LOCUS       NZ_CP151341             2690 bp    DNA     circular CON 18-APR-2024
DEFINITION  Shigella sonnei strain R19.2680 plasmid pR19.2680_2.6k, complete
            sequence.
ACCESSION   NZ_CP151341
VERSION     NZ_CP151341.1
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 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  JOURNAL   Unpublished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_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
            CP151341.1.
            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="R19.2680"
                     /db_xref="taxon:624"
                     /plasmid="pR19.2680_2.6k"
                     /collected_by="Taiwan CDC"
     gene            103..726
                     /locus_tag="AADX56_RS25465"
                     /old_locus_tag="AADX56_25485"
     CDS             103..726
                     /locus_tag="AADX56_RS25465"
                     /old_locus_tag="AADX56_25485"
                     /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(952..1275)
                     /gene="mobA"
                     /locus_tag="AADX56_RS25470"
                     /old_locus_tag="AADX56_25490"
     CDS             complement(952..1275)
                     /gene="mobA"
                     /locus_tag="AADX56_RS25470"
                     /old_locus_tag="AADX56_25490"
                     /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"
     gene            1561..1755
                     /locus_tag="AADX56_RS25475"
                     /old_locus_tag="AADX56_25495"
     CDS             1561..1755
                     /locus_tag="AADX56_RS25475"
                     /old_locus_tag="AADX56_25495"
                     /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            2253..2414
                     /locus_tag="AADX56_RS25480"
                     /old_locus_tag="AADX56_25500"
     CDS             2253..2414
                     /locus_tag="AADX56_RS25480"
                     /old_locus_tag="AADX56_25500"
                     /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"
     Typing          complement(1285..1523)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.72e-122"
     Typing          1799..2325
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.472"
                     /coverage="96.0"
                     /evalue="0.0"
     Typing          complement(956..1275)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.196"
                     /coverage="100.0"
                     /evalue="7.599999999999999e-62"
ORIGIN
        1 atgaaaatac tcaattcgaa tctcataaca aacatatcat caacaataag aaatcacctt
       61 ctaacatcat ccaaaaatat aaaaacacac ccatcaccaa acatggacgt aacaagtcat
      121 cgtcgtttat tccagaaaga cggaatagga ttgagccaaa caggaaaagc aacacaactt
      181 gtcattatgt cgcatggtgg atggaaagag atctcccatc cacaaacact attcacgcgt
      241 caaaaaggcg atggatggac tgtagtcccc aaaaacctaa gaattgattt ttatacaaaa
      301 gacaacgact tcacaaaggg actaagcgtt ctttcagagg taaacaaacg ccatactgaa
      361 gctcaaaaag ggttaacacc atcactaaac ataagcaaag atgacctaaa agttctagcg
      421 aacgcgcgca atatacctca atcaaaatta gaagaagaaa tgatgtcaca agccatatat
      481 agaaaagaat acgcaacaag taatgagaag ataaaaaact atgctctata ttaccatgaa
      541 caagcccaaa atattataca aagacatcaa gatggcttag gaaacaaaaa tattgatata
      601 gcatttataa ctgataaaaa tcataagaag cacctttctg acatatttaa agtaataaat
      661 gaatcaggag taaaatatga tgtaattcac tttggcgctt gccgagtaaa tagagaggag
      721 aaataatcat catttaccat aatcccttaa ttgtacgcac cactgaaacg cgctgaacgc
      781 gattctgacg cagacaccac aaaaatagat gttttacccc ggaaaaacag gaaggatgcg
      841 tcaggatcgt tttcagctcg ctgcatagct atgcatgaaa gcgaatggag atcactttgg
      901 gagcttaccg tgttcatacc gtctgttttc aacagttttc tccccgggaa gctaatctgc
      961 cataagcctg gataacaggg cacggtgata ctccgtaata gcgatcagca cctccgcata
     1021 ctccctgtcc ccgatacgct tgccgtcgat aaagagtttt ttctgtaacg cccccagtct
     1081 cataacttct ttcagcaccc gatcatcagt cagtgagtta acgttcttac cgagagctgc
     1141 cgcccgtaaa aaaccagaaa cggtcttgcc gcattcagca gccctttttc tgatttcctg
     1201 gtcttcttct gccgtcagac gaacagggcg actgatagcc cgcctgcgcg tattacttcc
     1261 acttcgtttt gtcataaaac atggctccgt atctgacacg gggtgtcggg gcgaagccct
     1321 gaccagggta attgtaatag cgtgcatgta tgcgcggtat aacaattaca catcctgtcc
     1381 tgtcagcaag ttcgaattac cgacaaaggc acggcagttt ttttggcagt gacagtattg
     1441 tcaggcagaa atacccgtca atgcgtcaga cggcagaata ccggcggtaa aacagtcgaa
     1501 aagtggtacg cgatataatc acacaacgca gatgacagac agaacggaga aaacagaaag
     1561 atgaacaagc agcagcaaac cgtactcaac atggcgggat tcataaaaag ccagagcctg
     1621 acgctgctcg aaaagctgga cgcactcgat gccgacgaac aggccgccat gtgtgagaag
     1681 ctgcacgaaa tcgcggaaga actccagaac agcatacaga cacgctttga agcggaaagt
     1741 ggcaccgggg tataacagtg tatcctgctc cagacaggat gcagaacggt ataccggtgc
     1801 gtaaggagaa aatgtcacat aaggcgctct tccgcttcct cgctcactga ctcgctacgc
     1861 tcggtcgttc gactgcggcg agcggtgtca gctcactcaa aggcggtaat gcggttatcc
     1921 acagaatcag gggataacgc cggaaagaac atgtgagcaa aaagccgaag gcagggacaa
     1981 aggccgcgca ggtggcgttt ttccataggc tccgcccccc tgacgagcat cacaaaaatc
     2041 gacgctcaag tcagaggtgg cgaaacccga caggactata aagataccag gcgtttcccc
     2101 ctggaagctc cctcgtgcgc tctcctgttc cgaccctgcc gtttaccgga tacctgtccg
     2161 cctttctccc ttcgggaagc gtggcgcttt ctcatagctc acgctgttgg tatctcggcc
     2221 cggtgtaggt cgttcgctcc aagctgggct gtgtgcacga accccccgtt cagcccgacc
     2281 gctgcgcctt atccggtaac tatcgtcttg agtccaaccc ggtaagacac gaattatcgc
     2341 cactggcagc agccactgat aaccgaatta gaggagtaag acttgaagtc atgcgcctgt
     2401 taaggctaaa ctgaaagaac aagttttggt gactgcgctc ctccaagcca gttacctcgg
     2461 ctcaaagagt tggtagctct gagaaccttc gaaaaaccgc cttgcagggc ggttttttcg
     2521 tttacaggca gcagattacg cgcagaaaaa aaggatctca agaagaacct ttaatttttt
     2581 ttcacacttg gtatcctact ttaacccata aaataaacac ttacaccgac acacccttaa
     2641 acaaaagaaa aaaaacaata aaaaacaccg caaaaatgga ttgttaacaa
//
