LOCUS       CP093139                3003 bp    DNA     circular BCT 05-MAY-2022
DEFINITION  Salmonella enterica strain PNUSAS127695 plasmid pPNUSAS127695_4,
            complete sequence.
ACCESSION   CP093139
VERSION     CP093139.1
DBLINK      BioProject: PRJNA230403
            BioSample: SAMN13795856
KEYWORDS    .
SOURCE      Salmonella enterica
  ORGANISM  Salmonella enterica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 3003)
  AUTHORS   Webb,H.E., Kim,J.Y., Tagg,K.A., de la Cruz,F., Penil,A., Tolar,B.,
            Ellison,Z., Schwensohn,C., Brandenburg,J., Nichols,M. and
            Folster,J.P.
  TITLE     Twenty-one complete Salmonella enterica serotype Hadar genomes
            collected from patients in the United States
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3003)
  AUTHORS   Tarr,C.L., Trees,E., Katz,L.S., Carleton-Romer,H.A., Stroika,S.,
            Kucerova,Z., Roache,K.F., Sabol,A.L., Besser,J. and Gerner-Smidt,P.
  CONSRTM   PulseNet: The National Subtyping Network for Foodborne Disease
            Surveillance
  TITLE     Direct Submission
  JOURNAL   Submitted (09-JAN-2020) Enteric Diseases Laboratory Branch, Centers
            for Disease Control and Prevention, 1600 Clifton Rd., MS C03,
            Atlanta, GA 30333, USA
REFERENCE   3  (bases 1 to 3003)
  AUTHORS   Webb,H.E., Kim,J.Y., Tagg,K.A., de la Cruz,F., Penil,A., Tolar,B.,
            Ellison,Z., Schwensohn,C., Brandenburg,J., Nichols,M. and
            Folster,J.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (03-MAR-2022) EDLB, Centers for Disease Control and
            Prevention, 1600 Clifton Road, Atlanta, GA 30333, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2022
            Assembly Method                   :: Unicycler v. 0.4.8
            Assembly Name                     :: PNUSAS127695_consensus
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 62x
            Sequencing Technology             :: Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 05/04/2022 09:14:48
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.1
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 4,698
            CDSs (total)                      :: 4,570
            Genes (coding)                    :: 4,449
            CDSs (with protein)               :: 4,449
            Genes (RNA)                       :: 128
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 19
            Pseudo Genes (total)              :: 121
            CDSs (without protein)            :: 121
            Pseudo Genes (ambiguous residues) :: 0 of 121
            Pseudo Genes (frameshifted)       :: 48 of 121
            Pseudo Genes (incomplete)         :: 87 of 121
            Pseudo Genes (internal stop)      :: 24 of 121
            Pseudo Genes (multiple problems)  :: 34 of 121
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..3003
                     /organism="Salmonella enterica"
                     /mol_type="genomic DNA"
                     /strain="PNUSAS127695"
                     /db_xref="taxon:28901"
                     /plasmid="pPNUSAS127695_4"
                     /geo_loc_name="USA"
                     /collected_by="CDC"
     gene            complement(join(2764..3003,1..144))
                     /locus_tag="GUD44_23475"
     CDS             complement(join(2764..3003,1..144))
                     /locus_tag="GUD44_23475"
                     /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="hypothetical protein"
                     /protein_id="UPX62709.1"
                     /translation="MKFFKPKTDAIEYIRVEPSFSKTSSNINNAKSGSDTNSQPGFILR
                     SQIEEMIKNHRPKTEKEIKAESEGLIRLCSMAFIFLIVLSIFMLIVYFGIKDRELPDFA
                     NNLMALMTTLVGAIGGFIYGTKK"
                     /name="hypothetical protein"
     gene            complement(141..818)
                     /locus_tag="GUD44_23480"
     CDS             complement(141..818)
                     /locus_tag="GUD44_23480"
                     /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="hypothetical protein"
                     /protein_id="UPX62710.1"
                     /translation="MENKAVTISTQLAIFIDSTIARPDLLFNSLNSEIGEVIDAMPQTL
                     PLPADAPADIPRVIGTSSFGKFNLNISLNRIDFVENYTPTEEIEKSVTEFKLKCNTLIA
                     TIFQKYGVVRIGLVGNYYIPHKNPSQLIADLYLNENKRNLDEITIRINNRDTFKNIQIN
                     NVINLSQGQVTAQNYNGNAVIVQLDYNSTDNNTPLEEGLTLALFKEKSIAYNSKHVEDV
                     SGL"
                     /name="hypothetical protein"
     gene            complement(1667..1861)
                     /locus_tag="GUD44_23485"
     CDS             complement(1667..1861)
                     /locus_tag="GUD44_23485"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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="UPX62707.1"
