LOCUS       NZ_CP151310             2101 bp    DNA     circular CON 18-APR-2024
DEFINITION  Shigella sonnei strain R22.1286 plasmid pR22.1286_2.1k, complete
            sequence.
ACCESSION   NZ_CP151310
VERSION     NZ_CP151310.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN40122667
            Assembly: GCF_038363105.1
KEYWORDS    RefSeq.
SOURCE      Shigella sonnei
  ORGANISM  Shigella sonnei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Shigella.
REFERENCE   1  (bases 1 to 2101)
  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  JOURNAL   Unpublished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 2101)
  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_038363105.1-RS_2024_04_18
            Annotation Date                   :: 04/18/2024 01:39:45
            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)                     :: 5,120
            CDSs (total)                      :: 4,990
            Genes (coding)                    :: 4,358
            CDSs (with protein)               :: 4,358
            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)              :: 632
            CDSs (without protein)            :: 632
            Pseudo Genes (ambiguous residues) :: 0 of 632
            Pseudo Genes (frameshifted)       :: 173 of 632
            Pseudo Genes (incomplete)         :: 436 of 632
            Pseudo Genes (internal stop)      :: 109 of 632
            Pseudo Genes (multiple problems)  :: 83 of 632
            Pseudo Genes (short protein)      :: 3 of 632
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP151310.1.
            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..2101
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="R22.1286"
                     /db_xref="taxon:624"
                     /plasmid="pR22.1286_2.1k"
                     /collected_by="Taiwan CDC"
     gene            join(1925..2101,1..90)
                     /locus_tag="AADX63_RS25590"
                     /old_locus_tag="AADX63_25575"
     CDS             join(1925..2101,1..90)
                     /locus_tag="AADX63_RS25590"
                     /old_locus_tag="AADX63_25575"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001024536.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     gene            956..1921
                     /locus_tag="AADX63_RS25595"
                     /old_locus_tag="AADX63_25580"
     CDS             956..1921
                     /locus_tag="AADX63_RS25595"
                     /old_locus_tag="AADX63_25580"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001287824.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     Typing          1350..1581
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 attcagaaaa caaacgagag ggtaaaaact ctttttgtga aaatagattt aaacggtatc
       61 aagtttggat ttttaagaac gcattcttag ttctggaaaa gagccagcgg caggctgagg
      121 tgataggtac gagattgcat gcaatctcta gtgctctgtc tatcctgcat tatcctcagc
      181 attatcctca gcattatcct cagccttgcc aactcgacac caatgcagga tagacaatcc
      241 gatgtcaaat gttaacactc tgcgagtggt atattttccc cggattatcg tcctgagcct
      301 gccgctggct ctctttctac cgcctcgctt tgctcgttgc tcaacgcctc acagacacgg
      361 attaaaatcc gcatccgttc accgtttttt aaagtccgtt aaaagcatga tgccatctcc
      421 gagagttaat ctcgtcaaat gctaaatcgt gggggtcccc tttggggttc cgatttagtg
      481 attgacgaca ccaccgatta aaaaacttat gcggggtgga tggtttcacg aagtgaggcc
      541 atccacctgt aagacagggt tttgttttta ttccctgttt tggtgatcgg gtgtgtggaa
      601 aaggttgggg taagccgttc gggggtgctt gttttggggg gttaaaattg tggttatttt
      661 ttgcgcaatt ctcgcgcgtg atccttgtat ttatacttaa gggataaatg gcggatatga
      721 aatagtggtt tagcccagta atgacgaggc tttgagtggg ttttgacagg tcaaagaaaa
      781 tggagcagaa ttgaggcgtt tttaatcggc gttggggagt gcgtcaacac tccccaacat
      841 ttcgaatgtg tcacctcagc ggcaaactct ggtgacatgt actggctcgc aatgcacagg
      901 tacgtgatga atataccaca tcaaatcaca gcctgcccag atcggagcag gcttaatgtc
      961 agaagataaa ttcctttcgg actacagccc ccgtgatgca gtttgggata cccagcgcac
     1021 gcttaccgat tctgtcgggg gtatctacca gactgctgct gaattcgagc gctatgcact
     1081 ccgtatggcc tcctgtagcg gtttgttacg ttttggttgg tctaccatca tggaaaccgg
     1141 agaaacgcgc ctacggcttc gtagtgcgca attttgccgt gtccgtcatt gccctgtctg
     1201 ccagtggaga agaaccctca tgtggcaagc ccgtttttat caggctctac cgaaaatcgt
     1261 tgtggattac ccgtcttccc gatggttgtt tctgacgtta actgtcagga actgcgagat
     1321 aggtgaactt ggaacagtcc ttacagcaat gaatgcggcg tttaagcgaa tggaaaagcg
     1381 aaaggagcta tcacctgttc aggggtggat cagggctacg gaggtgacgc gaggtaagga
     1441 tggcagcgca catccgcatt ttcactgtct gctgatggtg caaccttctt ggtttaaagg
     1501 gaagaactac gttaagcacg aacgttgggt agaactctgg cgcgattgct tgcgggtgaa
     1561 ctatgagccg aatatcgata ttcgggcagt aaaaactaag acaggtgagg ttgtggccaa
     1621 cgttgccgag caactgcaaa gcgcggttgc tgaaacgctg aaatactccg ttaaaccgga
     1681 agatatggca aacgatcctg agtggtttct tgagctgacg cggcagcttc acaagcgccg
     1741 ttttatctcg accggtgggg cgctaaaaaa cgtcctccag ttggatcgag aaaccaatga
     1801 ggatcttgtc attgccgacg atgtagggga tggcactgat gacgggaagc ggacggcgtt
     1861 tgtctgggat tcaggtaaac ggcgttacaa acgcgcccct gagaaggata aatcggatta
     1921 acgtatgaat attaatattg aatacctgaa tggaaataag actattggtt tatttttttt
     1981 aagaagtgaa gcggtgattc ctgacaggtt taaaaacctt attttgctta ttgatggatt
     2041 aagttttggc acatttggtt ttcatccgca cgaaggtttt gaggatgaat taattttata
     2101 t
//
