LOCUS       NZ_CP124525             4585 bp    DNA     circular CON 05-JUN-2024
DEFINITION  Salmonella enterica strain PNUSAS118467 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP124525
VERSION     NZ_CP124525.1
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 4585)
  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  JOURNAL   Unpublished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 4585)
  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
            CP124525.1.
            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..4585
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="PNUSAS118467"
                     /host="Homo sapiens"
                     /db_xref="taxon:28901"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA"
                     /collection_date="2019"
     gene            complement(join(3686..4585,1..636))
                     /locus_tag="QJS74_RS23185"
                     /old_locus_tag="QJS74_23185"
     CDS             complement(join(3686..4585,1..636))
                     /locus_tag="QJS74_RS23185"
                     /old_locus_tag="QJS74_23185"
                     /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="MobA/MobL family protein"
                     /protein_id="WP_000179379.1"
                     /translation="MASYHCTVKTGAKGAALKHADYISRSGEYKSYKSREDLEFSSSGN
                     MPSWAKKNPAELWKAADEFERKNGTAYREIEIALPRELTREQRIELVEDFVQKELGNRH
                     AYQYAIHNPPGAIDGKEQPHAHIMFCERINDGIERDPQQFFKRANSKSPERGGAKKASI
                     PQTAGERKAALVALRSRWADVQNEHLARHGHESRVDHRSLKEQGIKRTPEVHLGPVHAA
                     NLNEGQIAAIQEHRAARQQERAARNPAPERQQELEQKQKIRTVERSPELLAQYRKVMKT
                     VIQGEERLARLGDANPDALKEHKLLQNAKAKKESLSEWSRRIYEGARYLDKLGRNVVSA
                     QRELRELQEQRNALNGIRGLFRGADKREIDARILEQKSVLETAEHERNEFRNKLQQAES
                     EWDKENAAFKRTEGYKYVGDLDRYREREILAAASLENTRQKVAEEVSVARSQMLSLEPE
                     LSMSGDEKAQMRHELLAEMAQERQQQEEYARRIQQSLARGMLNSKERDQGIER"
                     /name="MobA/MobL family protein"
     gene            808..1254
                     /locus_tag="QJS74_RS23190"
                     /old_locus_tag="QJS74_23190"
     CDS             808..1254
                     /locus_tag="QJS74_RS23190"
                     /old_locus_tag="QJS74_23190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000184721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_000184721.1"
                     /translation="MTNREDWLSAKIAYINGLKSPSEQQRLLVLLAEKKNRTTTDEKTL
                     SALIRAEKTAEKAAAAKARVTAIIAAERKAAARAERKARDHELYKAAGLMIVAGLVDSK
                     TGKPKFSAAELVGALAGIAELPRNHPKWQEWEKRGKELLTKDSA"
                     /name="conjugal transfer protein TraD"
     gene            complement(1448..2383)
                     /locus_tag="QJS74_RS23195"
                     /old_locus_tag="QJS74_23195"
     CDS             complement(1448..2383)
                     /locus_tag="QJS74_RS23195"
                     /old_locus_tag="QJS74_23195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011666805.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_050954360.1"
                     /translation="MSAALQYFEENLPRRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLDLSASA
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     PECRAIGKSIAKYTHRNFTPETFAQYVANTHTPEIQAKRGRKGGIAKGEAYADKRFMAL
                     CMLENGYSQKAIAAMLEVSTRTIRNWKSGK"
                     /name="replication initiation protein"
     gene            2884..3219
                     /locus_tag="QJS74_RS23200"
                     /old_locus_tag="QJS74_23200"
     CDS             2884..3219
