LOCUS       NZ_CP051340             3373 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Worthington strain CVM
            33836 plasmid p33836-8, complete sequence.
ACCESSION   NZ_CP051340
VERSION     NZ_CP051340.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14504865
            Assembly: GCF_016452125.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Worthington
  ORGANISM  Salmonella enterica subsp. enterica serovar Worthington
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3373)
  AUTHORS   Zhao,S., Li,C., Hsu,C.H., Tyson,G.H., Strain,E., Tate,H., Tran,T.T.,
            Abbott,J. and McDermott,P.F.
  TITLE     Comparative Genomic Analysis of 450 Strains of Salmonellaenterica
            Isolated from Diseased Animals
  JOURNAL   Genes (Basel) 11 (9), 1025 (2020)
   PUBMED   32883017
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3373)
  AUTHORS   Li,C.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-APR-2020) CVM/OR, FDA-CVM, 8401 Muirkirk Rd, MOD2,
            Laurel, MD 20708, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. 4
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 420x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 14:21:41
            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)                     :: 5,413
            CDSs (total)                      :: 5,295
            Genes (coding)                    :: 5,090
            CDSs (with protein)               :: 5,090
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 205
            CDSs (without protein)            :: 205
            Pseudo Genes (ambiguous residues) :: 0 of 205
            Pseudo Genes (frameshifted)       :: 67 of 205
            Pseudo Genes (incomplete)         :: 149 of 205
            Pseudo Genes (internal stop)      :: 39 of 205
            Pseudo Genes (multiple problems)  :: 42 of 205
            Pseudo Genes (short protein)      :: 1 of 205
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP051340.1.
            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..3373
                     /organism="Salmonella enterica subsp. enterica serovar
                     Worthington"
                     /mol_type="genomic DNA"
                     /strain="CVM 33836"
                     /serovar="Worthington"
                     /isolation_source="bovine"
                     /sub_species="enterica"
                     /db_xref="taxon:1160769"
                     /plasmid="p33836-8"
                     /geo_loc_name="USA:AZ"
                     /collection_date="2004"
                     /collected_by="AZ State Veterinary Diagnostic Lab"
     gene            join(3146..3373,1..96)
                     /locus_tag="HFT59_RS26735"
                     /old_locus_tag="HFT59_26800"
     CDS             join(3146..3373,1..96)
                     /locus_tag="HFT59_RS26735"
                     /old_locus_tag="HFT59_26800"
                     /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"
     gene            305..>742
                     /locus_tag="HFT59_RS27265"
                     /pseudo=""
     CDS             305..>742
                     /locus_tag="HFT59_RS27265"
                     /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            774..1334
                     /locus_tag="HFT59_RS26745"
                     /old_locus_tag="HFT59_26810"
     CDS             774..1334
                     /locus_tag="HFT59_RS26745"
                     /old_locus_tag="HFT59_26810"
                     /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            1341..1574
                     /locus_tag="HFT59_RS26750"
                     /old_locus_tag="HFT59_26815"
     CDS             1341..1574
                     /locus_tag="HFT59_RS26750"
                     /old_locus_tag="HFT59_26815"
                     /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(2891..3082)
                     /locus_tag="HFT59_RS26755"
                     /old_locus_tag="HFT59_26820"
     CDS             complement(2891..3082)
                     /locus_tag="HFT59_RS26755"
                     /old_locus_tag="HFT59_26820"
                     /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"
     Typing          2727..2810
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.059"
                     /coverage="95.0"
                     /evalue="8.83e-18"
