LOCUS       NZ_CP147118             3360 bp    DNA     circular CON 22-APR-2024
DEFINITION  Escherichia coli strain KMi029 plasmid pKMi029_9, complete sequence.
ACCESSION   NZ_CP147118
VERSION     NZ_CP147118.1
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 3360)
  AUTHORS   Gomi,R.
  TITLE     Genomic analysis of environmental Escherichia coli carrying
            transferable quinolone resistance determinants
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3360)
  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
            CP147118.1.
            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..3360
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KMi029"
                     /isolation_source="river water"
                     /db_xref="taxon:562"
                     /plasmid="pKMi029_9"
                     /geo_loc_name="Japan"
                     /collection_date="2011"
                     /collected_by="Ryota Gomi"
     gene            complement(join(2842..3360,1..417))
                     /locus_tag="WAZ84_RS24580"
                     /old_locus_tag="WAZ84_24575"
     CDS             complement(join(2842..3360,1..417))
                     /locus_tag="WAZ84_RS24580"
                     /old_locus_tag="WAZ84_24575"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016235474.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_045626452.1"
                     /translation="MATYHLSVKFGGKGKALAHASYITREDKFSQRQDLEHTEHGNMPE
                     WARDEPAHFWQAADAFERANGSTYREIEIALPRELNEAQRLALVRDFVKQETGDKHAWT
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERSPEQYFRRYNAKFPARGGARKDSGHNL
                     TPTEQKQALKALRERWERTHNAHMKRYGFEQGFIDSRSLKTQGIDRKPEQHLGFEAAGR
                     LDDSQRQDIKDSRTFSVVDVPEQAKHIDHSDRSWMNASGIEVNRKELVRSLTHDISQQY
                     GREMAARVTKQGNVEIERVKSLSRGFSISR"
                     /name="MobA/MobL family protein"
     gene            584..970
                     /locus_tag="WAZ84_RS24585"
                     /old_locus_tag="WAZ84_24580"
     CDS             584..970
                     /locus_tag="WAZ84_RS24585"
                     /old_locus_tag="WAZ84_24580"
                     /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_045282373.1"
                     /translation="MRISNVEWLKKRIAFIRKLGEKTARQRQIIDLLDDEASLSETERR
                     LLHVLATAEKNALQERDAAQKKAVQARISGQKNRRERNHRLFLAAGLMIDAGLVDTKTG
                     ELNFDHEKLLTALKRVRYDLETSA"
                     /name="hypothetical protein"
     gene            complement(2309..2839)
                     /locus_tag="WAZ84_RS24590"
                     /old_locus_tag="WAZ84_24585"
     CDS             complement(2309..2839)
                     /locus_tag="WAZ84_RS24590"
                     /old_locus_tag="WAZ84_24585"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000168766.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_012634455.1"
                     /translation="MASTEEKLLTLLLSAEHLKEAAKEQQKAVADSLAVARETLKGYRE
                     ISDSVAQQVRDEVRQEVQKMDVAGLIGERISADFQRLEKSVGNMKINADALDKEISIIR
                     SNIIAEYNTLRGYSWKWFAGVAVAFVVLIFATSWFVKTELQDNYNASAAVYQKVADLEK
                     LLTTEQKPEKKKN"
                     /name="hypothetical protein"
     Typing          complement(2..417)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="89.928"
                     /coverage="100.0"
                     /evalue="4.54e-81"
ORIGIN
        1 ttcgggactg cgctcaatac cgtcattgac gcgctggctc atcatgatat gggcgtgcgg
       61 ctgttcgccg ccgtcaatgc tggctttcgg attgtggatc gcaaacgtcc atgcatgttt
      121 gtcgcccgtt tcctgcttca caaaatcccg gacaagcgcc agccgctgcg cttcattcag
      181 ctcgcggggt agagcgatct caatttccct gtacgttgaa ccgttggcac gttcgaacgc
      241 atccgcagcc tgccagaaat gggcgggttc atctctcgcc cattccggca tattgccgtg