                     /locus_tag="QJS74_RS23200"
                     /old_locus_tag="QJS74_23200"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012512992.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_079786570.1"
                     /translation="MKRIVFSILLPLSFHANAYYLSCEQVGKISVAVTTSSNEKATQND
                     TKYGDIQKNNLSKIENHAVLFCQEVRKFKVTPETADSWAEYTSLKAELDSEMKNNIKII
                     TRLSVIQ"
                     /name="hypothetical protein"
     gene            complement(3271..3594)
                     /locus_tag="QJS74_RS23205"
                     /old_locus_tag="QJS74_23205"
     CDS             complement(3271..3594)
                     /locus_tag="QJS74_RS23205"
                     /old_locus_tag="QJS74_23205"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240325.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000152444.1"
                     /translation="MTIIFNSDKQTDSESAFEKWLLHHPDGFVVNLRKAANGLSGKSDK
                     HKTFIHSASCHCLSSTKGGFTNGEYQKICSSSFEKAEALAKYMTGLDEIKRCSFCFGKD
                     KEC"
                     /name="hypothetical protein"
     Typing          complement(1449..2383)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.786"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2..636)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.84e-141"
     Typing          complement(4368..4585)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="85.526"
                     /coverage="97.0"
                     /evalue="1.7000000000000001e-29"
ORIGIN
        1 cggcgtgcgc ttgatgccct gttctttcag cgaacgatga tctacgcgcg actcgtgacc
       61 gtgtcgcgca aggtgctcat tctgcacatc agcccagcgg gaacgtagcg caacaagggc
      121 ggcttttcgc tctccggcgg tctggggaat actcgccttt tttgcgcctc cccgctccgg
      181 tgatttgctg ttggcgcgtt taaaaaattg ctgcggatcg cgttcaatac catcattaat
      241 ccgctcgcaa aacatgatat gcgcgtgtgg ctgttccttt ccgtcgattg cacctggcgg
      301 attgtggatc gcgtactggt aggcatggcg attgccaagt tccttttgca cgaaatcttc
      361 aacaagttct atccgttgtt cgcgtgtcag ttcacgcggt aatgcgatct caatttcacg
      421 gtatgccgtc ccgttttttc gttcaaattc atctgcggct ttccacagtt ctgcgggatt
      481 tttcttcgcc catgatggca tgttaccgga tgacgaaaac tccagatcct cccgcgattt
      541 gtagctctta tattcgccgg atctggaaat gtaatcagca tgttttaagg ctgcgccttt
      601 tgctccggtt ttaacggtgc aatggtagct tgccatctgc cttttagccc tccgcaggag
      661 cgcacagttt cttgatgaaa tcgagaaact actaagtgcg catccctgaa taaatcaggg
      721 atgattttac gttctcacac gcaggcagac aaggtgatat tatgcacaat aacaactcac
      781 attaacggca aaagtgcaga ggtaaggatg acaaatcgtg aagactggtt aagtgcaaaa
      841 attgcctaca tcaacggact gaaatcaccg tcagagcagc agagattact tgtgttactg
      901 gcagagaaaa aaaaccgaac aacgacggat gaaaaaacgt tgtccgcact gatacgagca
      961 gaaaaaaccg cagagaaagc agccgcagca aaagccagag taacggcaat catagcggca
     1021 gaacggaagg cagccgcaag ggcggaacga aaggcacgag atcatgaact ctacaaggcc
     1081 gcaggcctca tgattgtggc aggactggtg gacagcaaaa ccggaaaacc aaagtttagt
     1141 gctgccgaac tggtaggcgc actcgcagga atcgcagagc taccgcgcaa ccatccaaaa
     1201 tggcaggaat gggaaaaacg cgggaaagag ctactcacca aagacagtgc gtaagagcct
     1261 ccgttcacgt tccggttccc tggtgcttcc tcgctcattc gctcgctacg ctcggtcatg
     1321 agactgtggc gagcacgacc acctcaatca tacggcaagc cgcaccattg ctgggctgaa
     1381 aggagaaaac cgccggaaag cccgctgctc aaaaagacgc cgaaaaggcg ctgttatctg
     1441 atataggcta ttttccgctt ttccaattcc gaatagttcg agtggaaacc tccaacatcg
     1501 ccgcgatagc tttctgagaa tatccattct ccagcataca tagagccatg aaacgcttgt
     1561 cagcgtaggc ttcgccttta gcgatgccac ctttcctgcc tctcttggcc tgtatttctg
     1621 gcgtgtgcgt attagccaca tactgtgcga aagtttccgg cgtgaagttc ctgtgcgtgt
