LOCUS       NZ_CP061366             2089 bp    DNA     circular CON 16-APR-2024
DEFINITION  Shigella sonnei strain 6207 plasmid unnamed3, complete sequence.
ACCESSION   NZ_CP061366
VERSION     NZ_CP061366.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16084720
            Assembly: GCF_014725795.1
KEYWORDS    RefSeq.
SOURCE      Shigella sonnei
  ORGANISM  Shigella sonnei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Shigella.
REFERENCE   1  (bases 1 to 2089)
  AUTHORS   Guglielmino,C.J.D.
  TITLE     pM2901 in Shigella sonnei
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2089)
  AUTHORS   Guglielmino,C.J.D.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-SEP-2020) Public Health Microbiology, Queensland
            Health Forensic and Scientific Services, PO Box 594, Archerfield,
            QLD 4108, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2020
            Assembly Method :: Unicycler v. AUG-2020; Flye v. AUG-2020
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50.0x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_014725795.1-RS_2024_04_16
            Annotation Date                   :: 04/16/2024 07:52:24
            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)                     :: 5,102
            CDSs (total)                      :: 4,977
            Genes (coding)                    :: 4,392
            CDSs (with protein)               :: 4,392
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 585
            CDSs (without protein)            :: 585
            Pseudo Genes (ambiguous residues) :: 0 of 585
            Pseudo Genes (frameshifted)       :: 168 of 585
            Pseudo Genes (incomplete)         :: 395 of 585
            Pseudo Genes (internal stop)      :: 99 of 585
            Pseudo Genes (multiple problems)  :: 74 of 585
            Pseudo Genes (short protein)      :: 3 of 585
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP061366.1.
            Bacteria and source DNA available from Queensland Health.
            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..2089
                     /organism="Shigella sonnei"
                     /mol_type="genomic DNA"
                     /strain="6207"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:624"
                     /plasmid="unnamed3"
                     /geo_loc_name="Australia"
                     /lat_lon="27.5 S 153 E"
                     /collection_date="2020"
                     /collected_by="Queensland Health"
     gene            complement(join(1310..2089,1..186))
                     /locus_tag="IC759_RS00825"
                     /old_locus_tag="IC759_00820"
     CDS             complement(join(1310..2089,1..186))
                     /locus_tag="IC759_RS00825"
                     /old_locus_tag="IC759_00820"
                     /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"
     gene            complement(1040..1306)
                     /locus_tag="IC759_RS00830"
                     /old_locus_tag="IC759_00825"
     CDS             complement(1040..1306)
                     /locus_tag="IC759_RS00830"
                     /old_locus_tag="IC759_00825"
                     /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"
     Typing          complement(1651..1882)
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 tccggtttcc atgatggtag accaaccaaa acgtaacaaa ccgctacagg aggccatacg
       61 gagtgcatag cgctcgaatt cagcagcagt ctggtagata cccccgacag aatcggtaag
      121 cgtgcgctgg gtatcccaaa ctgcatcacg ggggctgtag tccgaaagga atttatcttc
      181 tgacattaag cctgctccga tctgggcagg ctgtgatttg atgtggtata ttcatcacgt
      241 acctgtgcat tgcgagccag tacatgtcac cagagtttgc cgctgaggtg acacattcga
      301 aatgttgggg agtgttgacg cactccccaa cgccgattaa aaacgcctca attctgctcc
      361 attttctttg acctgtcaaa acccactcaa agcctcgtca ttactgggct aaaccactat
      421 ttcatatccg ccatttatcc cttaagtata aatacaagga tcacgcgcga gaattgcgca
      481 aaaaataacc acaattttaa ccccccaaaa caagcacccc cgaacggctt accccaacct
      541 tttccacaca cccgatcacc aaaacaggga ataaaaacaa aaccctgtct tacaggtgga
      601 tggcctcact tcgtgaaacc atccaccccg cataagtttt ttaatcggtg gtgtcgtcaa
      661 tcactaaatc ggaaccccaa aggggacccc cacgatttag catttgacga gattaactct
      721 cggagatggc atcatgcttt taacggactt taaaaaacgg tgaacggatg cggattttaa
      781 tccgtgtctg tgaggcgttg agcaacgagc aaagcgaggc ggtagaaaga gagccagcgg
      841 caggctcagg acgataatcc ggggaaaatg taccactcgc agagtgttaa catttgacat
      901 cggattgtct atcctgcatt ggtgtcgagt tggcaaggct gaggataatg ctgaggataa
      961 tgcaggatag acagagcact agagattgca tgcaatctcg tacctatcac ctcagcctgc
     1021 cgctggctct tttccagaac taagaatgcg ttcttaaaaa tccaaacttg ataccgttta
     1081 aatctatttt cacaaaaaga gtttttaccc tctcgtttgt tttctgaata tataaaatta
     1141 attcatcctc aaaaccttcg tgcggatgaa aaccaaatgt gccaaaactt aatccatcaa
     1201 taagcaaaat aaggttttta aacctgtcag gaatcaccgc ttcacttctt aaaaaaaata
     1261 aaccaatagt cttatttcca ttcaggtatt caatattaat attcatacgt taatccgatt
     1321 tatccttctc aggggcgcgt ttgtaacgcc gtttacctga atcccagaca aacgccgtcc
     1381 gcttcccgtc atcagtgcca tcccctacat cgtcggcaat gacaagatcc tcattggttt
     1441 ctcgatccaa ctggaggacg ttttttagcg ccccaccggt cgagataaaa cggcgcttgt
     1501 gaagctgccg cgtcagctca agaaaccact caggatcgtt tgccatatct tccggtttaa
     1561 cggagtattt cagcgtttca gcaaccgcgc tttgcagttg ctcggcaacg ttggccacaa
     1621 cctcacctgt cttagttttt actgcccgaa tatcgatatt cggctcatag ttcacccgca
     1681 agcaatcgcg ccagagttct acccaacgtt cgtgcttaac gtagttcttc cctttaaacc
     1741 aagaaggttg caccatcagc agacagtgaa aatgcggatg tgcgctgcca tccttacctc
     1801 gcgtcacctc cgtagccctg atccacccct gaacaggtga tagctccttt cgcttttcca
     1861 ttcgcttaaa cgccgcattc attgctgtaa ggactgttcc aagttcacct atctcgcagt
     1921 tcctgacagt taacgtcaga aacaaccatc gggaagacgg gtaatccaca acgattttcg
     1981 gtagagcctg ataaaaacgg gcttgccaca tgagggttct tctccactgg cagacagggc
     2041 aatgacggac acggcaaaat tgcgcactac gaagccgtag gcgcgtttc
//
