LOCUS       NZ_CP151343             1551 bp    DNA     circular CON 18-APR-2024
DEFINITION  Shigella sonnei strain R19.2680 plasmid pR19.2680_1k, complete
            sequence.
ACCESSION   NZ_CP151343
VERSION     NZ_CP151343.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN39735797
            Assembly: GCF_038367145.1
KEYWORDS    RefSeq.
SOURCE      Shigella sonnei
  ORGANISM  Shigella sonnei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Shigella.
REFERENCE   1  (bases 1 to 1551)
  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  JOURNAL   Unpublished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 1551)
  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_038367145.1-RS_2024_04_18
            Annotation Date                   :: 04/18/2024 01:32:41
            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)                     :: 5,099
            CDSs (total)                      :: 4,971
            Genes (coding)                    :: 4,342
            CDSs (with protein)               :: 4,342
            Genes (RNA)                       :: 128
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 95
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 629
            CDSs (without protein)            :: 629
            Pseudo Genes (ambiguous residues) :: 0 of 629
            Pseudo Genes (frameshifted)       :: 168 of 629
            Pseudo Genes (incomplete)         :: 437 of 629
            Pseudo Genes (internal stop)      :: 109 of 629
            Pseudo Genes (multiple problems)  :: 82 of 629
            Pseudo Genes (short protein)      :: 3 of 629
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP151343.1.
            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..1551
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="R19.2680"
                     /db_xref="taxon:624"
                     /plasmid="pR19.2680_1k"
                     /collected_by="Taiwan CDC"
     gene            1..477
                     /locus_tag="AADX56_RS25495"
                     /old_locus_tag="AADX56_25515"
     CDS             1..477
                     /locus_tag="AADX56_RS25495"
                     /old_locus_tag="AADX56_25515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     Typing          1082..1162
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.122"
                     /coverage="87.0"
                     /evalue="9.59e-28"
     Typing          complement(1365..1473)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.182"
                     /coverage="100.0"
                     /evalue="4.23e-47"
     Typing          complement(708..968)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.511"
                     /coverage="100.0"
                     /evalue="3.95e-106"
ORIGIN
        1 atgtttattg attcagaaaa acgactgaaa caactttcag atgaggcaaa gaaaaacacc
       61 gaggatctcg aagaagcaaa gaaaaattca aggtttacac aggtatcccc aaaaggttgg
      121 gaacgtgttc gagagctgct gaaggatagc caaggcatat cagcactgaa gctgtactca
      181 tttttagcgg agcatatcga tcctacgtgt ggcgctgtcg ttgcggatca gcaattccta
      241 gctgaaaaac ttggagttag cagaagcaca attattcggt ggctcaatta cttagaatca
      301 aaaaatgcat tagttagaat ccccgttgct ggtaaggttt gtgcgtatgc cctcgatcca
      361 catgaagtct ggaagggata caacactacg aaaaaccatg cagcgtttgt cactaaaaca
      421 ctggtcaaca aagacggtga tattcagcgc cgaatcatgg ccatgttttc aaattgagct
      481 agcggcaggc ggacaatcag gggctacgtg ttaacgttct gaccatgatt gtctatcctg
      541 cattgctctt ttgccgcctc aaaatccctt gcttgttttt gctccccgat ccccagaacg
      601 accgcgccgc cacggttccg gcagcgcctt gagcgcaacc ggaaaccgtc tggggagaac
      661 cccagacccc catcgctgta acaccgacgg tctacgacca cctaccaacc gagtggctgc
      721 ctgtaccgtg caaatgggct ttgcaggggg ctgacgcggt tcctagcgac ctgaaagccc
      781 ctggttaggg gtatcggcgc gcctgacctc ctgagagcct ctgtaagcgt ttttcgcgcc
      841 ttccatgccc tgacgggcat ttaaaacccg tttcgtgtgt ctgagagctt ctgagcgcgt
      901 ttgaggggct atctggcgac tcatccccga aagaacaaca acggaatcac cgacaacatg
      961 cgagaggtga caccgctcgc cgcagcccca gcgaccgaac gtagtgagcg agtgggcgag
     1021 gaagcggaag agaaccggaa accacattga gcacgtacgc actgatgcgg ggtgtcgggg
     1081 cgaagccctg accagacggc aaacggaata tcgtcgcggg tgacggtatt acatttgcac
     1141 atcctgtccc gatttctgag gcgttttagc ggtgaacgga cggcaaaacc atgatggagc
     1201 tgttgagcgt tgagagcgtg aaatctggca aaaatcacgg ctggcgaggc ttgtagcgga
     1261 ataagccagt atacactccg ctatcgctac gtgactgggt cagggcttcg ccccgacacc
     1321 cccaaagggc gttgcgttgc acgcaacacc cttgcctaga atagatcttt tacgccgatt
     1381 tgtaagttat tgttttttta gtgtgttttt tatttacctg tcgcatccag ggtgacacaa
     1441 cgttgtcgca tcctggatgc gacaacacgc aacaaggtgt tgcacggatg tgtcatgatg
     1501 gcttagattt gaaccaacgt tagtgcatgg gattttcaga gggaaaaaat c
//
