LOCUS       NZ_CP051341             5417 bp    DNA     linear   CON 26-JAN-2024
DEFINITION  Salmonella enterica subsp. enterica serovar Worthington strain CVM
            33836 plasmid p33836-5.
ACCESSION   NZ_CP051341
VERSION     NZ_CP051341.1
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 5417)
  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 5417)
  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
            CP051341.1.
            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/
FEATURES             Location/Qualifiers
     source          1..5417
                     /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="p33836-5"
                     /geo_loc_name="USA:AZ"
                     /collection_date="2004"
                     /collected_by="AZ State Veterinary Diagnostic Lab"
     gene            309..407
                     /locus_tag="HFT59_RS27270"
     CDS             309..407
                     /locus_tag="HFT59_RS27270"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /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_327265710.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRS"
                     /name="MbeB family mobilization protein"
     gene            481..867
                     /locus_tag="HFT59_RS26760"
                     /old_locus_tag="HFT59_26825"
     CDS             481..867
                     /locus_tag="HFT59_RS26760"
                     /old_locus_tag="HFT59_26825"
                     /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_327265711.1"
                     /translation="MKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALT
                     ALSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLV
                     LPDGVKGENTWTVGDKNAVRLVRE"
                     /name="hypothetical protein"
     gene            874..1107
                     /locus_tag="HFT59_RS26765"
                     /old_locus_tag="HFT59_26830"
     CDS             874..1107
                     /locus_tag="HFT59_RS26765"
                     /old_locus_tag="HFT59_26830"
                     /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_202190690.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKIHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1795..2634)
                     /locus_tag="HFT59_RS26770"
                     /old_locus_tag="HFT59_26835"
     CDS             complement(1795..2634)
                     /locus_tag="HFT59_RS26770"
                     /old_locus_tag="HFT59_26835"
                     /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(2826..2975)
                     /locus_tag="HFT59_RS27275"
     CDS             complement(2826..2975)
                     /locus_tag="HFT59_RS27275"
                     /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(3645..3836)
                     /locus_tag="HFT59_RS26775"
                     /old_locus_tag="HFT59_26850"
     CDS             complement(3645..3836)
                     /locus_tag="HFT59_RS26775"
                     /old_locus_tag="HFT59_26850"
                     /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_001677262.1"
                     /translation="MTKQEKTAINMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3899..4222
                     /locus_tag="HFT59_RS26780"
                     /old_locus_tag="HFT59_26855"
     CDS             3899..4222
                     /locus_tag="HFT59_RS26780"
                     /old_locus_tag="HFT59_26855"
                     /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"
     gene            4431..>4865
                     /locus_tag="HFT59_RS27280"
                     /pseudo=""
     CDS             4431..>4865
                     /locus_tag="HFT59_RS27280"