     1681 atttcgcaat gctcttgcca atagcccgac attcaggcgg agaaagcgga acgggaagcg
     1741 atgcgttgta catttcgaca cgctgaatca cggcatcaag ccactgtgag aatgctggcc
     1801 agccctgacg aatcgccctg taggcccatt tgcgcgtcat ttcgaacagg tggcagtttc
     1861 gccccatccc gtaatgttta tcgatgctac gacgcgctga ggcgctcaaa tcgagataat
     1921 cagccagttc atcgagggta taggcttcct cgcgccactc catcacctgc cattccaggt
     1981 ggaacggatt tttgcaaatc agtccgctgt agttcacatc agcacaaagt ttctcacaca
     2041 gcgaacgttc aaccgctgcg gcatatttca gcgccttaac cgacgcatca ggcgcggttc
     2101 tcacggcgat attgagtgca tagagcaggt gagcgtgtcc gttcacagga tttttaacgg
     2161 tgatgttcgg cgcgggggcg ttccggtcgc tccagtcaat cgctgccccc tcgcggtcaa
     2221 cgtcaaaaac cagccagaac tgcgcatgag gctggttctg ctggatgtac cgcgcaagca
     2281 gcgcacgccc tttgccggag atgcgaagac caaaagcgag atcatccgtg tgatagggac
     2341 ggcggggtaa attttcttcg aagtattgaa gcgcggcgct catgtgttac gattccttcc
     2401 aggttatcga ccgacatcgc ccctgtattt tcgtgacagt cttggcggat agacacgaat
     2461 ttcaggggcg tttgtttttc agtcgcttac actaccccca acgacaaaac ctgtcgagtc
     2521 ttcccgcaaa cccgatccat ttaccataac tcctgttgtg tgcacccctt aaaacgccct
     2581 cagacgcttt ctgacgcaaa aaactcaaaa agacaagtaa acaccaggca gaaccagaaa
     2641 aacgcgtcag aattgtttct aggaagctgc ataactatgc acaaaagcga ttcgcgaaca
     2701 gtttcgaccg tttagaaggg cgaacgggtc aaaacggcaa actttcccca tcagaaaacg
     2761 cctcacaggg agcgaaatct tttcgctccc tgtgaggcgt tagaaaaata ctaagaattg
     2821 caaaatacgt atttgtaaat gtagtatcta catgtttttt ttattaaaaa cgagacacct
     2881 ataatgaaaa gaatagtatt ctcaatatta ttgccattgt catttcatgc caacgcgtac
     2941 tatttaagtt gcgagcaagt tggaaaaata tcagtagcgg taaccacctc atcaaatgaa
     3001 aaggcaactc aaaatgacac aaaatatgga gatattcaaa aaaacaattt atcaaaaata
     3061 gaaaatcatg ctgttttatt ttgccaagaa gttagaaaat ttaaagtcac tccagaaact
     3121 gccgatagct gggcagaata tacatccctt aaagctgaat tagattcaga aatgaaaaac
     3181 aacataaaaa ttataacacg actatctgta atccaataaa taaaaagatc gcgataaaaa
     3241 tcgcgatctt accaataata aagtagcata ttagcactct ttatctttac caaagcagaa
     3301 gctgcaacgt tttatctcat ctagcccagt catatattta gctaacgcct ctgctttctc
     3361 aaaagaagat gagcatattt tctgatattc tccattagta aatccacctt tcgtagaaga
     3421 gagacaatga caactagcac tgtgaataaa agttttatgt ttatcacttt tacccgacaa
     3481 accattagca gcttttctca aattaacaac aaagccatca ggatggtgaa gcaaccattt
     3541 ctcgaaagct gactcgctat cagtttgttt atcgctgtta aagataatag tcatttaatt
     3601 tatcttccat cacaatcaat ttcatctact cgttaactat ttttagttaa ttcagaaaaa
     3661 tttctttacc agagtaaata caacattatc gttcaatacc ctgatcacgc tccttactat
     3721 ttaacattcc tctagccaaa gattgctgta tacgccgtgc gtattcttct tgttgctgcc
     3781 tttcctgtgc catttctgcc agtaactcat gtcgcatttg agctttttca tctccagaca
     3841 tactgagttc aggctccaga gataacatct ggctacgggc aacggatact tcttcagcaa
     3901 ccttttgcct ggtattctct aaagatgccg cggccagaat ctcacgttct ctgtacctgt
     3961 ccagatcccc aacgtactta tatccctcgg tacgcttaaa agcagcgttt tctttgtccc
     4021 actcggattc ggcttgctgt agcttgttcc tgaattcatt cctttcatgt tcagcggttt
     4081 ccagcacact tttttgctcc agaatacgcg catcaatctc ccttttgtca gccccccgaa
     4141 acaggccacg aatcccattc aaagcattgc gttgttcctg tagctcccgc agctcccttt
     4201 gtgcggaaac aacattacgc cccagtttgt ctaaataccg tgccccttca tatattcgcc
     4261 tgctccattc ggaaagagat tcttttttag ctttcgcatt ctgaagcagc ttatgttctt
     4321 tgagcgcatc ggggttggca tcccctaaac gagcaagcct ttcctctccc tgaatgaccg
     4381 ttttcataac cttgcggtac tgagccagta actccggtga acgctcaact gtcctgattt
     4441 tttgcttttg ctccagttcc tgttggcgct ctggcgctgg gttgcgtgct gcgcgttctt
     4501 gctgacgcgc cgccctgtgc tcctgaattg ccgcgatctg cccctcgttc agattggcgg
     4561 cgtgaacagg gccaagatga acttc
//
