LOCUS       NZ_CP151382             1902 bp    DNA     circular CON 18-APR-2024
DEFINITION  Shigella sonnei strain R15.1832 plasmid pR15.1832_1.9k, complete
            sequence.
ACCESSION   NZ_CP151382
VERSION     NZ_CP151382.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40122663
            Assembly: GCF_038367355.1
KEYWORDS    RefSeq.
SOURCE      Shigella sonnei
  ORGANISM  Shigella sonnei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Shigella.
REFERENCE   1  (bases 1 to 1902)
  AUTHORS   Chiou,C.-S., Hong,Y.-P., Wang,Y.-W., Teng,R.-H. and Chen,B.-H.
  TITLE     WGS of Shigella
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1902)
  AUTHORS   Chiou,C.-S., Hong,Y.-P., Wang,Y.-W., Teng,R.-H. and Chen,B.-H.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-APR-2024) 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 Method                   :: flye v. v2.9.2
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 100x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_038367355.1-RS_2024_04_18
            Annotation Date                   :: 04/18/2024 01:29:12
            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)                     :: 5,193
            CDSs (total)                      :: 5,063
            Genes (coding)                    :: 4,437
            CDSs (with protein)               :: 4,437
            Genes (RNA)                       :: 130
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 97
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 626
            CDSs (without protein)            :: 626
            Pseudo Genes (ambiguous residues) :: 0 of 626
            Pseudo Genes (frameshifted)       :: 168 of 626
            Pseudo Genes (incomplete)         :: 435 of 626
            Pseudo Genes (internal stop)      :: 108 of 626
            Pseudo Genes (multiple problems)  :: 82 of 626
            Pseudo Genes (short protein)      :: 3 of 626
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP151382.1.
            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..1902
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="R15.1832"
                     /db_xref="taxon:624"
                     /plasmid="pR15.1832_1.9k"
                     /collected_by="Taiwan CDC"
     gene            819..1358
                     /locus_tag="AADX60_RS25955"
                     /old_locus_tag="AADX60_25955"
     CDS             819..1358
                     /locus_tag="AADX60_RS25955"
                     /old_locus_tag="AADX60_25955"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000893324.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_000893325.1"
                     /translation="MLEQQFEDFEQQKRRDHQVQDQSKNAKQKRDRLNPPDWSQVTKAG
                     WNMLDAISEKVPRAFRLYSFFAQNIDKSCGAVVCDQKFLADYFGVSLRTIQYWIGDLES
                     IGAIVKIPVGIYYAYALDPYQVWRGYNNTKKYAAFNAKTLTQKDGVIDRKLRLMLSRRE
                     EFESSLKYSNHDSEQG"
                     /name="replication/maintenance protein RepL"
     gene            1365..1652
                     /locus_tag="AADX60_RS25960"
                     /old_locus_tag="AADX60_25960"
     CDS             1365..1652
                     /locus_tag="AADX60_RS25960"
                     /old_locus_tag="AADX60_25960"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001220925.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_049092722.1"
                     /translation="MRIKYESRWRLEELKLEICSSIDELINKYGIEYATGINLYMNCED
                     KEFNLVDVINEDGNKIMFVVSNDEKIQKPKKIAKKKTPAPVIELDKYRKK"
                     /name="hypothetical protein"
     Typing          362..443
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.59"
                     /coverage="100.0"
                     /evalue="2.9e-32"
     Typing          complement(4..247)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.551"
                     /coverage="94.0"
                     /evalue="5.039999999999998e-115"
ORIGIN
        1 tatgccgtgc aaataggctt tgcagggggc tgacgctgtt cctggcgacc tgaaagcccc
       61 tggttagggg tatcggcgcg cctgacctcc tgagagcctc tgtaagcgtt tttcgcgcct
      121 tccatgccct gacgggcatt taaaacccgt ttcgtgcgtc tgagagcttc tgagcgcgtt
      181 tgaagggcta tctgacgact catccctgaa agaacaacaa cgggatcacc gacaacatgc
      241 gagaggtgac accgctcgcc gcaagtcgat gaccgagcgt agcgagcgaa tcgacgagga
      301 agcggaagag aaccggaagc cacattgagc acttacgcac tgatgcgggg tgtcggggtg
      361 aagccctgac caggtggtga atgtctgagt gcgcgtgcgc ggtccgacat tcccacatcc
      421 tgtcccgatt tctgaggctt tttagcggtg aacggacggc aaaaccatga tggagttgtt
      481 gaacgttgag agcatgaaat ctggcaaaaa tcacggctgg taaggcttgc agaggagtaa
      541 gccagtatac actccgctat cgctacgtga ctgggtcagg gctgcgcccc gacaccccaa
      601 aagcagttag gtagtgttaa atcatgagca gtaaaaaaac gctttgatag atctttagag
      661 caaaaattga catttcttta aaaatcattg acttaagaca ccttcatacg aaacgttatt
      721 tgcatgtgta tacgcaaaca tgtttgcatg tgttgtttcg tactgtacga tataaatttc
      781 gtaaggtgcg aaatatcatt gcaggtaagg atgcaagtat gttggaacag caatttgaag
      841 actttgaaca gcaaaaacgg cgagatcatc aggtacaaga tcaatccaag aacgctaagc
      901 aaaaacgaga tcggttgaat cctccagact ggtcgcaggt tactaaggct ggttggaata
      961 tgttggacgc tatatcagaa aaagttccta gagcatttcg gttatattct ttttttgccc
     1021 agaatataga taaatcatgt ggggctgttg tatgtgatca aaaattctta gctgattatt
     1081 tcggtgttag tttaagaacg atccaatatt ggattggaga tttagaaagt attggcgcaa
     1141 tagttaaaat accagtaggc atatattatg cctatgcatt agatccttat caggtatggc
     1201 gtggatataa caatactaaa aaatatgcag catttaacgc aaaaacatta actcaaaaag
     1261 atggggttat agatcgtaaa ttgcggctta tgctttctag gcgtgaagag tttgaaagtt
     1321 ccttaaagta ctctaatcat gactcagagc aggggtgatg cactatgaga attaaatatg
     1381 aatcacgttg gagattagaa gaactaaaat tagaaatatg cagttcaata gatgagttaa
     1441 ttaataaata tggtattgaa tatgcaacag gaataaatct ttatatgaat tgtgaagata
     1501 aagaatttaa tcttgttgat gttatcaatg aagatggaaa taaaataatg tttgtcgtta
     1561 gcaacgatga aaaaatacaa aagccaaaaa aaatagcaaa gaaaaaaact ccagcacctg
     1621 taattgagct agataaatat cgaaaaaaat gaccattgag ccagcggcag gcggacaatc
     1681 aggggctacg tgttaacgtt ctgaccttga ttgtctatcc tgcattgctc ttttgccgcc
     1741 tcgaatccct tgcgtgtttt tgttccacgc tctccagaac gaccgagccg ccacggttcc
     1801 gatagcgcct tgagcgcaac cggaaaccgt ctggggagaa ccccagaccc ccatcgctgt
     1861 aataccgacg gtctacgacc acctaccagc cgaatagctg cc
//