                     /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            4918..5094
                     /locus_tag="HFT59_RS27285"
     CDS             4918..5094
                     /locus_tag="HFT59_RS27285"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /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_327265712.1"
                     /translation="MGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNRQKIRAL
                     SANITSVKQQLDT"
                     /name="MbeB family mobilization protein"
     Typing          3473..3557
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(2904..3462)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.761"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4213..5306
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="85.095"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cgtgcggaca ggccgaggat aaatgcctgg cagacgctgg ttaatcatca ttacgggctg
       61 cgtgacccga acgcaccgag aacagacgga cgcttgtcac accgaataat ctgccaaaag
      121 cgaaacagga ggccgcagaa gcgattacac gggtcttgag gcgctttacc gtgccggagc
      181 aataaaaacg cgtcaggatg tcactgagcg ctcacagcgg caggttttga ggtggtgagg
      241 acaaccagaa gcagtatcag tattgccgac ccggaggggg gcggaatctc agctaaaggg
      301 ggcgctgtat gagcaatctt ttacaaatgg gaacggactt cgagaagaaa ctgaaagagc
      361 gagccgcttc taccgagaac atgctgaaca gcgagttcag gagctagaag agtctgtaac
      421 aaggcactga gcttaaacag gcagaaaatc agagacgcta tcagcgaaca tacaacatcc
      481 gtgaaacagc aactggatac gctgagcacc accgtgagca cgcagctcag caccacagag
      541 gccgaactgt cccggcagca gaaaaacctg ctctggcagg tgatcaaagg gcgggtactg
      601 tttccggcgc tgaccgcgct cagcgtcacg ggcggcattt tcctggggtg ctgggggctg
      661 attcagtggc aggaaagcag gattgcgaaa aatatcttga ccatcagaga gcaggaaaac
      721 acgctggcga aactcgaggc aaaaacctgg ggggtgacgt tcgtcaatgg cgagaacggg
      781 aaatttctgg tgctgccgga cggggtgaaa ggggaaaaca cctggacggt gggcgacaag
      841 aacgccgtga ggctggtcag ggagtaaacg agtatgacgg aactggaagg gcatttgctg
      901 aacgccttag agcatttgca acaggactat atgcggcggc tgaacgagtg ggagagcgcc
      961 ttcgcagaat tgcagaagat acacgcggtt acgcaacaga acaacgcgat actgaacgag
     1021 cgtgtcgtga acttgagtca gcaggtgcag ctattagccg gacaagtcga ccgcttgagt
     1081 cggttattta tcacgaacaa cagataaggg atgaacagga gcgtcaggcg caggagcttg
     1141 cccggcgctg gcatgaagag caggaacccg aagcgcggat ctggcgtggc ccgtcaatgg
     1201 ggatgtgacc ggggtacccc ctgaaatcga gccagtttgt ggcacgccct acccggatgg
     1261 cgccaatgtt aatgtacgta cattagcatt aacaatatcc aaacctcccc attttgcccc
     1321 gttcgacggc tggaacgtgc gaaactgatc gtcattcagt ttcgcgcata actatgcatg
     1381 aggttaaaat ttaccaggcg cgatcgcggc agtttttcgg gtggtttgtt gctgttttta
     1441 cctgtctgct gccgtgatcg cgctgaacgc gtttaagcgg tacgcgcaat gcgacgttat
     1501 ggtaaatacg gagtatttta attgcgggcc tttgttgtat atctctgtcg tttgtccccg
     1561 gggggaagca ttactgctaa caagtcccgt gagaaaactg cgcaatcgta ttgcgcacca
     1621 tgaacctatt ctcaaccgca atctggagga tgattttgct acgataaaga gaattatcgc
     1681 gtatcggtgt cagcattcat tggagtggat gctgaaaaac caggtgttac tccctctact
     1741 tacacttaaa cctctctaaa aatataagta agtactatcg agggctatca tgaactatgg
     1801 tgccctctga gcatagctac ccattacttc ttctatgtca ttgaataatt catttcttaa
     1861 ctctaagtat tctagtaact ccatttctaa tgactctgtc gtgaacttaa atctagaagg
     1921 atctttgatt gagtttacta gtcttgataa cgctctatat gttttgagtg aaggttgcat
     1981 tatagatgga aagtatttga aaacctcttc atctctgttg aaattaacta aaaacttgta
     2041 gtcatcattt ataaatctca agcatacagc gtcaagctta tcgccttttc ttattattat
     2101 ttctttatag gaaagatatt tttcagaaga taagtcccac atcaagcgaa aatctctctt
     2161 tgcgaacgag ttcgcgtcat cattgaaaag agatgatgtg atggctttgg atagaccttc
     2221 tgtgtttatc tctttgttgg atgggtagta aattttatta attgctttca ttctctcaaa
     2281 tgatgaatat aggtcattat gccaccttgt tgaaatcact cctttagtta tattctcctt
     2341 gctaaaatta agccctgtat caaaaataaa tgcagccatc agtgaatatg atatgttttt
