LOCUS       NZ_CP147120             2726 bp    DNA     circular CON 22-APR-2024
DEFINITION  Escherichia coli strain KMi029 plasmid pKMi029_11, complete
            sequence.
ACCESSION   NZ_CP147120
VERSION     NZ_CP147120.1
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 2726)
  AUTHORS   Gomi,R.
  TITLE     Genomic analysis of environmental Escherichia coli carrying
            transferable quinolone resistance determinants
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2726)
  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
            CP147120.1.
            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..2726
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KMi029"
                     /isolation_source="river water"
                     /db_xref="taxon:562"
                     /plasmid="pKMi029_11"
                     /geo_loc_name="Japan"
                     /collection_date="2011"
                     /collected_by="Ryota Gomi"
     gene            complement(join(1755..2726,1..45))
                     /gene="mobV"
                     /locus_tag="WAZ84_RS24620"
                     /old_locus_tag="WAZ84_24615"
     CDS             complement(join(1755..2726,1..45))
                     /gene="mobV"
                     /locus_tag="WAZ84_RS24620"
                     /old_locus_tag="WAZ84_24615"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_341857690.1"
                     /translation="MRSPDWLDGRQNEGVSMANYAIMRCKKLTGMGSVASALQHCYRER
                     ETPNADAERTPENYCSVSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWNEAT
                     PRQQAEFFARSEQWLEKKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGG
                     RSKMREDQSTYAESVKKLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPR
                     VLRKGIFTKDVEDQAAIAKRLSQAVNDGFAGTIAMASQSAQNAKRARDLQKTMDSQQKR
                     LQSVTEPFKGLSREQMTHILTMAQTFQQQNHDREKQRQLEREQERQQRQKTDRGISR"
                     /name="mobV"
     gene            604..1155
                     /locus_tag="WAZ84_RS24625"
                     /old_locus_tag="WAZ84_24620"
     CDS             604..1155
                     /locus_tag="WAZ84_RS24625"
                     /old_locus_tag="WAZ84_24620"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012209811.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_024262791.1"
                     /translation="MSLVRYKTNPFLDDMIVPVKGQKVQISKLGKDNNILVNQSTGEVH
                     GTHVTTYRKVDSEQFVKLFTANIALTFQLSSAGIKAFGVLLWVVQNKALSKDEVDLDSY
                     ALDEFYELHKDSEPPLRLSHPTFKRGINELEKAQIIAKTLRKGRYFINPNFVFNGDRVA
                     FTTVIERKKAETPEIKEISS"
                     /name="replication/maintenance protein RepL"
     gene            complement(1567..1758)
                     /locus_tag="WAZ84_RS24630"
                     /old_locus_tag="WAZ84_24625"
     CDS             complement(1567..1758)
                     /locus_tag="WAZ84_RS24630"
                     /old_locus_tag="WAZ84_24625"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001558245.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="antitoxin VbhA family protein"
                     /protein_id="WP_023063538.1"
                     /translation="MSEKQRREGFRKAEASLRLEGLDPSGTPHYELVKARIISGEISYE
                     QGRKEIFDYYVQKARSKE"
                     /name="antitoxin VbhA family protein"
     Typing          complement(1861..2726)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.194"
                     /coverage="86.0"
