LOCUS       NZ_CP104365             4585 bp    DNA     circular CON 02-OCT-2023
DEFINITION  Salmonella enterica strain PNUSAS118606 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP104365
VERSION     NZ_CP104365.1
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 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                   :: 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
            CP104365.1.
            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="PNUSAS118606"
                     /db_xref="taxon:28901"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA"
                     /collected_by="CDC"
     gene            complement(join(4381..4585,1..242))
                     /locus_tag="N4276_RS23185"
                     /old_locus_tag="N4276_23185"
     CDS             complement(join(4381..4585,1..242))
                     /locus_tag="N4276_RS23185"
                     /old_locus_tag="N4276_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            414..1949
                     /locus_tag="N4276_RS23190"
                     /old_locus_tag="N4276_23190"
     CDS             414..1949
                     /locus_tag="N4276_RS23190"
                     /old_locus_tag="N4276_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            2041..2364
                     /locus_tag="N4276_RS23195"
                     /old_locus_tag="N4276_23195"
     CDS             2041..2364
                     /locus_tag="N4276_RS23195"
                     /old_locus_tag="N4276_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(2416..2751)
                     /locus_tag="N4276_RS23200"
                     /old_locus_tag="N4276_23200"
     CDS             complement(2416..2751)
                     /locus_tag="N4276_RS23200"
                     /old_locus_tag="N4276_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            3252..4187
                     /locus_tag="N4276_RS23205"
                     /old_locus_tag="N4276_23205"
     CDS             3252..4187
                     /locus_tag="N4276_RS23205"
                     /old_locus_tag="N4276_23205"
                     /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"
     Typing          3253..4187
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.786"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          415..1946
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cgttccgccc ttgcggctgc cttccgttct gccgctatga ttgccgttac tctggctttt
       61 gctgcggctg ctttctctgc ggttttttct gctcgtatca gtgcggacaa cgttttttca
      121 tccgtcgttg ttcggttttt tttctctgcc agtaacacaa gtaatctctg ctgctctgac
      181 ggtgatttca gtccgttgat gtaggcaatt tttgcactta accagtcttc acgatttgtc
      241 atccttacct ctgcactttt gccgttaatg tgagttgtta ttgtgcataa tatcaccttg
      301 tctgcctgcg tgtgagaacg taaaatcatc cctgatttat tcagggatgc gcacttagta
      361 gtttctcgat ttcatcaaga aactgtgcgc tcctgcggag ggctaaaagg cagatggcaa
      421 gctaccattg caccgttaaa accggagcaa aaggcgcagc cttaaaacat gctgattaca
      481 tttccagatc cggcgaatat aagagctaca aatcgcggga ggatctggag ttttcgtcat
      541 ccggtaacat gccatcatgg gcgaagaaaa atcccgcaga actgtggaaa gccgcagatg
      601 aatttgaacg aaaaaacggg acggcatacc gtgaaattga gatcgcatta ccgcgtgaac
      661 tgacacgcga acaacggata gaacttgttg aagatttcgt gcaaaaggaa cttggcaatc
      721 gccatgccta ccagtacgcg atccacaatc cgccaggtgc aatcgacgga aaggaacagc
      781 cacacgcgca tatcatgttt tgcgagcgga ttaatgatgg tattgaacgc gatccgcagc
      841 aattttttaa acgcgccaac agcaaatcac cggagcgggg aggcgcaaaa aaggcgagta
      901 ttccccagac cgccggagag cgaaaagccg cccttgttgc gctacgttcc cgctgggctg
      961 atgtgcagaa tgagcacctt gcgcgacacg gtcacgagtc gcgcgtagat catcgttcgc
     1021 tgaaagaaca gggcatcaag cgcacgccgg aagttcatct tggccctgtt cacgccgcca
     1081 atctgaacga ggggcagatc gcggcaattc aggagcacag ggcggcgcgt cagcaagaac
     1141 gcgcagcacg caacccagcg ccagagcgcc aacaggaact ggagcaaaag caaaaaatca
     1201 ggacagttga gcgttcaccg gagttactgg ctcagtaccg caaggttatg aaaacggtca
     1261 ttcagggaga ggaaaggctt gctcgtttag gggatgccaa ccccgatgcg ctcaaagaac
