LOCUS       NZ_CP051339             4251 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Worthington strain CVM
            33836 plasmid p33836-6, complete sequence.
ACCESSION   NZ_CP051339
VERSION     NZ_CP051339.1
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 4251)
  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 4251)
  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
            CP051339.1.
            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..4251
                     /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="p33836-6"
                     /geo_loc_name="USA:AZ"
                     /collection_date="2004"
                     /collected_by="AZ State Veterinary Diagnostic Lab"
     gene            complement(join(3196..4251,1..459))
                     /locus_tag="HFT59_RS27255"
     CDS             complement(join(3196..4251,1..459))
                     /locus_tag="HFT59_RS27255"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_114139735.1"
                     /translation="MIVKFHPRGRGGGAGPVDYLLGKDRQRDGASVLQGKPEEVRELID
                     ASPYAKKYTSGVLSFAEQDLPPGQREKLMASFERVLMPGLDKDQYSVLWVEHQDKGRLE
                     LNFLIPNTELLTGKRLQPYYDRADRPRIDAWQTIVNGRLGLHDPNAPENRRALVTPSAL
                     PEAKQEAAQVITRGLLALASAGELKTRQDVTEALENAGFEVVRTTKSSISIADPDGGRN
                     IRLRGAIYEQSFNAGEGLRAEIESAAADYRRDAESRIQRAREVCQSGTERKREENQRRH
                     PRPRPEAVLSHEPAHERDAADGQPDVADHRPGLRAADSLERGHSVVAGAADARQLHEHP
                     GAEGRAGEAERADVGREVSGRQPGAFSGAAGRRESGHELDVRQRQEERHQTGAGVEQHD
                     GAGKTVAERIRAATAGLLEKAGRVGERLRGMADDVWAYATGERGAERARHGLEQAGAEF
                     ERAAAPVVERLNAVELHQQQERAAQHQKALELERSQRQRTYNGPSL"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(449..772)
                     /locus_tag="HFT59_RS26710"
                     /old_locus_tag="HFT59_26765"
     CDS             complement(449..772)
                     /locus_tag="HFT59_RS26710"
                     /old_locus_tag="HFT59_26765"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_179133778.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRQAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1414..1527
                     /locus_tag="HFT59_RS27260"
                     /old_locus_tag="HFT59_26775"
     CDS             1414..1527
                     /locus_tag="HFT59_RS27260"
                     /old_locus_tag="HFT59_26775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_059446996.1"
                     /translation="MHEPPVQSDRCALSGNYHLESNPERHDKAPLAAATGN"
                     /name="hypothetical protein"
     gene            1842..2429
                     /locus_tag="HFT59_RS26715"
                     /old_locus_tag="HFT59_26780"
     CDS             1842..2429
                     /locus_tag="HFT59_RS26715"
                     /old_locus_tag="HFT59_26780"
                     /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="hypothetical protein"
                     /protein_id="WP_059337246.1"
                     /translation="MIRKIFFASAIVVAISGCTAMDKLAGMGVVSQQTSTFDNSTVIEV
                     SPNSLYDPNSTWGTPLQLGAIWSSAYPDEAGLILSYNSNVSSGNAAYLGLTGIDINVDG
                     KISSYKAQQQTNLSSSSYNSVSKTIYTSSKNTIVIPYKLLESMVSAKNCRIRIHTSQGN
                     QDIDFSAQSIPGGKATAIVSIKEFLAKVERFK"
                     /name="hypothetical protein"
