LOCUS       NZ_CP147124             1408 bp    DNA     circular CON 22-APR-2024
DEFINITION  Escherichia coli strain KMi029 plasmid pKMi029_15, complete
            sequence.
ACCESSION   NZ_CP147124
VERSION     NZ_CP147124.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN39992787
            Assembly: GCF_038396365.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1408)
  AUTHORS   Gomi,R.
  TITLE     Genomic analysis of environmental Escherichia coli carrying
            transferable quinolone resistance determinants
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1408)
  AUTHORS   Gomi,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-MAR-2024) Department of environmental engineering,
            Kyoto University, KyotoDaigakuKatsura, Nishikyo-ku, Kyoto-city
            615-8540, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 150x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_038396365.1-RS_2024_04_20
            Annotation Date                   :: 04/20/2024 18:15:29
            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)                     :: 4,937
            CDSs (total)                      :: 4,819
            Genes (coding)                    :: 4,584
            CDSs (with protein)               :: 4,584
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 235
            CDSs (without protein)            :: 235
            Pseudo Genes (ambiguous residues) :: 0 of 235
            Pseudo Genes (frameshifted)       :: 56 of 235
            Pseudo Genes (incomplete)         :: 161 of 235
            Pseudo Genes (internal stop)      :: 45 of 235
            Pseudo Genes (multiple problems)  :: 31 of 235
            Pseudo Genes (short protein)      :: 4 of 235
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP147124.1.
            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..1408
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KMi029"
                     /isolation_source="river water"
                     /db_xref="taxon:562"
                     /plasmid="pKMi029_15"
                     /geo_loc_name="Japan"
                     /collection_date="2011"
                     /collected_by="Ryota Gomi"
     gene            join(1265..1408,1..351)
                     /locus_tag="WAZ84_RS24680"
                     /old_locus_tag="WAZ84_24675"
     CDS             join(1265..1408,1..351)
                     /locus_tag="WAZ84_RS24680"
                     /old_locus_tag="WAZ84_24675"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="HTH domain-containing protein"
                     /protein_id="WP_045289185.1"
                     /translation="MLVSTETQKKQRLLDLQEKDRKNASESLQEQKNANFTQVYPLGWK
                     RLRELFRLNSGAAELYSMLAENIDGACGAVVADQAYLASLMGVSRQTISKYIKFLESQL
                     VLVKIPVAGKVCAYALNPHEVWKGYDNAKPHAAFLTKTLVNKDGDIQRRIMAMFAGKDD
                     E"
                     /name="HTH domain-containing protein"
     gene            344..583
                     /locus_tag="WAZ84_RS24685"
                     /old_locus_tag="WAZ84_24680"
     CDS             344..583
                     /locus_tag="WAZ84_RS24685"
                     /old_locus_tag="WAZ84_24680"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_109390876.1"
                     /translation="MSEAADTLKSALRLITEMIDILENSDDAEAPQAFFEAYHEANGQL
                     NYAVYQALHPLLRAQSGQGSPSATAKRPDLDGLE"
                     /name="hypothetical protein"
ORIGIN
        1 gagcttttca ggctcaattc aggggcagca gagctgtact ctatgcttgc ggaaaatatc
       61 gatggtgcct gcggtgcagt tgtagcagat caggcatatc tagcaagttt gatgggtgtt
      121 tcaaggcaga caatatctaa atatatcaaa ttcttagagt cgcaactggt gctagttaaa
      181 ataccagttg caggcaaagt ttgcgcttat gcactaaatc cccatgaagt ctggaaagga
      241 tatgacaacg ccaagcctca tgcggctttc ctaacaaaaa cactggtcaa caaagacggt
      301 gacatccagc gaagaatcat ggcgatgttt gcaggtaaag acgatgagtg aagccgcaga
      361 cacactaaaa tcggctctcc gactgattac agagatgatc gacatacttg aaaatagcga
      421 tgatgcagaa gctccccaag cattttttga ggcttaccac gaagcgaatg gtcaattgaa
      481 ttatgcggta tatcaggctc tacacccgct tttgagagcg caaagcggtc aaggttcgcc
      541 atcggcgacc gcgaagcggc ctgaccttga cggcttggag tgaaccccac cattggcgaa
      601 ggtggttggt ttcacgaagt gaggccaacc acctgttaag ccgcccttga cgttaacctt
      661 cccgaacatc agaaatccct gcgaaaattc ctaacagcat ccgagaaaat tcctaaccag
      721 cactgcgaaa attcctggaa ggcgcactta gtagtttctc cgaaactgtg ctcaaaccaa
      781 aatcaaaaac accaatgcag gatagacaga ccactagaga ttgcatgcaa tctctaggct
      841 gtcacctgag cctgccgcag gctcttttaa aatcaaaacc tgcttaacag gtggttgcgc
      901 tcactgcgtg atcacaacca cctcccgcaa gtgtgatcgg tcttttttgg ggtcaaggtc
      961 aggccgcttc gcggtcgccg atggcgaacc ttgaccccaa aaatgcccga ccaaagggag
     1021 ggagctactc cgaagatccc ggtgcgagca tcgggatctt tagataagaa gggaattatt
     1081 tgtatgttat tgttttttat tatgtttcat atttacgttg taaacttata gggtttacaa
     1141 cgttgtaaag ctctatgggg tttacagatt ttaacagcat gtaatcaaaa cgcgacatct
     1201 tgtaaaccaa aaacgagggt gttatgttcg gtctaggtta catcatgtaa acaggggtgg
     1261 ttgtatgtta gtcagtacag agacgcaaaa aaaacaacgg ctgttagatc tccaggagaa
     1321 agaccgtaaa aacgcctcag agagcctaca agagcaaaag aacgcaaact tcactcaggt
     1381 ataccctttg ggctggaaac gtcttaga
//
