mol_type="genomic DNA"
                     /strain="SA20064858"
                     /serovar="Brandenburg"
                     /sub_species="enterica"
                     /db_xref="taxon:149387"
                     /plasmid="pSA20064858.2"
     gene            286..846
                     /locus_tag="DOE58_RS24910"
     CDS             286..846
                     /locus_tag="DOE58_RS24910"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_000067488.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            853..1086
                     /locus_tag="DOE58_RS24915"
     CDS             853..1086
                     /locus_tag="DOE58_RS24915"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /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_000137388.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1774..2613)
                     /locus_tag="DOE58_RS24725"
                     /old_locus_tag="DOE58_24710"
     CDS             complement(1774..2613)
                     /locus_tag="DOE58_RS24725"
                     /old_locus_tag="DOE58_24710"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001354646.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     gene            complement(2805..2954)
                     /locus_tag="DOE58_RS25460"
     CDS             complement(2805..2954)
                     /locus_tag="DOE58_RS25460"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032194431.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPERHVKTPLAAAIGNRLEELVLK
                     LCAG"
                     /name="hypothetical protein"
     gene            complement(3624..3815)
                     /locus_tag="DOE58_RS24740"
                     /old_locus_tag="DOE58_24725"
     CDS             complement(3624..3815)
                     /locus_tag="DOE58_RS24740"
                     /old_locus_tag="DOE58_24725"
                     /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_000165986.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3878..4201
                     /locus_tag="DOE58_RS24745"
                     /old_locus_tag="DOE58_24730"
     CDS             3878..4201
                     /locus_tag="DOE58_RS24745"
                     /old_locus_tag="DOE58_24730"
                     /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_001677263.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          3452..3536
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          2613..3064
                     /name="ColRNAI_rep_cluster_1857"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          4..1184
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          4192..4592
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="3.39e-80"
ORIGIN
        1 ggcagacgct ggttaatcat cattacgggc tgcgtgaccc gaacgcaccg gagaacagac
       61 ggacgcttgt cacaccgaat aatctgccaa aagcgaaaca ggaggccgca gaagcgatta
      121 cacggggtct tgaggcgctt taccgtgccg gagcaataaa aacgcgtcag gatgtcactg
      181 aggcgctcac agcggcaggt tttgaggtgg tgaggacaac cagaagcagt atcagtattg
      241 ccgacccgga gggggggcgg aatctcaggc taaagggggc gctgtatgag caatctttta
      301 caaatgggaa cggacttcga gaagaaactg aaagagcgag ccgcttctac cgagaacatg
      361 ctgaacagcg agttcaggaa gctagaagag tctgtagaca aggcactgag cttaaacagg
      421 cagaaaatca gagacgctat cagcgaacat acaacatccg tgaaacagca actggatacg
      481 ctgagcacca ccgtgagcac gcagctcagc accacagagg ccgaactgtc ccggcagcag
      541 aaaaacctgc tctggcaggt gatcaaaggg cgggtactgt ttccggcgct gaccgcgctc
      601 agcgtcacgg gcggcatttt cctggggtgc tgggggctga ttcagtggca ggaaagcagg
      661 attgcgaaaa atatcttgac catcagagag caggaaaaca cgctggcgaa actcgaggca
      721 aaaacctggg gggtgacgtt cgtcaatggc gagaacggga aatttctggt gctgccggac
      781 ggggtgaaag gggaaaacac ctggacggtg ggcgacaaga acgccgtgag gctggtcagg
      841 gagtaaacga gtatgacgga actggaaggg catttgctga acgccttaga gcatttgcaa
      901 caggactata tgcggcggct gaacgagtgg gagagcgcct tcgcagaatt gcagaagatg
      961 cacgcggtta cgcaacagaa caacgcgata ctgaacgagc gtgtcgtgaa cttgagtcag
     1021 caggtgcagc tattagccgg acaagtcgac cgcttgagtc ggttatttat cacgaacaac
     1081 agataaggga tgaacaggag cgtcaggcgc aggagcttgc ccggcgctgg catgaagagc
     1141 aggaacccga agcgcggatc tggcgtggcc cgtcaatggg gatgtgaccg gggtaccccc