     gene            2439..2936
                     /locus_tag="HFT59_RS26720"
                     /old_locus_tag="HFT59_26785"
     CDS             2439..2936
                     /locus_tag="HFT59_RS26720"
                     /old_locus_tag="HFT59_26785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019842774.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_084567316.1"
                     /translation="MKKQILALALLSLPLIGMAKDSGYGNTEWGMTPNQVVAAQKGKAH
                     LIPPQKYKDQWGKVSIEDVNIGSGIYTVTFIFDASDKLVQTNVASKEKKNEGIANDQFN
                     LLNQLLTQKYGKPQFVSDEKATWKTDATTIELNKMIISGIMAQTLVRYIPNKTVISDTS
                     NL"
                     /name="hypothetical protein"
     Typing          complement(882..1060)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.011"
                     /coverage="83.0"
                     /evalue="3.460000000000001e-56"
     Typing          1036..1527
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.182"
                     /coverage="94.0"
                     /evalue="0.0"
     Typing          complement(2..459)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.346"
                     /coverage="100.0"
                     /evalue="2.8e-95"
     Typing          complement(3944..4251)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.204"
                     /coverage="94.0"
                     /evalue="1.02e-52"
ORIGIN
        1 gttctccggc gcgttcgggt cgtgcagccc cagcctgccg ttcactatgg tctgccaggc
       61 gtcgatgcgc ggacggtcgg cgcgatcgta atacggctgg agccgtttgc cggtcagcag
      121 ctccgtgttc gggatgagga agttcagctc cagccgccct ttgtcctggt gctcaaccca
      181 cagcacgctg tactgatctt tgtcgagccc gggcatcaga acccgctcga agctcgccat
      241 cagcttttca cgctggccgg gcggcaaatc ctgttccgca aaggacagca cgccggaggt
      301 gtactttttg gcgtagggcg aggcgtcaat aagctcccgg acttcctccg gcttcccctg
      361 cagaacgctg gcgccgtcgc gctgccggtc tttacccagc agataatcca ccggaccggc
      421 gccgccgccg cgccctctgg gatgaaactt aacgatcatc gtctgccccc ttttccagca
      481 ctgcctggcg aagccgttcg agtccggcat cgatggccat cagcgcggcg accacctgca
      541 cgcggtcgtg cccgctgccg ccaccggcgt taacctgcct ggcaatctga ttgaggttgt
      601 tacccatgcc ggcaagctgc cgaagcagcg ccggcgagat cgagggaagt ttgccggcgc
      661 gagccggctt ttcgtccaga cacgtctgcc gcatccaggc tgcgagctgc ttaccgtcgc
      721 agcgctccag cagacgccgg tgctcgtctt ccgttaccca catcgtgagc attttgctgc
      781 gtttgtctgc caatctgtcc tcctgataac gccgggacgg gcgggaaatt ttttcccgaa
      841 cggcgtggtg ttggacaagc cgcaggcgcg tcagtggctt ttagcgggtt tcggggcgca
      901 gccctgaacc agtcacgtag cgctagcgga gtgtatactg gctgaatatg ttagatcgga
      961 gtggtaattc agggaagtta ttcatgttgc aagggaaaat gcggctatag ggcgtaagtg
     1021 caaaatgcag gtaacggtga catgacgcct cctcgctcac tcggtcgcta cgctcctgcc
     1081 gtgaggctgc ggcgggcgtt acctgctcac gaatgacaag ataaagagat ggcactcaag
     1141 tcaggaaagg ccggaaaaag gatacggcgc tgccgttttt ccataggctc cgcccccctg
     1201 acaagcatca cgaaatctga cgctcaaatc agtggcggcg aaacccgaca ggactataaa
     1261 gatcccaggc gtttccccct ggtagctccc tcgtgcgctc tcctgttcct gcctttcggt
     1321 ttaccggtgt cattccgctg ttatggccgc gtttatctca ttccacgcct gacactcagt
     1381 tccgggtagg cagttcgctc caagctggac tgtatgcacg aaccccccgt tcagtccgac
     1441 cgctgcgcct tgtccggtaa ctatcatctt gagtccaacc cggaaagaca cgacaaagcg
     1501 ccactggcag cagccactgg taactgattt agaggagtta gtcttgaagt tatgcgccgg
