LOCUS       NZ_CP104364             4633 bp    DNA     circular CON 02-OCT-2023
DEFINITION  Salmonella enterica strain PNUSAS118606 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP104364
VERSION     NZ_CP104364.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13354305
            Assembly: GCF_025259185.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4633)
  AUTHORS   Young,E.L., Hergert,J., Casey,R. and Oakeson,K.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-SEP-2022) Utah Public Health Laboratory, Utah Public
            Health Laboratory Infectious Disease submission group, 4431 S 2700
            W, Salt Lake City, UT 84129, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 64.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/02/2023 03:21:55
            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)                     :: 4,648
            CDSs (total)                      :: 4,527
            Genes (coding)                    :: 4,348
            CDSs (with protein)               :: 4,348
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 179
            CDSs (without protein)            :: 179
            Pseudo Genes (ambiguous residues) :: 0 of 179
            Pseudo Genes (frameshifted)       :: 76 of 179
            Pseudo Genes (incomplete)         :: 117 of 179
            Pseudo Genes (internal stop)      :: 38 of 179
            Pseudo Genes (multiple problems)  :: 46 of 179
            Pseudo Genes (short protein)      :: 1 of 179
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP104364.1.
            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..4633
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="PNUSAS118606"
                     /db_xref="taxon:28901"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA"
                     /collected_by="CDC"
     gene            18..209
                     /locus_tag="N4276_RS23155"
                     /old_locus_tag="N4276_23155"
     CDS             18..209
                     /locus_tag="N4276_RS23155"
                     /old_locus_tag="N4276_23155"
                     /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            879..1028
                     /locus_tag="N4276_RS23280"
     CDS             879..1028
                     /locus_tag="N4276_RS23280"
                     /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            1220..2059
                     /locus_tag="N4276_RS23160"
                     /old_locus_tag="N4276_23160"
     CDS             1220..2059
                     /locus_tag="N4276_RS23160"
                     /old_locus_tag="N4276_23160"
                     /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(2787..3020)
                     /locus_tag="N4276_RS23165"
                     /old_locus_tag="N4276_23165"
     CDS             complement(2787..3020)
                     /locus_tag="N4276_RS23165"
                     /old_locus_tag="N4276_23165"
                     /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(3027..3587)
                     /locus_tag="N4276_RS23170"
                     /old_locus_tag="N4276_23170"
     CDS             complement(3027..3587)
                     /locus_tag="N4276_RS23170"
                     /old_locus_tag="N4276_23170"
                     /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_000067488.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(<3616..4275)
