LOCUS       NZ_CP091690             2101 bp    DNA     circular CON 20-MAY-2024
DEFINITION  Escherichia coli strain KKo003 plasmid pKKo003_8, complete sequence.
ACCESSION   NZ_CP091690
VERSION     NZ_CP091690.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25236405
            Assembly: GCF_022494745.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2101)
  AUTHORS   Gomi,R.
  TITLE     Genome sequencing of blaCTX-M-carrying Escherichia coli isolates
            recovered from river water in Japan
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2101)
  AUTHORS   Gomi,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-JAN-2022) Department of Environmental Engineering,
            Kyoto University, Kyotodaigakukatsura, Nishikyo-Ku, Kyoto-City
            615-8540, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_022494745.1-RS_2024_05_20
            Annotation Date                   :: 05/20/2024 03:45:38
            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)                      :: 4,983
            Genes (coding)                    :: 4,757
            CDSs (with protein)               :: 4,757
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 226
            CDSs (without protein)            :: 226
            Pseudo Genes (ambiguous residues) :: 0 of 226
            Pseudo Genes (frameshifted)       :: 84 of 226
            Pseudo Genes (incomplete)         :: 158 of 226
            Pseudo Genes (internal stop)      :: 38 of 226
            Pseudo Genes (multiple problems)  :: 48 of 226
            Pseudo Genes (short protein)      :: 1 of 226
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP091690.1.
            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="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KKo003"
                     /isolation_source="river water"
                     /db_xref="taxon:562"
                     /plasmid="pKKo003_8"
                     /geo_loc_name="Japan"
                     /lat_lon="34.6 N 135.8 E"
                     /collection_date="2011"
                     /collected_by="Kyoto University"
     gene            complement(583..849)
                     /locus_tag="L6L54_RS25370"
                     /old_locus_tag="L6L54_25370"
     CDS             complement(583..849)
                     /locus_tag="L6L54_RS25370"
                     /old_locus_tag="L6L54_25370"
                     /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            complement(853..1818)
                     /locus_tag="L6L54_RS25375"
                     /old_locus_tag="L6L54_25375"
     CDS             complement(853..1818)
                     /locus_tag="L6L54_RS25375"
                     /old_locus_tag="L6L54_25375"
                     /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          complement(1194..1425)
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 agaattgcgc aaaaaataac cacaatttta accccccaaa acaagcaccc ccgaacggct
       61 taccccaacc ttttccacac acccgatcac caaaacaggg aataaaaaca aaaccctgtc
      121 ttacaggtgg atggcctcac ttcgtgaaac catccacccc gcataagttt tttaatcggt
      181 ggtgtcgtca atcactaaat cggaacccca aaggggaccc ccacgattta gcatttgacg
      241 agattaactc tcggagatgg catcatgctt ttaacggact ttaaaaaacg gtgaacggat
      301 gcggatttta atccgtgtct gtgaggcgtt gagcaacgag caaagcgagg cggtagaaag
      361 agagccagcg gcaggctcag gacgataatc cggggaaaat gtaccactcg cagagtgtta
      421 acatttgaca tcggattgtc tatcctgcat tggtgtcgag ttggcaaggc tgaggataat
      481 gctgaggata atgctgagga taatgcagga tagacagagc actagagatt gcatgcaatc
      541 tcgtacctat cacctcagcc tgccgctggc tcttttccag aactaagaat gcgttcttaa
      601 aaatccaaac ttgataccgt ttaaatctat tttcacaaaa agagttttta ccctctcgtt
      661 tgttttctga atatataaaa ttaattcatc ctcaaaacct tcgtgcggat gaaaaccaaa
      721 tgtgccaaaa cttaatccat caataagcaa aataaggttt ttaaacctgt caggaatcac
      781 cgcttcactt cttaaaaaaa ataaaccaat agtcttattt ccattcaggt attcaatatt
      841 aatattcata cgttaatccg atttatcctt ctcaggggcg cgtttgtaac gccgtttacc
      901 tgaatcccag acaaacgccg tccgcttccc gtcatcagtg ccatccccta catcgtcggc
      961 aatgacaaga tcctcattgg tttctcgatc caactggagg acgtttttta gcgccccacc
     1021 ggtcgagata aaacggcgct tgtgaagctg ccgcgtcagc tcaagaaacc actcaggatc
     1081 gtttgccata tcttccggtt taacggagta tttcagcgtt tcagcaaccg cgctttgcag
     1141 ttgctcggca acgttggcca caacctcacc tgtcttagtt tttactgccc gaatatcgat
     1201 attcggctca tagttcaccc gcaagcaatc gcgccagagt tctacccaac gttcgtgctt
     1261 aacgtagttc ttccctttaa accaagaagg ttgcaccatc agcagacagt gaaaatgcgg
     1321 atgtgcgctg ccatccttac ctcgcgtcac ctccgtagcc ctgatccacc cctgaacagg
     1381 tgatagctcc tttcgctttt ccattcgctt aaacgccgca ttcattgctg taaggactgt
     1441 tccaagttca cctatctcgc agttcctgac agttaacgtc agaaacaacc atcgggaaga
     1501 cgggtaatcc acaacgattt tcggtagagc ctgataaaaa cgggcttgcc acatgagggt
     1561 tcttctccac tggcagacag ggcaatgacg gacacggcaa aattgcgcac tacgaagccg
     1621 taggcgcgtt tctccggttt ccatgatggt agaccaacca aaacgtaaca aaccgctaca
     1681 ggaggccata cggagtgcat agcgctcgaa ttcagcagca gtctggtaga tacccccgac
     1741 agaatcggta agcgtgcgct gggtatccca aactgcatca cgggggctgt agtccgaaag
     1801 gaatttatct tctgacatta agcctgctcc gatctgggca ggctgtgatt tgatgtggta
     1861 tattcatcac gtacctgtgc attgcgagcc agtacatgtc accagagttt gccgctgagg
     1921 tgacacattc gaaatgttgg ggagtgttga cgcactcccc aacgccgatt aaaaacgcct
     1981 caattctgct ccattttctt tgacctgtca aaacccactc aaagcctcgt cattactggg
     2041 ctaaaccact atttcatatc cgccatttat cccttaagta taaatacaag gatcacgcgc
     2101 g
//
