LOCUS       NZ_CP147123             2029 bp    DNA     circular CON 22-APR-2024
DEFINITION  Escherichia coli strain KMi029 plasmid pKMi029_14, complete
            sequence.
ACCESSION   NZ_CP147123
VERSION     NZ_CP147123.1
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 2029)
  AUTHORS   Gomi,R.
  TITLE     Genomic analysis of environmental Escherichia coli carrying
            transferable quinolone resistance determinants
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2029)
  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
            CP147123.1.
            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..2029
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KMi029"
                     /isolation_source="river water"
                     /db_xref="taxon:562"
                     /plasmid="pKMi029_14"
                     /geo_loc_name="Japan"
                     /collection_date="2011"
                     /collected_by="Ryota Gomi"
     gene            complement(164..400)
                     /locus_tag="WAZ84_RS24665"
                     /old_locus_tag="WAZ84_24660"
     CDS             complement(164..400)
                     /locus_tag="WAZ84_RS24665"
                     /old_locus_tag="WAZ84_24660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001676031.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_031942344.1"
                     /translation="MTRLTNLTPAEKQFLDDAVAAAERASGKKLNQPNRHIVLNRARAQ
                     IESQRHADRQRALREEERQQAEFTWSRPRSPRR"
                     /name="hypothetical protein"
     gene            1101..1214
                     /locus_tag="WAZ84_RS24670"
                     /old_locus_tag="WAZ84_24665"
     CDS             1101..1214
                     /locus_tag="WAZ84_RS24670"
                     /old_locus_tag="WAZ84_24665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032634168.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHAKAPLAAATGN"
                     /name="hypothetical protein"
     gene            1522..>1704
                     /locus_tag="WAZ84_RS24675"
                     /old_locus_tag="WAZ84_24670"
                     /pseudo=""
     CDS             1522..>1704
                     /locus_tag="WAZ84_RS24675"
                     /old_locus_tag="WAZ84_24670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005161566.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="NINE protein"
                     /name="NINE protein"
     Typing          complement(567..740)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          726..1210
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.456"
                     /coverage="80.0"
                     /evalue="0.0"
ORIGIN
        1 ctcagcgcgt ttctgcggcc tcatgccgat ttccggcacc tttccccggg gaaaaccccg
       61 aaaaacgttc ctgatgattt ctgcgcgtct gcatggctat gcacggaaat gccttgcctg
      121 cagtttcatc acaaaactgc agcagaaacc tcataacagc cactcaccgg cgcggcgatc
      181 gcggacgtga ccaggtaaat tcggcctgct gccgttcttc ctcacgtaga gcgcgctgcc
      241 ggtcggcgtg ccgctgcgac tcaatctgcg ctcttgcccg gttgagcacg atatgtcggt
      301 tcggctggtt gagtttcttg ccggaagcac gctctgcagc tgcaacagca tcatcaagaa
      361 attgcttctc tgccggcgtc agattggtca gtcgcgtcat gtaggtctcc tgttcagcat
      421 cacgctggcc agtctgccag acaaggtgga agcaatgaag cagcggcgga atgtcagaac
      481 catcagaaac ggtgaacggg agcggatttt aatcaggtgc cgtgaagcgt tgggcaagcc
      541 gtcaggcgcg ccagtggtcc tggcgggttt cggggcgcag ccctgaacca gtcacgtagc
      601 gctagcggag tgtatactgg cttaatatgt tggcacggat gcggatgtca gtgaagtgct
      661 tcatgtagca ggagaaaaag gcggcaccgg cgcgtcagca gaacatgtag taacgggaga
      721 tgtgccgctt cctcgctcac tgactcgctg cgctcggtcg ttcggctgcg gcgagcggta
      781 ccggcttacg ggtgaggtgg aaatttcctg gtggatgcca ggaaggaact taacagggaa
      841 acgatgaggc tgcggcgaag ccgtttttcc ataggctccg cccccctgac aagcatcacg
      901 aaatctgacg ctcaaatcag tggtggcgaa acccgacagg acttaaagat accagacgtt
      961 tccccctggt ggctccctcg tgcgctctcc tgttcctgcc tttcggttta ccggtgtcat
     1021 tccgctgtta tggccgcgtt tatctcattc cacgcctgac actcagttcc gggtaggcag
     1081 ttcgctccaa gctggactgt atgcacgaac cccccgttca gtccgactgc tgcgccttat
     1141 ccggtaacta tcgtcttgag tccaacccgg aaagacatgc aaaagcgcca ctggcagcag
     1201 ccactggtaa ctgatttaga ggagatagtc ttgaagttat gcgccggtta aggctaaact
     1261 gaaaggacaa gttttggtga ctgcgctcct ccaagccagt tacctcggtt caaagagtta
     1321 gtagctcaga gaaccttcga aaaaccgcct tgcagggcgg ttttttcgtt tccagagcaa
     1381 gagattacga cgctacagaa aggatctcaa gaagatcctt caccataatg gaatctatcc
     1441 cacccgagca tataggatgc atatcgttat aaaacattgg atattatgca tcccaactaa
     1501 aaataagctc gaggataaaa aatgagttca atggtttact gccgaggatg cggcaaggaa
     1561 atacacgaaa cagcaaagtc atgcccacac tgcggagcca caaacgcctc ttcaggttca
     1621 ggtgaaaaaa gtagaatcgc agccgcgcta ttagcattct tccttggtgg atttggcgca
     1681 cataaatttt acttagggaa ggtgcgaata agtcaccaaa cgcaaaaaaa cgcctatgta
     1741 agtgattgaa tttaattgac taaaagtttc attttagttg cggagggtac ttattcgcac
     1801 cctccttagg taaaatagga cagggattcc tgtatctaat tttttgctgg acattcatac
     1861 ccgcgatcat cgcgtttatt gagtttatta tttatctatg cgattccgat gaaaaattcg
     1921 caagaaaata tggctaactc atagcaaaaa agccctgcgg ggcttttttt gtaccagtct
     1981 gtgaggcaca tttaccataa catcccttat cggtaccgcc taagacgct
//