                     /locus_tag="N4276_RS23175"
                     /old_locus_tag="N4276_23175"
                     /pseudo=""
     CDS             complement(<3616..4275)
                     /locus_tag="N4276_RS23175"
                     /old_locus_tag="N4276_23175"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /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(4265..4588)
                     /locus_tag="N4276_RS23180"
                     /old_locus_tag="N4276_23180"
     CDS             complement(4265..4588)
                     /locus_tag="N4276_RS23180"
                     /old_locus_tag="N4276_23180"
                     /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          complement(298..382)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          393..948
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.907"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(2690..4275)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.811"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taaggagcct taagaccatg accaaacagg aaaaaacagc ccttaacatg gcccgcttta
       61 tcagaagcca gacgctgacc ctgctggaaa aactcaacga gctggacgcg gacgaacagg
      121 cagacatctg cgaatcactt cacgaccacg ccgacgaact ctaccgtagt tgcctcgcac
      181 gcttcggcga tgacggtgaa agcaactgaa acatgcagct cccggagacg ttcacagctt
      241 gcctgtgagc ggatgccggg agcagacaag cccgtcaggg cgcgtcagcg ggttttagcg
      301 ggtgtcgggg cgcagccctg acccagtcac gtagcgatag cggagtgtat actggcttaa
      361 ctatgtggca tcagtgcgga ttataagaaa agtgcaccat atgcggtgtg aaataccgca
      421 cagatgcgta aggagaaaat gccgcatcag gcgctcttcc gcttcctcgc tcactgactc
      481 gctacgctcg gtcgttcggc tgcggcgagc ggtatcagct cactcaaaga cggtgatgcg
      541 gttatccaca gaatcagggg ataacgccaa aagaaacatg tgagcaaaag gccaagaaca
      601 ggaagaaggc cgcgccgctg gcgtttttcc ataggctccg cccccctgac gagcatcaca
      661 aaaacagacg ctcaagtcag aggtggcgaa acccgacagg actataaaga taccaggcgt
      721 ttccccctgg aagctccctc gtgcgctctc ctgttccgac cctgccgctt accggatacc
      781 tgtccgcctt tctcccttcg ggaagcgtgg cgctttctca tagctcacgc tgttggtatc
      841 tcggcccggt gtaggtcgtt cgctccaagc tgggctgtgt gcacgaaccc cccgttcagc
      901 ccgaccgctg cgccttatcc ggtaactatc gtcttgagtc caacccggaa agacacgtaa
      961 aaacgccact ggcagcagcc attggtaacc gtttagagga gttagtcttg aagttatgcg
     1021 ccggttaagg ctaaactgaa aggacagatt tggtggctgt gctcctccaa gccagttacc
     1081 ttggttcaaa gagttgctgc tctgagaacc ttcgaaaagc cgccttgctg ggcggttttt
     1141 tcgtttacgg acaagactac cttcaggatc gttagatctc aagacaatca tgcatagtga
     1201 gcatacacag gagccgaact tgcttacact gttcatcttt tttgttttat taatagctgc
     1261 atgtttcttt tgttttgctc caccacgaag aggatatgac agaaatgaga tcattccata
     1321 caaaataaaa ctatcaataa ataaatatcg cctttacata tactcatcgg gaaaggtaag
     1381 acaatacctt ttatttttag ttattttatc actgtactac tccatagcgg aaccatttaa
     1441 gtctgagtta ataaaaaaca tatcatattc actgatggct gcatttattt ttgatacagg
     1501 gcttaatttt agcaaggaga atataactaa aggggtgatt tcaacaaggt ggcataatga
     1561 cctatattca tcatttgaga gaatgaaagc aattaataaa atttactacc catccaacaa
     1621 agagataaac acagaaggtc tatccaaagc catcacatca tctcttttca atgatgacgc
     1681 gaactcgttc gcaaagagag attttcgctt gatgtgggac ttatcttctg aaaaatatct
     1741 ttcctataaa gaaataataa taagaaaagg cgataagctt gacgctgtat gcttgagatt
     1801 tataaatgat gactacaagt ttttagttaa tttcaacaga gatgaagagg ttttcaaata
     1861 ctttccatct ataatgcaac cttcactcaa aacatataga gcgttatcaa gactagtaaa
