LOCUS       NZ_CP063300             1718 bp    DNA     circular CON 09-DEC-2023
DEFINITION  Salmonella enterica subsp. enterica serovar Typhimurium strain
            R17.1451 plasmid pR17.1451_p1.7k, complete sequence.
ACCESSION   NZ_CP063300
VERSION     NZ_CP063300.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16450741
            Assembly: GCF_015074905.1
KEYWORDS    RefSeq.
SOURCE      Salmonella enterica subsp. enterica serovar Typhimurium (Salmonella
            typhimurium)
  ORGANISM  Salmonella enterica subsp. enterica serovar Typhimurium
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Salmonella.
REFERENCE   1  (bases 1 to 1718)
  AUTHORS   Chiou,C.-S., Hong,Y.-P., Wang,Y.-W. and Chen,Y.-S.
  TITLE     Salmonella enterica subsp. enterica serovar Typhimurium strain
            R17.1451
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1718)
  AUTHORS   Chiou,C.-S., Hong,Y.-P., Wang,Y.-W. and Chen,Y.-S.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-OCT-2020) Center for Diagnostics and Vaccine
            Development, Centers for Disease Control, Taiwan, No.20, Wenxin S.
            3rd Rd., Nantun Dist., Taichung City 408, Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 16-OCT-2020
            Assembly Method                   :: Unicycler v. v0.4.6
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/09/2023 11:51:36
            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)                     :: 5,024
            CDSs (total)                      :: 4,900
            Genes (coding)                    :: 4,776
            CDSs (with protein)               :: 4,776
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 124
            CDSs (without protein)            :: 124
            Pseudo Genes (ambiguous residues) :: 0 of 124
            Pseudo Genes (frameshifted)       :: 40 of 124
            Pseudo Genes (incomplete)         :: 93 of 124
            Pseudo Genes (internal stop)      :: 22 of 124
            Pseudo Genes (multiple problems)  :: 28 of 124
            Pseudo Genes (short protein)      :: 1 of 124
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP063300.1.
            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..1718
                     /organism="Salmonella enterica subsp. enterica serovar
                     Typhimurium"
                     /mol_type="genomic DNA"
                     /strain="R17.1451"
                     /serovar="Typhimurium"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /sub_species="enterica"
                     /db_xref="taxon:90371"
                     /plasmid="pR17.1451_p1.7k"
                     /geo_loc_name="Taiwan"
                     /collection_date="2017"
                     /collected_by="Centers of Disease Control, Taiwan"
                     /subtype="ST19"
     gene            128..532
                     /locus_tag="IN819_RS24950"
                     /old_locus_tag="IN819_24985"
     CDS             128..532
                     /locus_tag="IN819_RS24950"
                     /old_locus_tag="IN819_24985"
                     /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="WP_061604172.1"
                     /translation="MKILAAMEIADCDFEHMDMDVLVGALLKLKLWDSHHHNLNMQGKR
                     SFLDDLRADGIEAIKKYEAEIESENESFAEERLILRIYQNELGLWLGRLFCGEAEIGQC
                     GVYGSADEVRTAARQSGILCDSIEIFQKDA"
                     /name="hypothetical protein"
     gene            1396..1632
                     /locus_tag="IN819_RS24955"
                     /old_locus_tag="IN819_24990"
     CDS             1396..1632
                     /locus_tag="IN819_RS24955"
                     /old_locus_tag="IN819_24990"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016230891.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016230891.1"
                     /translation="MTRLTNLTPAEKKFIDDAIAAAERAAGKKLNQPNRHIVLNRARAQ
                     IESQRYADRQRALREDERQQSDFAWSRPRAPRR"
                     /name="hypothetical protein"
     Typing          1155..1239
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.512"
                     /coverage="100.0"
                     /evalue="3.06e-32"
ORIGIN
        1 tcatcagggg cgtttttccg ggatgtgggt gaggaaatgt gccggaaacg gctctgatgc
       61 gtcagaattg cgctgagggc ctgtcagggg gtgctgataa cggatgttat ggtaaatcgg
      121 agggtgtatg aagattttgg ctgcaatgga aatagctgat tgtgattttg aacatatgga
      181 tatggatgtc ttagtagggg ctttactgaa attaaaattg tgggatagcc accatcacaa
      241 cttgaacatg caaggtaaga ggagctttct cgatgattta agagcggatg gtattgaggc
      301 tattaagaaa tacgaggctg aaattgaatc tgagaatgag tcctttgcgg aggagcgatt
      361 aatactgagg atctatcaga acgagcttgg cttatggtta gggaggctct tttgtggtga
      421 ggctgagatc ggtcagtgtg gtgtttatgg atcggctgat gaggttcgaa cagctgcgcg
      481 tcaaagcggt attttgtgcg atagcatcga aatttttcaa aaggatgcct aatgcccccg
      541 tggtgggtac accagaaaac ggggagcgga gcgaccagcg tcaggtcgtt ctatgttgtt
      601 ctgattgtgt gggtgttgtg ccagactggg caatcgcatt tcaccgcaac tcctgccttg
      661 aatctcactt tatcaggtgc ctgttatcgt acagcgagac ggggtagagc ttaactcttt
      721 cgcggttaag ttacgtttcc accgtttgcc tgtttatcct gccggagtcc ggggcgtaga
      781 cctgagtttc aagggtgcag atatgatttt aatgtcgttg aatggtatta agctggtagt
      841 gacaaggcta gccagccctg ctaggatagg attgctacgt ctgatcctgg caggtatctg
      901 cgaagaatta gagtaccgaa gccctgtgat tctgtcacgg ggcttttgta catctgtagc
      961 ctgatctttc aacaagatcc ccgtcacacc tcacttcatg tatgtgaaaa aagttgtagt
     1021 gcccgccgca gtctcacgtc cggagcgtag cgaccgagtg agcgaggagg catcatttca
     1081 ctattcgggc atggtattgc ggacgcttct gagccacata tcacacctgc cacatgacgc
     1141 actttcctga taaccgcacc tatgccaaca tattaagcca gtatacactc cgctagcgct
     1201 acgtgactgg ttcagggctg cgccccgaaa cccgctaaat ccactgacgc gcctgcggct
     1261 tgtccaacgc ctcacggcac cggattaaaa tccgctcccg ttcaccgttt ctgactgcct
     1321 ttcaccgtcg cttacgcttc atcgttccta ctgtgtctgg cagactgcag gggctattct
     1381 catacggaga taaacatgac gagactgaca aacctgaccc ccgctgagaa aaagtttatc
     1441 gacgacgcta tagccgctgc cgaacgtgcg gccgggaaga agctcaatca gcctaaccgg
     1501 cacatcgtcc tgaacagagc gcgtgcgcag attgagtcgc agcgttacgc cgaccgccag
     1561 cgtgcattac gtgaggatga gcggcagcag tccgattttg cctggtcacg tccgcgcgcg
     1621 ccgcgccgct gattgcggat tttggcggtt tagtggtgct gatgctgcga aatcacctgc
     1681 ggttcacccg cgtgcatagc tatgcagtcg cgcagaaa
//
