LOCUS       NZ_CP124524             4633 bp    DNA     circular CON 05-JUN-2024
DEFINITION  Salmonella enterica strain PNUSAS118467 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP124524
VERSION     NZ_CP124524.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34404588
            Assembly: GCF_029953555.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4633)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Pathogen: clinical or host-associated sample
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4633)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-APR-2023) 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                   :: 20.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029953555.1-RS_2024_06_05
            Annotation Date                   :: 06/05/2024 04:43:14
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,648
            CDSs (total)                      :: 4,527
            Genes (coding)                    :: 4,354
            CDSs (with protein)               :: 4,354
            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)              :: 173
            CDSs (without protein)            :: 173
            Pseudo Genes (ambiguous residues) :: 0 of 173
            Pseudo Genes (frameshifted)       :: 74 of 173
            Pseudo Genes (incomplete)         :: 114 of 173
            Pseudo Genes (internal stop)      :: 37 of 173
            Pseudo Genes (multiple problems)  :: 45 of 173
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124524.1.
            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="PNUSAS118467"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA"
                     /collection_date="2019"
     gene            join(4249..4633,1..455)
                     /locus_tag="QJS74_RS23155"
                     /old_locus_tag="QJS74_23155"
     CDS             join(4249..4633,1..455)
                     /locus_tag="QJS74_RS23155"
                     /old_locus_tag="QJS74_23155"
                     /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(1183..1416)
                     /locus_tag="QJS74_RS23160"
                     /old_locus_tag="QJS74_23160"
     CDS             complement(1183..1416)
                     /locus_tag="QJS74_RS23160"
                     /old_locus_tag="QJS74_23160"
                     /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(1423..1983)
                     /locus_tag="QJS74_RS23165"
                     /old_locus_tag="QJS74_23165"
     CDS             complement(1423..1983)
                     /locus_tag="QJS74_RS23165"
                     /old_locus_tag="QJS74_23165"
                     /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(<2015..2671)
                     /locus_tag="QJS74_RS23170"
                     /old_locus_tag="QJS74_23170"
                     /pseudo=""
     CDS             complement(<2015..2671)
                     /locus_tag="QJS74_RS23170"
                     /old_locus_tag="QJS74_23170"
                     /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            complement(2661..2984)
                     /locus_tag="QJS74_RS23175"
                     /old_locus_tag="QJS74_23175"
     CDS             complement(2661..2984)
                     /locus_tag="QJS74_RS23175"
                     /old_locus_tag="QJS74_23175"