     Typing          87..1657
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.817"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cgggttcatg tggtggccgc actgatggcc atcgagggtg aattgcgcca gttgcggcag
       61 gctgtcaggg aacagggggt acgggatgat agttaaattt catgccaggg ggaaaggcgg
      121 tggaagtggc ccggtcgatt acctgctggg gcgggagcgt aaccgcgaag gcgcaacggt
      181 gctccggggt aacccggaag aagtgcggga actcattgat tccacgccat tctcgaagaa
      241 atacacttca ggcgttctgt cgttcgcgga gaaggagtta ccgccgggtg aacgcgaaag
      301 agtgatgacg agctttgagc gtgttcttat gcccggtctc gaaaaagacc agtacagcat
      361 tctctgggtg gaacaccagg ataaggggcg gctcgaactg aattttgtca tcccgaacat
      421 ggagctacag agcggtaagc gcctccagcc gtactacgac cgcgcggaca ggccgaggat
      481 aaatgcctgg cagacgctgg ttaatcatca ttacgggctg cgtgacccga acgcaccgga
      541 gaacagacgg acgcttgtca cgccaaataa tctgccaaaa gcgaaacagg aggccgcaga
      601 agcgattaca cggggtcttg aggctcttta ccatgccgga gcaataaaaa cgcgtcagga
      661 tgtcacagag gcgcttacag cggcaggttt tgaggtggtg aggacaacca aaagcagcat
      721 cagtattgcc gacccggagg gggggcggaa tctcaggcta aagggggcgc tgtatgagca
      781 atcttttaca aatgggaaca gacttcgaga agaaactgaa agagcgagcc gcttctaccg
      841 agaacatgct gaacagcgag ttcaggaagc tcgaagagtc tgtagacaag gcattgagct
      901 taaacaggca gaaaatcaga gacgctatca gcgaacatac aacatccgtg aaaaagcaac
      961 tggatacgct gagcaccacc gtgagcatgc agttcagcac cacagaggcc gaactgtccc
     1021 ggcagcagaa aaaactgctc tggcgggtga tcaaagggcg gatactgttt ccggcgctga
     1081 ccgcgctcag cgtcacgggc ggcattttcc tggggtgctg ggggctgatg gagtggcagg
     1141 aaagcaagat tgcgaaaaat atcctgacta tcagagagca ggaaaacacg ctggcgaaac
     1201 tcgaggcaaa aacctggggg gtgacgttcg tcaatggcga gaacgggaaa tttctggtgt
     1261 tgccggacgg ggtgaaaggg gaaaacacct ggacggtggg cgacaagaac gccgtgaggc
     1321 tggtcaggga gtaaacgagt atgacggaac tggaagggca tttgctgaac gccttagagc
     1381 atttgcaaca ggactatatg cggcggctga acgagtggga gagcgccttc gcggaattgc
     1441 agaagatgca cgaggttacg caacggaaca acgcgatact gaacgagcgc gtcgtgatat
     1501 tgagtcagca ggtgcagaga ttagccgggc aagtggatcg cttgagtcgg ttatttatcg
     1561 cgaacaacag ctaagggatg aacaggagcg tgcccggtac agacatgagg tacaggaacg
     1621 cgcggcacgg gttcggagtg ggccatcaat ggagatgtga ccggggaagt gacgaaatct
     1681 tgccattttg accagttcga cggctggggc gagcgaaaca aatcgtgtgc cgtatttgtg
     1741 catagctatg caacatcctg aaaacgcatt tcacgcgttt ttggggattc agccagggga
     1801 aaacatggtt tttttacttt ttgagcgtaa agacgtgaaa aatctcgtta ttgcacttgc
     1861 gatctttcgt cggcgggcgt agaacgaaaa cagctcgcca ggaaggcgag ctgtttcggg
     1921 ttcattgagg tctctgacct cctcaatgtt cctgtggaaa ctgttgagat ccacaacaga
     1981 aaccagttca ttcagtttgc atgagccttc tgtattcttc aagaattttt caacagcaca
     2041 gtctcccagg aaccccgaaa aaaacctgtt tttgcagata cttgcgtatt tgcgagaatc
     2101 gtttgcggtt gggggagctg tgacgacggc gaccgcacgc gtgagagttc cgctaccggc
     2161 gcagagagtt tcatcgacag cggacacctg atgagttgcc acaaaaaccg tatgtagcgc
     2221 ggctagattg gttgagttag accttggcgg cagttcccgg tatgtggtgg cgtgacgggt
     2281 gagatggtgc ggcgaagacg catacgtcac gcaggcgcgg gttcttccac tgacgcgccc
     2341 cgtgatcgat ggccttggct ccgtccggca tatcgagagc ggcaaactac ccgtcccttc
     2401 actgggaggg gtgagttgtt gccgttccct ccaacctttc accatccggc atatcgcacg
     2461 atcccatgtg caccgcaact cctgataact ccagtgcaaa aaaaaaaaaa cggatcagca
     2521 tcacaacgag agtgatccca ccgctcgccg cagccccagc gaccgaacgt agtgagcgag
     2581 tgggcgagga agcggaagag tcacagatgc aagcattgtg cacttacgcg cctgtgccag
     2641 tgtccgcgtg tgtgctgttt atcgggtgcg ctgtttttac atctgtgcgg ctttttactc
     2701 ctgacatggt gcacttccca tccattctgc accgatgcaa aatgagataa gccagtatac
     2761 acatcgctat cgctctgtga actgggtcag ggctgcgccc cgacacccgc actgacgcgc
     2821 cctggcgggc ttgtctgctc ccggcatccg ctcacaggca agctgtgaac gtctccggga
     2881 gctgcatgtt tcagttgctt tcaccgtcat cgccgaagcg tgcgaggcaa ctgcggtaga
     2941 gttcgtcggc gtggtcgtga agtgattcgc agatgtctgc ctgttcgtcc gcgtccagat
     3001 cgttgagttt ttccagcagg gttagcgtct ggcttctgat aaagcgagcc atgttaaggg
     3061 ctgttttttc ctgtttggtc atggtcttaa ggctccttgt atgggggatt tgttaggggg
     3121 aatgataccg atgaaacgcg agaagatgct cacgatacgg gttaccgatg aggagcacgc
     3181 ccggttactg gaacgctgcg agggtaaacg actggcggaa tggatgcggc gggtctgtct
     3241 gggggagccg gttgcacgca caggaaaact gccgacacta tcgccgccat tgctgcggca
     3301 tctggctgcc atcgggaaca acctgaacca gacagcccgg aaggtgaaca gcggccagtg
     3361 gtcttcgatt gac
//