     1321 ataagctgct tcagaatgcg aaagctaaaa aagaatctct ttccgaatgg agcaggcgaa
     1381 tatatgaagg ggcacggtat ttagacaaac tggggcgtaa tgttgtttcc gcacaaaggg
     1441 agctgcggga gctacaggaa caacgcaatg ctttgaatgg gattcgtggc ctgtttcggg
     1501 gggctgacaa aagggagatt gatgcgcgta ttctggagca aaaaagtgtg ctggaaaccg
     1561 ctgaacatga aaggaatgaa ttcaggaaca agctacagca agccgaatcc gagtgggaca
     1621 aagaaaacgc tgcttttaag cgtaccgagg gatataagta cgttggggat ctggacaggt
     1681 acagagaacg tgagattctg gccgcggcat ctttagagaa taccaggcaa aaggttgctg
     1741 aagaagtatc cgttgcccgt agccagatgt tatctctgga gcctgaactc agtatgtctg
     1801 gagatgaaaa agctcaaatg cgacatgagt tactggcaga aatggcacag gaaaggcagc
     1861 aacaagaaga atacgcacgg cgtatacagc aatctttggc tagaggaatg ttaaatagta
     1921 aggagcgtga tcagggtatt gaacgataat gttgtattta ctctggtaaa gaaatttttc
     1981 tgaattaact aaaaatagtt aacgagtaga tgaaattgat tgtgatggaa gataaattaa
     2041 atgactatta tctttaacag cgataaacaa actgatagcg agtcagcttt cgagaaatgg
     2101 ttgcttcacc atcctgatgg ctttgttgtt aatttgagaa aagctgctaa tggtttgtcg
     2161 ggtaaaagtg ataaacataa aacttttatt cacagtgcta gttgtcattg tctctcttct
     2221 acgaaaggtg gatttactaa tggagaatat cagaaaatat gctcatcttc ttttgagaaa
     2281 gcagaggcgt tagctaaata tatgactggg ctagatgaga taaaacgttg cagcttctgc
     2341 tttggtaaag ataaagagtg ctaatatgct actttattat tggtaagatc gcgattttta
     2401 tcgcgatctt tttatttatt ggattacaga tagtcgtgtt ataattttta tgttgttttt
     2461 catttctgaa tctaattcag ctttaaggga tgtatattct gcccagctat cggcagtttc
     2521 tggagtgact ttaaattttc taacttcttg gcaaaataaa acagcatgat tttctatttt
     2581 tgataaattg tttttttgaa tatctccata ttttgtgtca ttttgagttg ccttttcatt
     2641 tgatgaggtg gttaccgcta ctgatatttt tccaacttgc tcgcaactta aatagtacgc
     2701 gttggcatga aatgacaatg gcaataatat tgagaatact attcttttca ttataggtgt
     2761 ctcgttttta ataaaaaaaa catgtagata ctacatttac aaatacgtat tttgcaattc
     2821 ttagtatttt tctaacgcct cacagggagc gaaaagattt cgctccctgt gaggcgtttt
     2881 ctgatgggga aagtttgccg ttttgacccg ttcgcccttc taaacggtcg aaactgttcg
     2941 cgaatcgctt ttgtgcatag ttatgcagct tcctagaaac aattctgacg cgtttttctg
     3001 gttctgcctg gtgtttactt gtctttttga gttttttgcg tcagaaagcg tctgagggcg
     3061 ttttaagggg tgcacacaac aggagttatg gtaaatggat cgggtttgcg ggaagactcg
     3121 acaggttttg tcgttggggg tagtgtaagc gactgaaaaa caaacgcccc tgaaattcgt
     3181 gtctatccgc caagactgtc acgaaaatac aggggcgatg tcggtcgata acctggaagg
     3241 aatcgtaaca catgagcgcc gcgcttcaat acttcgaaga aaatttaccc cgccgtccct
     3301 atcacacgga tgatctcgct tttggtcttc gcatctccgg caaagggcgt gcgctgcttg
     3361 cgcggtacat ccagcagaac cagcctcatg cgcagttctg gctggttttt gacgttgacc
     3421 gcgagggggc agcgattgac tggagcgacc ggaacgcccc cgcgccgaac atcaccgtta
     3481 aaaatcctgt gaacggacac gctcacctgc tctatgcact caatatcgcc gtgagaaccg
     3541 cgcctgatgc gtcggttaag gcgctgaaat atgccgcagc ggttgaacgt tcgctgtgtg
     3601 agaaactttg tgctgatgtg aactacagcg gactgatttg caaaaatccg ttccacctgg
     3661 aatggcaggt gatggagtgg cgcgaggaag cctataccct cgatgaactg gctgattatc
     3721 tcgatttgag cgcctcagcg cgtcgtagca tcgataaaca ttacgggatg gggcgaaact
     3781 gccacctgtt cgaaatgacg cgcaaatggg cctacagggc gattcgtcag ggctggccag
     3841 cattctcaca gtggcttgat gccgtgattc agcgtgtcga aatgtacaac gcatcgcttc
     3901 ccgttccgct ttctccgcct gaatgtcggg ctattggcaa gagcattgcg aaatacacgc
     3961 acaggaactt cacgccggaa actttcgcac agtatgtggc taatacgcac acgccagaaa
     4021 tacaggccaa gagaggcagg aaaggtggca tcgctaaagg cgaagcctac gctgacaagc
     4081 gtttcatggc tctatgtatg ctggagaatg gatattctca gaaagctatc gcggcgatgt
     4141 tggaggtttc cactcgaact attcggaatt ggaaaagcgg aaaatagcct atatcagata
     4201 acagcgcctt ttcggcgtct ttttgagcag cgggctttcc ggcggttttc tcctttcagc
     4261 ccagcaatgg tgcggcttgc cgtatgattg aggtggtcgt gctcgccaca gtctcatgac
     4321 cgagcgtagc gagcgaatga gcgaggaagc accagggaac cggaacgtga acggaggctc
     4381 ttacgcactg tctttggtga gtagctcttt cccgcgtttt tcccattcct gccattttgg
     4441 atggttgcgc ggtagctctg cgattcctgc gagtgcgcct accagttcgg cagcactaaa
     4501 ctttggtttt ccggttttgc tgtccaccag tcctgccaca atcatgaggc ctgcggcctt
     4561 gtagagttca tgatctcgtg ccttt
//
