LOCUS       NZ_CP151380             2690 bp    DNA     circular CON 18-APR-2024
DEFINITION  Shigella sonnei strain R15.1832 plasmid pR15.1832_2.6k, complete
            sequence.
ACCESSION   NZ_CP151380
VERSION     NZ_CP151380.1
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 2690)
  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  JOURNAL   Unpublished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 2690)
  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
            CP151380.1.
            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..2690
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="R15.1832"
                     /db_xref="taxon:624"
                     /plasmid="pR15.1832_2.6k"
                     /collected_by="Taiwan CDC"
     gene            11..205
                     /locus_tag="AADX60_RS25925"
                     /old_locus_tag="AADX60_25925"
     CDS             11..205
                     /locus_tag="AADX60_RS25925"
                     /old_locus_tag="AADX60_25925"
                     /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="WP_039059175.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHEIA
                     EELQNSIQTRFEAESGTGV"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            703..864
                     /locus_tag="AADX60_RS25930"
                     /old_locus_tag="AADX60_25930"
     CDS             703..864
                     /locus_tag="AADX60_RS25930"
                     /old_locus_tag="AADX60_25930"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001318243.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_072007783.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHELSPLAAATDNRIRGVRLE
                     VMRLLRLN"
                     /name="replication initiation protein"
     gene            1243..1866
                     /locus_tag="AADX60_RS25935"
                     /old_locus_tag="AADX60_25935"
     CDS             1243..1866
                     /locus_tag="AADX60_RS25935"
                     /old_locus_tag="AADX60_25935"
                     /inference="COORDINATES: protein motif:HMM:NF045398.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="putative adhesin"
                     /protein_id="WP_226342037.1"
                     /translation="MDVTSHRRLFQKDGIGLSQTGKATQLVIMSHGGWKEISHPQTLFT
                     RQKGDGWTVVPKNLRIDFYTKDNDFTKGLSVLSEVNKRHTEAQKGLTPSLNISKDDLKV
                     LANARNIPQSKLEEEMMSQAIYRKEYATSNEKIKNYALYYHEQAQNIIQRHQDGLGNKN
                     IDIAFITDKNHKKHLSDIFKVINESGVKYDVIHFGACRVNREEK"
                     /name="putative adhesin"
     gene            complement(2092..2415)
                     /gene="mobA"
                     /locus_tag="AADX60_RS25940"
                     /old_locus_tag="AADX60_25940"
     CDS             complement(2092..2415)
                     /gene="mobA"
                     /locus_tag="AADX60_RS25940"
                     /old_locus_tag="AADX60_25940"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_004988908.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKNVNSLTDDRVLKEVMRLGALQKKLFIDGKRIGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     Typing          complement(2425..2663)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.72e-122"
     Typing          249..775
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.472"
                     /coverage="96.0"
                     /evalue="0.0"
     Typing          complement(2096..2415)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.196"