                     /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            3047..3238
                     /locus_tag="QJS74_RS23180"
                     /old_locus_tag="QJS74_23180"
     CDS             3047..3238
                     /locus_tag="QJS74_RS23180"
                     /old_locus_tag="QJS74_23180"
                     /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            3908..4057
                     /locus_tag="QJS74_RS23295"
     CDS             3908..4057
                     /locus_tag="QJS74_RS23295"
                     /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"
     Typing          complement(3327..3411)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          3422..3977
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.907"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1086..2671)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.811"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 actacccatc caacaaagag ataaacacag aaggtctatc caaagccatc acatcatctc
       61 ttttcaatga tgacgcgaac tcgttcgcaa agagagattt tcgcttgatg tgggacttat
      121 cttctgaaaa atatctttcc tataaagaaa taataataag aaaaggcgat aagcttgacg
      181 ctgtatgctt gagatttata aatgatgact acaagttttt agttaatttc aacagagatg
      241 aagaggtttt caaatacttt ccatctataa tgcaaccttc actcaaaaca tatagagcgt
      301 tatcaagact agtaaactca atcaaagatc cttctagatt taagttcacg acagagtcat
      361 tagaaatgga gttactagaa tacttagagt taagaaatga attattcaat gacatagaag
      421 aagtaatggg tagctatgct cagagggcac catagttcat gatagccctc gatagtactt
      481 acttatattt ttagagaggt ttaagtgtaa gtagagggag taacacctgg tttttcagca
      541 tccactccaa tgaatgctga caccgatacg cgataattct ctttatcgta gcaaaatcat
      601 cctccagatt gcggttgaga ataggttcat ggtgcgcaat acgattgcgc agttttctca
      661 cgggacttgt tagcagtaat gcttcccccc ggggacaaac gacagagata tacaacaaag
      721 gcccgctgta tagagtacag cgggcctttg ttgttttaat tcccgcaatt aaaatactcc
      781 gtatttacca taacgtcgca ttgcgcgtac cgcttaaacg cgttcagcgc gatcacggca
      841 gcagacaggt aaaaacagca acaaaccacc cgaaaaactg ccgcgatcgc gcctggtaaa
      901 ttttaacctc atgcatagtt atgcgcgaaa ctgaatgacg atcagtttcg cacgttccag
      961 ccgtcgaacg gggcaaaatg gggaggtttg gatattgtta atgctaatgt acgtacatta
     1021 acattggcgc catccgggta gggcgtgcca caaactggct cgatttcagg gggcaccccg
     1081 gtcacatccc cattgacggg ccacgccaga tccgcgcttc gggttcctgc tcttcatgcc
     1141 agcgccgggc aagctcctgc gcctgacgct cctgttcatc ccttatctgt tgttcgtgat
     1201 aaataaccga ctcaagcggt cgacttgtcc ggctaatagc tgcacctgct gactcaagtt
     1261 cacgacacgc tcgttcagta tcgcgttgtt ctgttgcgta accgcgtgca tcttctgcaa
     1321 ttctgcgaag gcgctctccc actcgttcag ccgccgcata tagtcctgtt gcaaatgctc
     1381 taaggcgttc agcaaatgcc cttccagttc cgtcatactc gtttactccc tgaccagcct
     1441 cacggcgttc ttgtcgccca ccgtccaggt gttttcccct ttcaccccgt ccggcagcac
     1501 cagaaatttc ccgttctcgc cattgacgaa cgtcaccccc caggtttttg cctcgagttt
     1561 cgccagcgtg ttttcctgct ctctgatggt caagatattt ttcgcaatcc tgctttcctg
     1621 ccactgaatc agcccccagc accccaggaa aatgccgccc gtgacgctga gcgcggtcag
     1681 cgccggaaac agtacccgcc ctttgatcac ctgccagagc aggtttttct gctgccggga
     1741 cagttcggcc tctgtggtgc tgagctgcgt gctcacggtg gtgctcagcg tatccagttg
     1801 ctgtttcacg gatgttgtat gttcgctgat agcgtctctg attttctgcc tgtttaagct
     1861 cagtgccttg tctacagact cttctagctt cctgaactcg ctgttcagca tgttctcggt
     1921 agaagcggct cgctctttca gtttcttctc gaagtctgtt cccatttgta aaagattgct