     1561 ttaaggctaa actgaaagga caagttttgg tgactgcgct cctccaagcc agttacctcg
     1621 gttcaaagag ttggtagctc tgagaacctt cgaaaaaccg ccttgcaggg cggttttttc
     1681 gtttcgtggt caagagatta cgactctcgc ttaaggatct caagaagatc tgcccgcatc
     1741 ctttcaaaat ccttttaaaa aagaatatcg tgtgcaaaat ggtttcggga atacgatgtt
     1801 tttttcagtc tctgttaaaa agaaaaaaat aggataacga aatgataagg aagatttttt
     1861 ttgcttctgc gatcgtagta gcgatctctg gctgtacagc aatggataaa ttggcgggaa
     1921 tgggtgttgt ttctcagcaa acatcaacct ttgataactc gactgtcata gaggtatctc
     1981 caaattcgct atacgatcct aacagcactt ggggaacacc acttcagttg ggcgcgatat
     2041 ggtctagtgc ctatccagat gaggctggac taatcctttc ctacaactcg aatgtatcta
     2101 gcggaaatgc cgcatactta ggtttgacgg ggattgatat aaatgttgat ggtaaaatat
     2161 ccagctataa agcacagcaa caaactaatc taagcagcag ctcatataac tccgtatcca
     2221 agacgatcta tacctctagc aagaatacta tcgttatccc gtataaattg ctggagagca
     2281 tggtatcagc taaaaactgc cgcattcgca tacacacaag ccaaggaaat caagacatcg
     2341 acttctcagc acaaagtatc cccggaggta aagcgacagc gatcgtttcc attaaagagt
     2401 tcctggccaa agtcgaacgt tttaaataag gaggcgtcat gaagaagcag attcttgcac
     2461 tcgctttgct atcactgcca ctgattggca tggcaaagga ctctggttat ggcaataccg
     2521 aatggggtat gaccccaaat caggtcgttg cagcccagaa aggaaaagct catttaatcc
     2581 cccctcaaaa gtataaagac caatggggaa aagtgagcat tgaagacgtg aatataggta
     2641 gtggaatata tacagttacg tttatttttg acgcatcaga taaattagtc caaaccaacg
     2701 ttgccagcaa agaaaagaaa aacgagggaa tagcgaacga ccaatttaac ttattaaatc
     2761 aattacttac acagaagtac ggcaaaccac agtttgtaag tgatgaaaaa gcaacatgga
     2821 aaactgatgc tacaacaatt gagctaaata agatgatcat ctccggaatt atggctcaaa
     2881 cactagttcg ctacattcct aataagaccg tgatttctga cacgtctaac ctgtaataat
     2941 tgtagcctca ctgagtgtct ctctcctgtt tctatatctg aggtgggaga ttgaacataa
     3001 catctcttgc ccgcaccgct ccgggcaggt tcggcgtgaa tacggtgcct gcttggtaaa
     3061 acccgcagca aagcgcccgg taaaccgccc cgtttgcgtc cggtaaattt ccccggactg
     3121 catagccatg cagccgggtg aatggctcag gttttcagcg cagatacccg ccgaaagccc
     3181 cgttttatcc ggttatcaca gcgacgggcc gttatacgtc cgctgccgct gcgatcgctc
     3241 cagctccagc gctttctgat gctgcgccgc gcgctcctgc tgctgatgca gctcgacggc
     3301 attcagccgt tcgacaaccg gcgcagctgc tcgctcaaac tctgcacctg cctgctcaag
     3361 cccgtgacgc gctcgctcag cgccgcgttc tcccgttgca taagcccaga catcgtccgc
     3421 cattccgcga aggcgttctc ccactcgtcc agccttttcg agtagtcctg ctgtagctgc
     3481 tctaatgcgc tcagcaactg tttttccagc tccgtcatgc tgctctactc ctgcaccagt
     3541 ctgatgccgt tcttcctgcc gttgtcgaac gtccagttcg tgtccgcttt cacgccttcc
     3601 ggcagcacca gaaaacgccc ctggttgtct tcctgatacc tcacgcccca cgtccgcgcg
     3661 ttcagcttct ccagcgcgtc cttctgctcc cggatgctcg tgtaattgtc gagcatctgc
     3721 tgcccctgcc accacagaat gcccgcgctc gaggctatca gcagcgcgga gaccaggacg
     3781 atggtcagcc acgtctggct gaccatccgc agcatccctt tcgtgcgctg gctcatggct
     3841 gaggacagct tccggtcgtg gtctaggatg gcggcgctga ttctcttctc gctttcgttc
     3901 agttccgctc tgacagactt ctcgtgctcg ctgaatgcgg ctttcagcat ctcgccggta
     3961 gtctgctgct gcgctttcga tttctgctct aagtccttcg ccagcgttaa aagactgttc
     4021 atagatggct cccctgagtc ggatgtttcg ccccccgtcc gggtcggcaa tgctgatgct
     4081 gcttttcgtg gtgcgcacca cctcgaaacc tgcgttttcc agcgcctcgg tgacgtcctg
     4141 gcgcgttttc agctccccgg ctgaggcaag ggcaagcagg ccgcgcgtaa tcacctgggc
     4201 ggcttcctgc ttcgcttccg gcagcgcgga cggcgtgacc agcgcccgcc g
//