                     /translation="MNKQQQTALNMAKFIKSQSLTLLEKLDALDADEQATMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2133..2456
                     /locus_tag="GUD44_23490"
     CDS             2133..2456
                     /locus_tag="GUD44_23490"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nikA protein"
                     /protein_id="UPX62708.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="nikA protein"
     Typing          1899..2124
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.583"
                     /coverage="99.0"
                     /evalue="1.05e-76"
     Typing          complement(1109..1638)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.413"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          2134..2453
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="1.96e-62"
ORIGIN
        1 tatttgagat cttaaaatga atccaggctg tgagtttgtg tcacttcctg atttcgcatt
       61 atttatattg ctacttgttt ttgagaatga tggttctaca cgaatgtatt caatcgcatc
      121 tgtttttggt ttgaaaaatt tcataatcca ctcacatcct caacatgctt ggagttataa
      181 gcaatggatt tttctttaaa tagggctaag gttaaccctt cttcaagtgg tgtgttatta
      241 tcggttgagt tgtagtcaag ttgaactatc accgcatttc cattgtagtt ctgtgcggtt
      301 acttgtcctt ggcttaaatt gatgacattg tttatttgta tatttttgaa tgtatcgcgg
      361 ttatttattc ttattgttat ttcatctaaa tttcttttgt tttcgtttaa atacagatca
      421 gctattagtt gagatggatt tttatgtggg atgtaatagt taccaactag gccgattctt
      481 acgactccat atttttggaa tattgttgct attagcgtat tgcactttaa tttgaattcc
      541 gttactgatt tttcgatctc ctcagtaggg gtgtagtttt ctacaaaatc tattctgttt
      601 agtgatatgt ttaagttgaa cttgccaaag gacgatgtgc caataacgcg agggatatct
      661 gcgggtgcat ctgcaggcag gggaagcgtc tgtggcattg cgtctataac ttcgccaatt
      721 tctgagttta ggctattaaa gagaagatct ggtctagcta tggtgctgtc aataaatatt
      781 gctagctgtg ttgatattgt gacggccttg ttttccattt tttctttcct attttgcatt
      841 ggtattaatt gaagtattgc gaaattaacg tgttgtgagt atcttaaacg aaaaaaccac
      901 cctggcaggt ggtttttcga aggttagcta atcctggcag attgtctaac cgggtaactg
      961 gcttcagcag agcgcagata ccaaatactg tccttctagt gtagccgtag tcaggccatc
     1021 acttcaagaa ctctgtaagc atctggacaa atctcgctct gctaactcgg ttaccaatgg
     1081 ctgctgccag tggtgctttt gcatgtctta ccgggttgga ctcaagacga tagttaccgg
     1141 ataaggcgca gtggtcgggc tgaacggggg gttcgtgcac acagcccagc ttggagcgaa
     1201 cgacctacac cgggccgaga tacctacagc gtgagctatg agaaagcgcc acgcttcccg
     1261 aagggagaaa ggcggacagg tatccggtaa gcggcagggt cggaacagga gagcgcacga
     1321 gggagcttcc agggggaaac gcctggtatc tttatagtcc tgtcgggttt cgccacctct
     1381 gacttgagcg tcgatttttg tgatgctcgt caggggggcg gagcctatgg aaaaacgcct
     1441 gcggtgctgg cttcttccgg tgctttgctt tttgctcaca tgttctttcc ggctttatcc
     1501 cctgattctg tggataaccg tattaccgcc tttgagtgag ctgacaccgc tcgccgcagt
     1561 cgaacgaccg agcgtagcga gtcagtgagc gaggaagcgg aagagcgcct tatgtgacat
     1621 tttctcctta cgctctgttg tgccgttcgg catcctgccc tgagcgttat atctctgtgc
     1681 tattttctac ttcaaagcgt gtctgtatgc tgttctggag ttcttctgcg agttcgtgca
     1741 gcttctcaca catggtggcc tgctcgtcag catcgagtgc gtccagtttt tcgagcagcg
     1801 tcaggctctg gctttttatg aattttgcca tgttgagtgc ggtttgctgc tgcttgttca
     1861 tctttctgct ttctccgttc tgtctgtcat ctgcgtcgtg tgattatatc gcgcaccact
     1921 tttcgaccgt cttaccgccg gtattctgcc gacggacatt tcagtcagac aacactgtca
     1981 ctgccaaaaa acagcagtgc tttgttggta attcgaactt gcagacagga caggatgtgt
     2041 aattgttata ccgcgcatac atgcacgcta ttacaattac cctggtcagg gcttcgcccc
     2101 gacaccccat gtcagatacg gagccatgtt ttatgacaaa acgaagtgga agtaatacgc
     2161 gcaggcgggc tatcagtcgc cctgttcgtc tgacggcaga agaagaccag gaaatcagaa
     2221 aaagggctgc tgaatgcggc aagaccgttt ctggtttttt acgggcggca gctctcggta
     2281 agaaagttaa ctcactgact gatgaccggg tgctgaaaga agttatgcga ctgggggcgt
     2341 tgcagaaaaa actctttatc gacggcaagc gtgtcgggga cagggagtat gcggaggtgc
     2401 tgatcgctat tacggagtat caccgtgccc tgttatccag gcttatggca gattagcttc
     2461 ccggagagaa actgtcgaaa acagacggta tgaacgccgt aagcccccaa accgatcgcc
     2521 attcactttc atgcatagct atgcagtgag ctgaaagcga tcctgacgca tttttccggt
     2581 ttatcccggg gaaaacatct ctttttgcgg tgtttgcggc agaatcgcgt tcagcgcgtt
     2641 ttagcggtgc gcgtaatgag acgttatggt aaatggtgtc aggtaacggt tgtaaaagcc
     2701 ccgaagtatg gggctggtgt gcttgtgtgt tatttgtttt ttttatttgt gtttttgtct
     2761 gtgttatttt tttgttccat atataaaacc acctatcgct ccaactaatg ttgtcattag
     2821 tgccatcagg ttatttgcaa aatctggtag ttctctatct tttattccga aataaacgat
     2881 taacataaaa attgataaaa ctattaaaaa tataaaggcc atggagcaaa gccttataag
     2941 accttcgctt tcagccttta tttctttttc tgttttcggt ctgtggtttt ttatcatttc
     3001 ctc
//