      301 ttcggtgtgc tcgagatcct ggcgctggct gaacttatct tcccgcgtaa tgtaactggc
      361 atgagcaagg gctttaccct tgccgccaaa tttcacgctg agatgatacg ttgccatgtt
      421 gtgtcagccc ccggcagggc gcactgtttc tgcccgcagg gagaaacata taagtgcgct
      481 ttactctaat ttaaagaatt atgagtaaag ataagtcatg cgacttctga ccgcaagtta
      541 tatactttcc ccgtcggaaa tatcgggatg gggaagttaa acgatgcgga tcagtaacgt
      601 cgaatggctt aaaaagcgca tagccttcat cagaaagctg ggagaaaaaa cggcacggca
      661 acggcagatt atcgatctgc tggatgatga agcttcgctc agtgagactg aaagacgact
      721 gctccacgtt ctggcaaccg ctgaaaaaaa cgcgttgcag gaacgggatg ccgcacagaa
      781 aaaggcggtt caggcgcgga tttcagggca gaaaaaccgc agggaacgca atcacagact
      841 gtttctggcg gctggtctga tgattgacgc gggactggtt gatacaaaaa cgggtgagtt
      901 gaattttgac cacgaaaaat tactgactgc gctgaaacgg gtacgctacg atctggaaac
      961 atcggcgtga acgtgcattc tgcaaggccg gagaaatgcc gcttcctcgc tcactgactc
     1021 gcgtcgctcg gtcgttcggc tgcggcgagc ggtagggatt ttcggatagg agcatgaatt
     1081 ttcttgctcc atatgtacaa aagccccgtg acagaatcac ggggcttgag tactctaatt
     1141 cttgcagata cctgccagga tcagacgtca caatcaaatc ctagcagggc tggctaggaa
     1201 tgtcactacc agcttaatac cattcaacga cattaaaccc atatctgcac cttgactctc
     1261 aggtctacgc cccggactcc ggcaggataa acaggcaagc ggtgggaacc tgaccagctc
     1321 gggaaagaag ctggctctac ccggtctcac gttaaccaat aacgtacctg ataaagtgag
     1381 agtgaaggca gcggttgcgg tgaagcgtga ttgccaaggt ctggcgcaac acccacaaaa
     1441 tcgaagcagc atacgaacgg cctgatgctg gtcgcttcgc tccccgtttt ctggtgtacc
     1501 caccacgggg gcattaggct ttctttgccc taatatgggt ttgcgactct caaatccggg
     1561 ttgtggtgta acacatatcg ccttcaccga aatgatgtga agacttcatc attttagcaa
     1621 tcacaggttg ccctaatcac ttaacgctat tattgttcta ttgaagcctt aacctaaacc
     1681 cactcacaaa acgtggatta tctggttagt gattcgcagc aacaaagcgt cccggttcaa
     1741 aacgaatcgt aagacgtagt ttcccttgat gtagggcttg ccgatggaac aggcggcttt
     1801 tttattctcc ggcgtggggg gggatgctgt tgacagaaat ggaaataagt aacatccgga
     1861 atattacgct tattgcccgg cgtcttgcct ggattaatgc caaaagaact catatcgata
     1921 taccatcgtt tgcagaactg cttttctccg gccaaaaagc gctgttcttc gaacaatata
     1981 attattttca ctcacgacgg tacacaacgg caggcacgtc aaagccaccg gatttaccat
     2041 aacatccgtt gcgtgcaccg cctcagaggc tctcagggcg gttttaagtc ctgagccata
     2101 aaaacccccg gcttctcacc gaaaaccgct cagaatcgca taccgtgatt ttcagcccca
     2161 tgcataacca tgcacctgac tgactggcga gaacttccgg cctgaattca ggccggaagt
     2221 ctcaaaagac gccccaaact cggctgaaaa cggtgaacgg gtgcgcaatt tattgtgcga
     2281 acgtgaggcg ttggacaagc gcagcgcgtc agttcttttt cttttccggt ttctgttccg
     2341 ttgtcagcag cttttcaagg tctgccactt tctgatagac ggcagcagac gcgttgtaat
     2401 tgtcctgtag ttccgttttc acaaaccagc ttgtggcaaa tatcagtacg acaaaggcaa
     2461 ccgcaacccc agcaaaccac ttccagctgt aaccccgcag cgtgttgtac tccgcgatga
     2521 tgttactgcg gataatggaa atttccttgt ccagcgcgtc cgcattgatt ttcatgttcc
     2581 cgacggattt ttccagacgc tgaaaatcag cgctgatacg ctcgccaatc agccccgcaa
     2641 catccatttt ctgcacttcc tgccggactt catcccttac ctgctgtgcc acactgtccg
     2701 atatttcccg gtagcctttc agggtttccc ttgccaccgc cagcgaatcc gccacggctt
     2761 tctgctgctc ttttgcggcc tctttcagat gctccgccga cagcaggagt gtgagaagtt
     2821 tttcttcggt gctcgccata gttacctgct tatggaaaat ccgcgtgaca gggatttcac
     2881 gcgctctatt tcaacatttc cctgttttgt gacccgtgca gccatctccc gcccgtactg
     2941 ctgcgagata tcatgcgtca gagatctgac cagttccttc cggtttacct cgataccgct
     3001 ggcattcatc cagctacggt cgctgtggtc gatatgtttc gcctgttcag gcacatccac
     3061 gactgaaaac gtccggctgt ctttaatatc ctgcctctgg ctgtcgtcca gtcgtccggc
     3121 tgcttcaaaa ccgagatgct gttccggttt ccggtcgata ccctgtgttt tcagtgaccg
     3181 gctatcaata aaaccctgct caaagccata tcgtttcata tgcgcgttgt gcgtacgctc
     3241 ccagcgctcc cgcagggctt tcagtgcctg tttttgttct gtaggggtta aattatgccc
     3301 tgagtccttg cgcgcgccgc cacgcgccgg aaatttggcg ttatagcgcc tgaaatactg
//