     1981 catacagcgc cccctttagc ctgagattcc gccccccctc cgggtcggca atactgatac
     2041 tgcttctggt tgtcctcacc acctcaaaac ctgccgctgt gagcgcctca gtgacatcct
     2101 gacgcgtttt tattgctccg gcacggtaaa gcgcctcaag accccgtgta atcgcttctg
     2161 cggcctcctg tttcgctttt ggcagattat tcggtgtgac aagcgtccgt ctgttctccg
     2221 gtgcgttcgg gtcacgcagc ccgtaatgat gattaaccag cgtctgccag gcatttatcc
     2281 tcggcctgtc cgcacggtcg tagtacggct ggaggcgctt accgctctgt agttccatgt
     2341 tcggaatgac aaaattcagt tcgagccgcc ccttatcctg gtgttccacc cagagaatgc
     2401 tgtactggtc tttttcgaga ccgggcataa gaacacgctc aaagctcgtc atcactcttt
     2461 cgcgttcacc cggcggtaac tccttctccg cgaacgacag aacgcctgac gtgtatttct
     2521 tcgaaaatgg cgtggcatca atgagttccc ggatttcttc cgggttaccc cggagcaccg
     2581 ttgcgccttc gcggttacgc tcccgcccca gcaggtaatc gaccgggcca cttccaccgc
     2641 ctttccccct ggcatgaaat ttaactatca tcccgtcccc cctgttccct gacagcctgc
     2701 cgcaactggc gcaattcacc ctcgatggcc atcagtgcgg ccaccacatg aacccggtca
     2761 atcgaagacc agtggccgct gttcaccttc cgggctgtct ggttcagatt gttcccgatg
     2821 gcagccagat gccgcagcaa tggcggcgat agtgtcggca gttttcctgt gcgcgcaacc
     2881 ggctccccca gacagacccg ccgcatccat tctgccagtc gtttaccctc gcagcgttcc
     2941 agtaaccggg cgtgctcctc atcgctaacc cgtatcgtga gcatcttctc gcgtttcatc
     3001 ggtatcattc cccctaaaaa atcccctatt aaggagcctt aagaccatga ccaaacagga
     3061 aaaaacagcc cttaacatgg cccgctttat cagaagccag acgctgaccc tgctggaaaa
     3121 actcaacgag ctggacgcgg acgaacaggc agacatctgc gaatcacttc acgaccacgc
     3181 cgacgaactc taccgtagtt gcctcgcacg cttcggcgat gacggtgaaa gcaactgaaa
     3241 catgcagctc ccggagacgt tcacagcttg cctgtgagcg gatgccggga gcagacaagc
     3301 ccgtcagggc gcgtcagcgg gttttagcgg gtgtcggggc gcagccctga cccagtcacg
     3361 tagcgatagc ggagtgtata ctggcttaac tatgtggcat cagtgcggat tataagaaaa
     3421 gtgcaccata tgcggtgtga aataccgcac agatgcgtaa ggagaaaatg ccgcatcagg
     3481 cgctcttccg cttcctcgct cactgactcg ctacgctcgg tcgttcggct gcggcgagcg
     3541 gtatcagctc actcaaagac ggtgatgcgg ttatccacag aatcagggga taacgccaaa
     3601 agaaacatgt gagcaaaagg ccaagaacag gaagaaggcc gcgccgctgg cgtttttcca
     3661 taggctccgc ccccctgacg agcatcacaa aaacagacgc tcaagtcaga ggtggcgaaa
     3721 cccgacagga ctataaagat accaggcgtt tccccctgga agctccctcg tgcgctctcc
     3781 tgttccgacc ctgccgctta ccggatacct gtccgccttt ctcccttcgg gaagcgtggc
     3841 gctttctcat agctcacgct gttggtatct cggcccggtg taggtcgttc gctccaagct
     3901 gggctgtgtg cacgaacccc ccgttcagcc cgaccgctgc gccttatccg gtaactatcg
     3961 tcttgagtcc aacccggaaa gacacgtaaa aacgccactg gcagcagcca ttggtaaccg
     4021 tttagaggag ttagtcttga agttatgcgc cggttaaggc taaactgaaa ggacagattt
     4081 ggtggctgtg ctcctccaag ccagttacct tggttcaaag agttgctgct ctgagaacct
     4141 tcgaaaagcc gccttgctgg gcggtttttt cgtttacgga caagactacc ttcaggatcg
     4201 ttagatctca agacaatcat gcatagtgag catacacagg agccgaactt gcttacactg
     4261 ttcatctttt ttgttttatt aatagctgca tgtttctttt gttttgctcc accacgaaga
     4321 ggatatgaca gaaatgagat cattccatac aaaataaaac tatcaataaa taaatatcgc
     4381 ctttacatat actcatcggg aaaggtaaga caataccttt tatttttagt tattttatca
     4441 ctgtactact ccatagcgga accatttaag tctgagttaa taaaaaacat atcatattca
     4501 ctgatggctg catttatttt tgatacaggg cttaatttta gcaaggagaa tataactaaa
     4561 ggggtgattt caacaaggtg gcataatgac ctatattcat catttgagag aatgaaagca
     4621 attaataaaa ttt
//