     1201 tgaaatcgag ccagtttgtg gcacgcccta cccggatggc gccaatgtta atgtacgtac
     1261 attagcatta acaatatcca aacctcccca ttttgccccg ttcgacggct ggaacgtgcg
     1321 aaactgatcg tcattcagtt tcgcgcataa ctatgcatga ggttaaaatt taccaggcgc
     1381 gatcgcggca gtttttcggg tggtttgttg ctgtttttac ctgtctgctg ccgtgatcgc
     1441 gctgaacgcg tttaagcggt acgcgcaatg cgacgttatg gtaaatacgg agtattttaa
     1501 ttgcgggcct ttgttgtata tctctgtcgt ttgtccccgg ggggaagcat tactgctaac
     1561 aagtcccgtg agaaaactgc gcaatcgtat tgcgcaccat gaacctattc tcaaccgcaa
     1621 tctggaggat gattttgcta cgataaagag aattatcgcg tatcggtgtc agcattcatt
     1681 ggagtggatg ctgaaaaacc aggtgttact ccctctactt acacttaaac ctctctaaaa
     1741 atataagtaa gtactatcga gggctatcat gaactatggt gccctctgag catagctacc
     1801 cattacttct tctatgtcat tgaataattc atttcttaac tctaagtatt ctagtaactc
     1861 catttctaat gactctgtcg tgaacttaaa tctagaagga tctttgattg agtttactag
     1921 tcttgataac gctctatatg ttttgagtga aggttgcatt atagatggaa agtatttgaa
     1981 aacctcttca tctctgttga aattaactaa aaacttgtag tcatcattta taaatctcaa
     2041 gcatacagcg tcaagcttat cgccttttct tattattatt tctttatagg aaagatattt
     2101 ttcagaagat aagtcccaca tcaagcgaaa atctctcttt gcgaacgagt tcgcgtcatc
     2161 attgaaaaga gatgatgtga tggctttgga tagaccttct gtgtttatct ctttgttgga
     2221 tgggtagtaa attttattaa ttgctttcat tctctcaaat gatgaatata ggtcattatg
     2281 ccaccttgtt gaaatcactc ctttagttat attctccttg ctaaaattaa gccctgtatc
     2341 aaaaataaat gcagccatca gtgaatatga tatgtttttt attaactcag acttaaatgg
     2401 ttccgctatg gagtagtaca gtgataaaat aactaaaaat aaaaggtatt gtcttacctt
     2461 tcccgatgag tatatgtaaa ggcgatattt atttattgat agttttattt tgtatggaat
     2521 gatctcattt ctgtcatatc ctcttcgtgg tggagcaaaa caaaagaaac atgcagctat
     2581 taataaaaca aaaaagatga acagtgtaag caagttcggc tcctgtgtat gctcactatg
     2641 catgattgtc ttgagatcta acgatcctga aggtagtctt gtccgtaaac gaaaaaaccg
     2701 cccagcaagg cggcttttcg aaggttctca gagcagcaac tctttgaacc aaggtaactg
     2761 gcttggagga gcacagccac caaatctgtc ctttcagttt agccttaacc ggcgcataac
     2821 ttcaagacta actcctctaa acggttacca atggctgctg ccagtggcgt ttttacgtgt
     2881 ctttccgggt tggactcaag acgatagtta ccggataagg cgcagcggtc gggctgaacg
     2941 gggggttcgt gcacacagcc cagcttggag cgaacgacct acaccgggcc gagataccaa
     3001 cagcgtgagc tatgagaaag cgccacgctt cccgaaggga gaaaggcgga caggtatccg
     3061 gtaagcggca gggtcggaac aggagagcgc acgagggagc ttccaggggg aaacgcctgg
     3121 tatctttata gtcctgtcgg gtttcgccac ctctgacttg agcatctgtt tttgtgatgc
     3181 tcgtcagggg ggcggagcct atggaaaaac gccagcggcg cagccttctt cctgttcctg
     3241 gccttttgct cacatgtttc ttttggcgtt atcccctgat tctgtggata accgcatcac
     3301 cgtctttgag tgagctgata ccgctcgccg cagccgaacg accgagcgta gcgagtcagt
     3361 gagcgaggaa gcggaagagc gcctgatgcg gcattttctc cttacgcatc tgtgcggtat
     3421 ttcacaccgc atatggtgca cttttcttat aatccgcact gatgccacat agttaagcca
     3481 gtatacactc cgctatcgct acgtgactgg gtcagggctg cgccccgaca cccgctaaaa
     3541 cccgctgacg cgccctgacg ggcttgtctg ctcccggcat ccgctcacag gcaagctgtg
     3601 aacgtctccg ggagctgcat gtttcagttg ctttcaccgt catcgccgaa gcgtgcgagg
     3661 caactacggt agagttcgtc ggcgtggtcg tgaagtgatt cgcagatgtc tgcctgttcg
     3721 tccgcgtcca gctcgttgag tttttccagc agggtcagcg tctggcttct gataaagcgg
     3781 gccatgttaa gggctgtttt ttcctgtttg gtcatggtct taaggctcct taatagggga
     3841 ttttttaggg ggaatgatac cgatgaaacg cgagaagatg ctcacgatac gggttagcga
     3901 tgaggagcac gcccggttac tggaacgctg cgagggtaaa cgactggcag aatggatgcg
     3961 gcgggtctgt ctgggggagc cggttgcgcg cacaggaaaa ctgccgacac tatcgccgcc
     4021 attgctgcgg catctggctg ccatcgggaa caatctgaac cagacagccc ggaaggtgaa
     4081 cagcggccac tggtcttcga ttgaccgggt tcatgtggtg gccgctctga tggccatcga
     4141 gggtgaattg cgccagttgc ggcaggctgt cagggaacag gggggacggg atgatagtta
     4201 aatttcatgc cagggggaaa ggcggtggaa gtggcccggt cgattacctg ctggggcggg
     4261 agcgtaaccg cgaaggcgca acggtgctcc ggggtaaccc ggaagaaatc cgggaactca
     4321 ttgatgccac gccattttcg aagaaataca cgtcaggcgt tctgtcgttc gcggagaagg
     4381 agttaccgcc gggtgaacgc gaaagagtga tgacgagctt tgagcgtgtt cttatgcccg
     4441 gtctcgaaaa agaccagtac agcattctct gggtggaaca ccaggataag gggcggctcg
     4501 aactgaattt tgtcattccg aacatggaac tacagagcgg taagcgcctc cagccgtact
     4561 acgaccgtgc ggacaggccg aggataaatg cct
//