     2401 tattaactca gacttaaatg gttccgctat ggagtagtac agtgataaaa taactaaaaa
     2461 taaaaggtat tgtcttacct ttcccgatga gtatatgtaa aggcgatatt tatttattga
     2521 tagttttatt ttgtatggaa tgatctcatt tctgtcatat cctcttcgtg gtggagcaaa
     2581 acaaaagaaa catgcagcta ttaataaaac aaaaaagatg aacagtgtaa gcaagttcgg
     2641 ctcctgtgta tgctcactat gcatgattgt cttgagatct aacgatcctg aaggtagtct
     2701 tgtccgtaaa cgaaaaaacc gcccagcaag gcggcttttc gaaggttctc agagcagcaa
     2761 ctctttgagc caaggtaact ggcttggagg agcacagcca ccaaatctgt ccttttagtt
     2821 tagccttaac cggcgcataa cttcaagact aactcctcta aacggttacc aatggctgct
     2881 gccagtggcg tttttacgtg tctttccggg ttggactcaa gacgatagtt accggataag
     2941 gcgcagcggt cgggctgaac ggggggttcg tgcacacagc ccagcttgga gcgaacgacc
     3001 tacaccgggc cgagatacca acagcgtgag ctatgagaaa gcgccacgct tcccgaaggg
     3061 agaaaggcgg acaggtatcc ggtaagcggc agggtcggaa caggagagcg cacgagggag
     3121 cttccagggg gaaacgcctg gtatctttat agtcctgtcg ggtttcgcca cctctgactt
     3181 gagcatctgt ttttgtgatg ctcgtcaggg gggcggagcc tatggaaaaa cgccagcggc
     3241 gcggccttct tcctgttcct ggccttttgc tcacatgttt cttttggcgt tatcccctga
     3301 ttctgtggat aaccgcatca ccgtctttga gtgagctgat accgctcgcc gcagccgaac
     3361 gaccgagcgt agcgagtcag tgagcgagga agcggaagag cgcctgatgc ggcattttct
     3421 ccttacgcat ctgtgcggta tttcacaccg catatggtgc acttttctta taatccgcac
     3481 tgatgccaca tagttaagcc agtatacact ccgctatcgc tacgtgactg ggtcagggct
     3541 gcgccccgac acccgctaaa acccgctgac gcgccctgac gggcttgtct gctcccggca
     3601 tccgctcaca ggcaagctgt gaacgtctcc gggagctgca tgtttcagtt gctttcaccg
     3661 tcatcgccga agcgtgcgag gcaactacgg tagagttcgt cggcgtggtc gtgaagtgat
     3721 tcgcagatgt ctgcctgttc gtccgcgtcc agctcgttga gtttttccag cagggtcagc
     3781 gtctggcttc tgataaagcg ggccatgtta atggctgttt tttcctgttt ggtcatggtc
     3841 ttaaggctcc ttaatagggg attttttagg gggaatgata ccgatgaaac gcgagaagat
     3901 gctcacgata cgggttagcg atgaggagca cgcccggtta ctggaacgct gcgagggtaa
     3961 acgactggca gaatggatgc ggcgggtctg tctgggggag ccggttgcgc gcacaggaaa
     4021 actgccgaca ctatcgccgc cattgctgcg gcatctggct gccatcggga acaatctgaa
     4081 ccagacagcc cggaaggtga acagcggcca ctggtcttcg attgaccggg ttcatgtggt
     4141 ggccgctctg atggccatcg agggtgaatt gcgccagttg cggcaggctg tcagggaaca
     4201 ggggggacgg gatgatagtt aaatttcatg ccagggggaa aggcggtgga agtggcccgg
     4261 tcgattacct gctggggcgg gagcgtaacc gcgaaggcgc aacggtgctc cggggtaacc
     4321 cggaagaaat ccgggaactc attgatgcca cgccattttc gaagaaatac acgtcaggcg
     4381 ttctgtcgtt cgcggagaag gagttaccgc cgggtgaacg cgaaagagtg atgacgagct
     4441 ttgagcgtgt tcttatgccc ggtctcgaaa aagaccagta cagcattctc tgggtggaac
     4501 accaggataa ggggcggctc gaactgaatt ttgtcattcc gaacatggaa ctacagagcg
     4561 gtaagcgcct ccagccgtac tacgaccgtg cggacaggcc gaggataaat gcctggcaga
     4621 cgctggttaa tcatcattac gggctgcgtg acccgaacgc accggagaac agacggacgc
     4681 ttgtcacacc gaataatctg ccaaaagcga aacaggaggc cgcagaagcg attacacggg
     4741 gtcttgaggc gctttaccgt gccggagcaa taaaaacgcg tcaggatgtc actgaggcgc
     4801 tcacagcggc aggttttgag gtggtgagga caaccagaag cagtatcagt attgccgacc
     4861 cggagggggg gcggaatctc aggctaaagg gggcgctgta tgagcaatct tttacaaatg
     4921 ggaacggact tcgagaagaa actgaaagag cgagccgctt ctaccgagaa catgctgaac
     4981 agcgagttca ggaagctaga agagtctgta gacaaggcac tgagcttaaa caggcagaaa
     5041 atcagagcgc tatcagcgaa cataacatcc gtgaaacagc aactggatac ctgagcacca
     5101 ccgtgagcac gcagctcagc acacagaggc cgaactgtcc cggcgcagaa aaacctgctc
     5161 tggcaggtga tcaaaggcgg gtactgtttc cggcgctgac cgcgctcagc gtcacgggcg
     5221 gcatttcctg gggtgctggg gctgattcag tgcagaaagc aggattgcga aaaatatctg
     5281 accatcagag aggaaacacg ctggcgaaac tcgaggcaaa aacctggggg tgacgttcgt
     5341 caatggcgag aacgggaaat ttctggtgct gccggacggg gtgaaagggg aaaacacctg
     5401 gacggtgggc gacaaag
//
