LOCUS       NZ_CP104361             4585 bp    DNA     circular CON 02-OCT-2023
DEFINITION  Salmonella enterica strain PNUSAS119065 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP104361
VERSION     NZ_CP104361.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13390196
            Assembly: GCF_025259065.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 4585)
  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                   :: 179.0x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/02/2023 03:36:02
            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)                     :: 4,647
            CDSs (total)                      :: 4,526
            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)              :: 178
            CDSs (without protein)            :: 178
            Pseudo Genes (ambiguous residues) :: 0 of 178
            Pseudo Genes (frameshifted)       :: 76 of 178
            Pseudo Genes (incomplete)         :: 116 of 178
            Pseudo Genes (internal stop)      :: 38 of 178
            Pseudo Genes (multiple problems)  :: 46 of 178
            Pseudo Genes (short protein)      :: 1 of 178
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP104361.1.
            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="PNUSAS119065"
                     /db_xref="taxon:28901"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA"
                     /collected_by="CDC"
     gene            join(4104..4585,1..454)
                     /locus_tag="N4275_RS23180"
                     /old_locus_tag="N4275_23180"
     CDS             join(4104..4585,1..454)
                     /locus_tag="N4275_RS23180"
                     /old_locus_tag="N4275_23180"
                     /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            complement(648..1094)
                     /locus_tag="N4275_RS23185"
                     /old_locus_tag="N4275_23185"
     CDS             complement(648..1094)
                     /locus_tag="N4275_RS23185"
                     /old_locus_tag="N4275_23185"
                     /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            1266..2801
                     /locus_tag="N4275_RS23190"
                     /old_locus_tag="N4275_23190"
     CDS             1266..2801
                     /locus_tag="N4275_RS23190"
                     /old_locus_tag="N4275_23190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001624483.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /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            2893..3216
                     /locus_tag="N4275_RS23195"
                     /old_locus_tag="N4275_23195"
     CDS             2893..3216
                     /locus_tag="N4275_RS23195"
                     /old_locus_tag="N4275_23195"
                     /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"
     gene            complement(3268..3603)
                     /locus_tag="N4275_RS23200"
                     /old_locus_tag="N4275_23200"
     CDS             complement(3268..3603)
                     /locus_tag="N4275_RS23200"
                     /old_locus_tag="N4275_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"
     Typing          2..454
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.559"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4105..4582
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.319"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          1267..2798
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ctcagcgcgt cgtagcatcg ataaacatta cgggatgggg cgaaactgcc acctgttcga
       61 aatgacgcgc aaatgggcct acagggcgat tcgtcagggc tggccagcat tctcacagtg
      121 gcttgatgcc gtgattcagc gtgtcgaaat gtacaacgca tcgcttcccg ttccgctttc
      181 tccgcctgaa tgtcgggcta ttggcaagag cattgcgaaa tacacgcaca ggaacttcac
      241 gccggaaact ttcgcacagt atgtggctaa tacgcacacg ccagaaatac aggccaagag
      301 aggcaggaaa ggtggcatcg ctaaaggcga agcctacgct gacaagcgtt tcatggctct
      361 atgtatgctg gagaatggat attctcagaa agctatcgcg gcgatgttgg aggtttccac
      421 tcgaactatt cggaattgga aaagcggaaa atagcctata tcagataaca gcgccttttc
      481 ggcgtctttt tgagcagcgg gctttccggc ggttttctcc tttcagccca gcaatggtgc
      541 ggcttgccgt atgattgagg tggtcgtgct cgccacagtc tcatgaccga gcgtagcgag
      601 cgaatgagcg aggaagcacc agggaaccgg aacgtgaacg gaggctctta cgcactgtct
      661 ttggtgagta gctctttccc gcgtttttcc cattcctgcc attttggatg gttgcgcggt
      721 agctctgcga ttcctgcgag tgcgcctacc agttcggcag cactaaactt tggttttccg
      781 gttttgctgt ccaccagtcc tgccacaatc atgaggcctg cggccttgta gagttcatga
      841 tctcgtgcct ttcgttccgc ccttgcggct gccttccgtt ctgccgctat gattgccgtt