                     /coverage="100.0"
                     /evalue="7.599999999999999e-62"
ORIGIN
        1 aaacagaaag atgaacaagc agcagcaaac cgtactcaac atggcgggat tcataaaaag
       61 ccagagcctg acgctgctcg aaaagctgga cgcactcgat gccgacgaac aggccgccat
      121 gtgtgagaag ctgcacgaaa tcgcggaaga actccagaac agcatacaga cacgctttga
      181 agcggaaagt ggcaccgggg tataacagtg tatcctgctc cagacaggat gcagaacggt
      241 ataccggtgc gtaaggagaa aatgtcacat aaggcgctct tccgcttcct cgctcactga
      301 ctcgctacgc tcggtcgttc gactgcggcg agcggtgtca gctcactcaa aggcggtaat
      361 gcggttatcc acagaatcag gggataacgc cggaaagaac atgtgagcaa aaagccgaag
      421 gcagggacaa aggccgcgca ggtggcgttt ttccataggc tccgcccccc tgacgagcat
      481 cacaaaaatc gacgctcaag tcagaggtgg cgaaacccga caggactata aagataccag
      541 gcgtttcccc ctggaagctc cctcgtgcgc tctcctgttc cgaccctgcc gtttaccgga
      601 tacctgtccg cctttctccc ttcgggaagc gtggcgcttt ctcatagctc acgctgttgg
      661 tatctcggcc cggtgtaggt cgttcgctcc aagctgggct gtgtgcacga accccccgtt
      721 cagcccgacc gctgcgcctt atccggtaac tatcgtcttg agtccaaccc ggtaagacac
      781 gaattatcgc cactggcagc agccactgat aaccgaatta gaggagtaag acttgaagtc
      841 atgcgcctgt taaggctaaa ctgaaagaac aagttttggt gactgcgctc ctccaagcca
      901 gttacctcgg ctcaaagagt tggtagctct gagaaccttc gaaaaaccgc cttgcagggc
      961 ggttttttcg tttacaggca gcagattacg cgcagaaaaa aaggatctca agaagaacct
     1021 ttaatttttt ttcacacttg gtatcctact ttaacccata aaataaacac ttacaccgac
     1081 acacccttaa acaaaagaaa aaaaacaata aaaaacaccg caaaaatgga ttgttaacaa
     1141 atgaaaatac tcaattcgaa tctcataaca aacatatcat caacaataag aaatcacctt
     1201 ctaacatcat ccaaaaatat aaaaacacac ccatcaccaa acatggacgt aacaagtcat
     1261 cgtcgtttat tccagaaaga cggaatagga ttgagccaaa caggaaaagc aacacaactt
     1321 gtcattatgt cgcatggtgg atggaaagag atctcccatc cacaaacact attcacgcgt
     1381 caaaaaggcg atggatggac tgtagtcccc aaaaacctaa gaattgattt ttatacaaaa
     1441 gacaacgact tcacaaaggg actaagcgtt ctttcagagg taaacaaacg ccatactgaa
     1501 gctcaaaaag ggttaacacc atcactaaac ataagcaaag atgacctaaa agttctagcg
     1561 aacgcgcgca atatacctca atcaaaatta gaagaagaaa tgatgtcaca agccatatat
     1621 agaaaagaat acgcaacaag taatgagaag ataaaaaact atgctctata ttaccatgaa
     1681 caagcccaaa atattataca aagacatcaa gatggcttag gaaacaaaaa tattgatata
     1741 gcatttataa ctgataaaaa tcataagaag cacctttctg acatatttaa agtaataaat
     1801 gaatcaggag taaaatatga tgtaattcac tttggcgctt gccgagtaaa tagagaggag
     1861 aaataatcat catttaccat aatcccttaa ttgtacgcac cactgaaacg cgctgaacgc
     1921 gattctgacg cagacaccac aaaaatagat gttttacccc ggaaaaacag gaaggatgcg
     1981 tcaggatcgt tttcagctcg ctgcatagct atgcatgaaa gcgaatggag atcactttgg
     2041 gagcttaccg tgttcatacc gtctgttttc aacagttttc tccccgggaa gctaatctgc
     2101 cataagcctg gataacaggg cacggtgata ctccgtaata gcgatcagca cctccgcata
     2161 ctccctgtcc ccgatacgct tgccgtcgat aaagagtttt ttctgtaacg cccccagtct
     2221 cataacttct ttcagcaccc gatcatcagt cagtgagtta acgttcttac cgagagctgc
     2281 cgcccgtaaa aaaccagaaa cggtcttgcc gcattcagca gccctttttc tgatttcctg
     2341 gtcttcttct gccgtcagac gaacagggcg actgatagcc cgcctgcgcg tattacttcc
     2401 acttcgtttt gtcataaaac atggctccgt atctgacacg gggtgtcggg gcgaagccct
     2461 gaccagggta attgtaatag cgtgcatgta tgcgcggtat aacaattaca catcctgtcc
     2521 tgtcagcaag ttcgaattac cgacaaaggc acggcagttt ttttggcagt gacagtattg
     2581 tcaggcagaa atacccgtca atgcgtcaga cggcagaata ccggcggtaa aacagtcgaa
     2641 aagtggtacg cgatataatc acacaacgca gatgacagac agaacggaga
//