                     /evalue="0.0"
ORIGIN
        1 caccccctcg ttctggcgtc catccagcca gtcgggggat cgcattgcga tgcctccggc
       61 gggccactat caggatgata gtgtactcac tagactttgc tacgcaaaat cgttcgggca
      121 gcttgctgcc agaaggtcaa aatcaacggc ggtctggcag gtggaaggcg tcgctccgcg
      181 ccacccccca ccactgccaa gcctgtttta tccggtgagt cgtcaagggt aaatggcact
      241 cgcttcgctc gcccctgacg aaatcaggca atgaatatcg tttttgaaag agcagtaacc
      301 gctcgccgca agaacggatt agggagcggc atcgccgcga gtctgtccgt tcgaggaagc
      361 ggaatatcac ggaaactacc tcaggcactt tcgctcagga cctctgtttt ttcttcttag
      421 ttcttagcga tagataagaa ctaagaaggg actactcgca aacccgcatg tagcaaggat
      481 cgtattttca aaatcagtac cttcaaggct caatctacgt actttgtaag ctcaaaatag
      541 ttgttgattt tgagcttgtg actatctaaa atcgaattga tggtatcaat ttatgggtgg
      601 ataatgagct tagtaagata caaaactaac ccatttttgg atgatatgat tgttccagta
      661 aagggacaga aagtgcagat ctctaagctg ggaaaagaca acaatatctt ggttaaccaa
      721 tcgacaggtg aggtacacgg aacgcacgta actacatatc gaaaggttga ttcagagcag
      781 ttcgtaaagc ttttcacagc caatattgct ttaactttcc agttgtcatc agcaggtata
      841 aaagcattcg gggttttatt atgggttgtt caaaacaaag ctctctcaaa agatgaggtc
      901 gatttagatt catatgcctt agatgagttt tatgaattac ataaggactc agaaccccca
      961 ctgcgactaa gccaccctac ttttaaacgg gggataaacg aattagaaaa agcccagatt
     1021 attgcaaaaa cacttcggaa aggtcgctat tttattaacc ccaactttgt atttaatggc
     1081 gatagagttg ctttcacaac tgtcattgaa agaaaaaaag cagagacccc agaaataaaa
     1141 gagatttcgt cttgataaga ctcacagaac tcaaccaagg actacctatc aagcatccgc
     1201 agcatgccta ccctgtgtaa ctaatggaaa acggatgcat ccaaaataaa aaagcagctt
     1261 ttagctgctt ttttattttc accaacaaac agaccaagga tacatagaaa taataacaat
     1321 cgttattttt attattattc tcatacgctt ggctactttt tcttttttat tcatgcgtag
     1381 cctcatattt tattatttat attgacggaa ttactcgccg ttcttcttac ttaaaaatat
     1441 aaataaaaag taacagacac tttatatatt ataataaaca taaaaagcaa atatatttta
     1501 tataaaatgg aaaatatatt ttcacgcttt taaataaata taaatattgt gtcttaatat
     1561 gagttcttat tctttggagc gagctttctg aacgtaataa tcaaaaatct cctttcgtcc
     1621 ctgttcatag ctgatttcac ccgaaataat gcgcgcttta actaactcat agtgaggcgt
     1681 tccgctggga tccagccctt cgagccttaa tgaggcttcc gctttgcgaa aaccttcacg
     1741 tcgctgtttt tcgctcatcg gctaatacct ctgtcagttt tctgacgttg ctggcgttcc
     1801 tgctcccgtt caagctggcg ctgtttttca cgatcgtgat tctgttgctg gaacgtctgc
     1861 gccatcgtca gaatatgggt catctgctcc cgggaaagtc ccttaaaagg ctctgtaacg
     1921 ctctgtaggc gtttttgctg cgaatccata gtcttctgta gatcgcgcgc tcttttggca
     1981 ttctgggcgc tctgagaggc catagcgatg gttcctgcaa agccatcgtt cactgcctgg
     2041 cttaaacgtt tggctatggc tgcctgatct tccacgtctt tggtgaaaat acccttccgc
     2101 agtacacgcg gctccagcgc ctccggcgag atcgatacct ggctacgggt gccacggttt
     2161 atcgattcgt agtagtgctg aactgtctga tgcgtggcgc ggcttccctc gatgccgcgc
     2221 tcgagaccca gtttttttac tgattcagcg taggtgctct gatcttcacg catctttgac
     2281 cgcccgccaa taaactcttt cgcggacagc cgtccatcct gcgtcaatgg caccacgaac
     2341 gctgacaagt gcggggtggc ctcgtcccgg tgaaccaccg ccgccacaac gcgatccttc
     2401 ccgtatttct tctccagcca ttgctcagag cgggcgaaaa actccgcctg ctgccgcggt
     2461 gtggcctcgt tccaccactc agggcttgcc gtcataacgt attcaacagc cagtaccgca
     2521 tctttacggc gtttttccgg caacagctcc cgcagctttc ccatcgcctc atctgccgac
     2581 tgagacacag agcagtagtt ttctggtgtc cgttcagcgt cagcattcgg cgtctcacgc
     2641 tccctgtagc agtgctgcaa agcgctggcc acactgccca ttcccgtcag ctttttgcag
     2701 cgcattatcg cgtaattcgc catgct
//