      901 actctggctt ttgctgcggc tgctttctct gcggtttttt ctgctcgtat cagtgcggac
      961 aacgtttttt catccgtcgt tgttcggttt tttttctctg ccagtaacac aagtaatctc
     1021 tgctgctctg acggtgattt cagtccgttg atgtaggcaa tttttgcact taaccagtct
     1081 tcacgatttg tcatccttac ctctgcactt ttgccgttaa tgtgagttgt tattgtgcat
     1141 aatatcacct tgtctgcctg cgtgtgagaa cgtaaaatca tccctgattt attcagggat
     1201 gcgcacttag tagtttctcg atttcatcaa gaaactgtgc gctcctgcgg agggctaaaa
     1261 ggcagatggc aagctaccat tgcaccgtta aaaccggagc aaaaggcgca gccttaaaac
     1321 atgctgatta catttccaga tccggcgaat ataagagcta caaatcgcgg gaggatctgg
     1381 agttttcgtc atccggtaac atgccatcat gggcgaagaa aaatcccgca gaactgtgga
     1441 aagccgcaga tgaatttgaa cgaaaaaacg ggacggcata ccgtgaaatt gagatcgcat
     1501 taccgcgtga actgacacgc gaacaacgga tagaacttgt tgaagatttc gtgcaaaagg
     1561 aacttggcaa tcgccatgcc taccagtacg cgatccacaa tccgccaggt gcaatcgacg
     1621 gaaaggaaca gccacacgcg catatcatgt tttgcgagcg gattaatgat ggtattgaac
     1681 gcgatccgca gcaatttttt aaacgcgcca acagcaaatc accggagcgg ggaggcgcaa
     1741 aaaaggcgag tattccccag accgccggag agcgaaaagc cgcccttgtt gcgctacgtt
     1801 cccgctgggc tgatgtgcag aatgagcacc ttgcgcgaca cggtcacgag tcgcgcgtag
     1861 atcatcgttc gctgaaagaa cagggcatca agcgcacgcc ggaagttcat cttggccctg
     1921 ttcacgccgc caatctgaac gaggggcaga tcgcggcaat tcaggagcac agggcggcgc
     1981 gtcagcaaga acgcgcagca cgcaacccag cgccagagcg ccaacaggaa ctggagcaaa
     2041 agcaaaaaat caggacagtt gagcgttcac cggagttact ggctcagtac cgcaaggtta
     2101 tgaaaacggt cattcaggga gaggaaaggc ttgctcgttt aggggatgcc aaccccgatg
     2161 cgctcaaaga acataagctg cttcagaatg cgaaagctaa aaaagaatct ctttccgaat
     2221 ggagcaggcg aatatatgaa ggggcacggt atttagacaa actggggcgt aatgttgttt
     2281 ccgcacaaag ggagctgcgg gagctacagg aacaacgcaa tgctttgaat gggattcgtg
     2341 gcctgtttcg gggggctgac aaaagggaga ttgatgcgcg tattctggag caaaaaagtg
     2401 tgctggaaac cgctgaacat gaaaggaatg aattcaggaa caagctacag caagccgaat
     2461 ccgagtggga caaagaaaac gctgctttta agcgtaccga gggatataag tacgttgggg
     2521 atctggacag gtacagagaa cgtgagattc tggccgcggc atctttagag aataccaggc
     2581 aaaaggttgc tgaagaagta tccgttgccc gtagccagat gttatctctg gagcctgaac
     2641 tcagtatgtc tggagatgaa aaagctcaaa tgcgacatga gttactggca gaaatggcac
     2701 aggaaaggca gcaacaagaa gaatacgcac ggcgtataca gcaatctttg gctagaggaa
     2761 tgttaaatag taaggagcgt gatcagggta ttgaacgata atgttgtatt tactctggta
     2821 aagaaatttt tctgaattaa ctaaaaatag ttaacgagta gatgaaattg attgtgatgg
     2881 aagataaatt aaatgactat tatctttaac agcgataaac aaactgatag cgagtcagct
     2941 ttcgagaaat ggttgcttca ccatcctgat ggctttgttg ttaatttgag aaaagctgct
     3001 aatggtttgt cgggtaaaag tgataaacat aaaactttta ttcacagtgc tagttgtcat
     3061 tgtctctctt ctacgaaagg tggatttact aatggagaat atcagaaaat atgctcatct
     3121 tcttttgaga aagcagaggc gttagctaaa tatatgactg ggctagatga gataaaacgt
     3181 tgcagcttct gctttggtaa agataaagag tgctaatatg ctactttatt attggtaaga
     3241 tcgcgatttt tatcgcgatc tttttattta ttggattaca gatagtcgtg ttataatttt
     3301 tatgttgttt ttcatttctg aatctaattc agctttaagg gatgtatatt ctgcccagct
     3361 atcggcagtt tctggagtga ctttaaattt tctaacttct tggcaaaata aaacagcatg
     3421 attttctatt tttgataaat tgtttttttg aatatctcca tattttgtgt cattttgagt
     3481 tgccttttca tttgatgagg tggttaccgc tactgatatt tttccaactt gctcgcaact
     3541 taaatagtac gcgttggcat gaaatgacaa tggcaataat attgagaata ctattctttt
     3601 cattataggt gtctcgtttt taataaaaaa aacatgtaga tactacattt acaaatacgt
     3661 attttgcaat tcttagtatt tttctaacgc ctcacaggga gcgaaaagat ttcgctccct
     3721 gtgaggcgtt ttctgatggg gaaagtttgc cgttttgacc cgttcgccct tctaaacggt
     3781 cgaaactgtt cgcgaatcgc ttttgtgcat agttatgcag cttcctagaa acaattctga
     3841 cgcgtttttc tggttctgcc tggtgtttac ttgtcttttt gagttttttg cgtcagaaag
     3901 cgtctgaggg cgttttaagg ggtgcacaca acaggagtta tggtaaatgg atcgggtttg
     3961 cgggaagact cgacaggttt tgtcgttggg ggtagtgtaa gcgactgaaa aacaaacgcc
     4021 cctgaaattc gtgtctatcc gccaagactg tcacgaaaat acaggggcga tgtcggtcga
     4081 taacctggaa ggaatcgtaa cacatgagcg ccgcgcttca atacttcgaa gaaaatttac
     4141 cccgccgtcc ctatcacacg gatgatctcg cttttggtct tcgcatctcc ggcaaagggc
     4201 gtgcgctgct tgcgcggtac atccagcaga accagcctca tgcgcagttc tggctggttt
     4261 ttgacgttga ccgcgagggg gcagcgattg actggagcga ccggaacgcc cccgcgccga
     4321 acatcaccgt taaaaatcct gtgaacggac acgctcacct gctctatgca ctcaatatcg
     4381 ccgtgagaac cgcgcctgat gcgtcggtta aggcgctgaa atatgccgca gcggttgaac
     4441 gttcgctgtg tgagaaactt tgtgctgatg tgaactacag cggactgatt tgcaaaaatc
     4501 cgttccacct ggaatggcag gtgatggagt ggcgcgagga agcctatacc ctcgatgaac
     4561 tggctgatta tctcgatttg agcgc
//