     1921 ctcaatcaaa gatccttcta gatttaagtt cacgacagag tcattagaaa tggagttact
     1981 agaatactta gagttaagaa atgaattatt caatgacata gaagaagtaa tgggtagcta
     2041 tgctcagagg gcaccatagt tcatgatagc cctcgatagt acttacttat atttttagag
     2101 aggtttaagt gtaagtagag ggagtaacac ctggtttttc agcatccact ccaatgaatg
     2161 ctgacaccga tacgcgataa ttctctttat cgtagcaaaa tcatcctcca gattgcggtt
     2221 gagaataggt tcatggtgcg caatacgatt gcgcagtttt ctcacgggac ttgttagcag
     2281 taatgcttcc ccccggggac aaacgacaga gatatacaac aaaggcccgc tgtatagagt
     2341 acagcgggcc tttgttgttt taattcccgc aattaaaata ctccgtattt accataacgt
     2401 cgcattgcgc gtaccgctta aacgcgttca gcgcgatcac ggcagcagac aggtaaaaac
     2461 agcaacaaac cacccgaaaa actgccgcga tcgcgcctgg taaattttaa cctcatgcat
     2521 agttatgcgc gaaactgaat gacgatcagt ttcgcacgtt ccagccgtcg aacggggcaa
     2581 aatggggagg tttggatatt gttaatgcta atgtacgtac attaacattg gcgccatccg
     2641 ggtagggcgt gccacaaact ggctcgattt cagggggcac cccggtcaca tccccattga
     2701 cgggccacgc cagatccgcg cttcgggttc ctgctcttca tgccagcgcc gggcaagctc
     2761 ctgcgcctga cgctcctgtt catcccttat ctgttgttcg tgataaataa ccgactcaag
     2821 cggtcgactt gtccggctaa tagctgcacc tgctgactca agttcacgac acgctcgttc
     2881 agtatcgcgt tgttctgttg cgtaaccgcg tgcatcttct gcaattctgc gaaggcgctc
     2941 tcccactcgt tcagccgccg catatagtcc tgttgcaaat gctctaaggc gttcagcaaa
     3001 tgcccttcca gttccgtcat actcgtttac tccctgacca gcctcacggc gttcttgtcg
     3061 cccaccgtcc aggtgttttc ccctttcacc ccgtccggca gcaccagaaa tttcccgttc
     3121 tcgccattga cgaacgtcac cccccaggtt tttgcctcga gtttcgccag cgtgttttcc
     3181 tgctctctga tggtcaagat atttttcgca atcctgcttt cctgccactg aatcagcccc
     3241 cagcacccca ggaaaatgcc gcccgtgacg ctgagcgcgg tcagcgccgg aaacagtacc
     3301 cgccctttga tcacctgcca gagcaggttt ttctgctgcc gggacagttc ggcctctgtg
     3361 gtgctgagct gcgtgctcac ggtggtgctc agcgtatcca gttgctgttt cacggatgtt
     3421 gtatgttcgc tgatagcgtc tctgattttc tgcctgttta agctcagtgc cttgtctaca
     3481 gactcttcta gcttcctgaa ctcgctgttc agcatgttct cggtagaagc ggctcgctct
     3541 ttcagtttct tctcgaagtc tgttcccatt tgtaaaagat tgctcataca gcgccccctt
     3601 tagcctgaga ttccgccccc cctccgggtc ggcaatactg atactgcttc tggttgtcct
     3661 caccacctca aaacctgccg ctgtgagcgc ctcagtgaca tcctgacgcg tttttattgc
     3721 tccggcacgg taaagcgcct caagaccccg tgtaatcgct tctgcggcct cctgtttcgc
     3781 ttttggcaga ttattcggtg tgacaagcgt ccgtctgttc tccggtgcgt tcgggtcacg
     3841 cagcccgtaa tgatgattaa ccagcgtctg ccaggcattt atcctcggcc tgtccgcacg
     3901 gtcgtagtac ggctggaggc gcttaccgct ctgtagttcc atgttcggaa tgacaaaatt
     3961 cagttcgagc cgccccttat cctggtgttc cacccagaga atgctgtact ggtctttttc
     4021 gagaccgggc ataagaacac gctcaaagct cgtcatcact ctttcgcgtt cacccggcgg
     4081 taactccttc tccgcgaacg acagaacgcc tgacgtgtat ttcttcgaaa atggcgtggc
     4141 atcaatgagt tcccggattt cttccgggtt accccggagc accgttgcgc cttcgcggtt
     4201 acgctcccgc cccagcaggt aatcgaccgg gccacttcca ccgcctttcc ccctggcatg
     4261 aaatttaact atcatcccgt cccccctgtt ccctgacagc ctgccgcaac tggcgcaatt
     4321 caccctcgat ggccatcagt gcggccacca catgaacccg gtcaatcgaa gaccagtggc
     4381 cgctgttcac cttccgggct gtctggttca gattgttccc gatggcagcc agatgccgca
     4441 gcaatggcgg cgatagtgtc ggcagttttc ctgtgcgcgc aaccggctcc cccagacaga
     4501 cccgccgcat ccattctgcc agtcgtttac cctcgcagcg ttccagtaac cgggcgtgct
     4561 cctcatcgct aacccgtatc gtgagcatct tctcgcgttt catcggtatc attcccccta
     4621 aaaaatcccc tat
//
