LOCUS       NZ_CP147121             2693 bp    DNA     circular CON 22-APR-2024
DEFINITION  Escherichia coli strain KMi029 plasmid pKMi029_12, complete
            sequence.
ACCESSION   NZ_CP147121
VERSION     NZ_CP147121.1
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 2693)
  AUTHORS   Gomi,R.
  TITLE     Genomic analysis of environmental Escherichia coli carrying
            transferable quinolone resistance determinants
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2693)
  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
            CP147121.1.
            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..2693
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="KMi029"
                     /isolation_source="river water"
                     /db_xref="taxon:562"
                     /plasmid="pKMi029_12"
                     /geo_loc_name="Japan"
                     /collection_date="2011"
                     /collected_by="Ryota Gomi"
     gene            join(2425..2693,1..748)
                     /gene="mobV"
                     /locus_tag="WAZ84_RS24635"
                     /old_locus_tag="WAZ84_24630"
     CDS             join(2425..2693,1..748)
                     /gene="mobV"
                     /locus_tag="WAZ84_RS24635"
                     /old_locus_tag="WAZ84_24630"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000024818.1"
                     /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: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_167593153.1"
                     /translation="MRSPDWLDVRQNEGVSMANYAIMRCKKLTGMGSVASALQHCYRER
                     ETPNADAERTPENYCSVSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWKEAT
                     PRQQAEFFAHSEQWLEKKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGG
                     RSKMRDDQSTYAESVKKLGLERGIEGSRATHQTVQHYYQSINRGTRSQVSISPDALEPR
                     VLRKGIFTKDVEDQAAIAKRLSHAVNDGLAGTIAMASQSAQNAKRVRELQKTMDSQQKR
                     LQSVTEPFKGLSREQMTEILMMAQRFKQQNQEKEKQQRIEREKQRQTRSRGMGGMSR"
                     /name="mobV"
     gene            complement(771..1202)
                     /locus_tag="WAZ84_RS24640"
                     /old_locus_tag="WAZ84_24635"
     CDS             complement(771..1202)
                     /locus_tag="WAZ84_RS24640"
                     /old_locus_tag="WAZ84_24635"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001233485.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_080490715.1"
                     /translation="MRRITQVDQTTGEELGGFVAVIRPKQKSSFQRHFTMNQAALITIA
                     NELNHDQMRVLMALLAELDYENYIQVAQMDIAEALTMQKTNVSRAVKNLIDFGIILEGP
                     KIGRSKTYRLNPQFGWKGTVSNHKKALKNGLSVIQGGRS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1617..2222)
                     /locus_tag="WAZ84_RS24645"
                     /old_locus_tag="WAZ84_24640"
     CDS             complement(1617..2222)
                     /locus_tag="WAZ84_RS24645"
                     /old_locus_tag="WAZ84_24640"
                     /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_047359292.1"
                     /translation="MSFIKSLNKKNQTDQIEVTINVRLTQEEDHLLTLATQQSGYKRNE
                     LFYLLAKEYIFDDESLKEMAEEPGAEFSEGLYQNCYVVNTNRVHHEEDDKFMISEGVAA
                     TFEDGYKEKMEQVKKGDLVFLYRSGEGIVAHGIASGDVLKKDHNGVPDKTYYQKLSGFV
                     RYEKPLTASEIQRILGRNVVFMHTLFSIRDGYKLLKKD"
                     /name="hypothetical protein"
     Typing          3..745
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="4.39e-153"
     Typing          2426..2691
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="6.439999999999999e-52"
ORIGIN
        1 gtacgttatg acggcaagcc ctgagtggtg gaaagaagcg acaccgcggc agcaggcgga
       61 gtttttcgcc cattctgagc agtggctgga gaagaaatac gggaaggatc gtgttgtggc
      121 tgcggtagtt caccgggacg aggccacccc gcatttgtca gcgttcgtgg tgccattgac
      181 gcaggatgga cggctgtccg cgaaagagtt tattggcggg cggtcaaaga tgcgtgacga
      241 tcagagcacc tacgctgaat cagtaaaaaa attgggtctt gagcgcggca tcgagggaag
      301 ccgtgccacg catcagacag ttcagcacta ctaccaatcg ataaaccgtg gcacccgtag
      361 ccaggtatca atctcgccag atgcgctgga gccgcgcgta ttgcggaaag gaattttcac
      421 caaagacgtg gaagatcagg cagccatagc caaacgtcta agtcacgcag tgaacgatgg
      481 ccttgcagga accatcgcca tggcctctca gagcgcgcag aatgcaaaaa gagtgcgcga
      541 gctacagaag actatggact cgcagcagaa acgcctacag agcgttacag agccttttaa
      601 gggcctttcc agagagcaga tgaccgaaat cctgatgatg gctcagcggt ttaagcagca
      661 aaaccaggaa aaggaaaaac agcagcgtat tgaacgtgaa aaacagcgac agacgcgatc
      721 gcgtggcatg ggtggtatga gtcgttagtt ttgatgcgac attccagaga tcagcttcta
      781 ccgccctgta taacgctgag gccgtttttt agtgcttttt tgtggttgct gacagtacct
      841 ttccaaccga actggggatt caagcgataa gttttgctcc gtcctatctt aggaccttcc
      901 agtatgatcc cgaaatcaat caggtttttt accgcacgac tgacatttgt tttttgcata
      961 gtcagcgctt ccgcaatatc catctgcgca acttggatgt agttctcgta atccagttct
     1021 gcgagcaagg ccatcagcac acgcatctgg tcatggttta gctcattggc aatggtaatt
     1081 agcgcggctt ggttcatagt aaagtgcctc tggaatgatg acttttgttt aggacgaatc
     1141 actgctacaa aaccacctaa ttcctcccct gtagtttggt ctacctgcgt gattctccgc
     1201 atctaaaaat ctccattcag gaaaaaatag ttatctctca agataactaa gttatctcta
     1261 gagataacta ttgtcaaaaa ctttccgctt gtggcgcggc ttcccagcca tccccttctg
     1321 tatcttatta ctctccacaa tcacacatcg gcaaaatcag gtgcttttat gcctgttctg
     1381 agtgttaggg ttcctatgta agtgacgtgg aaattccgct tcctcgctca ttcgctcact
     1441 acgttcggtc atgagtctgc ggcgagcggt tcttgatttt ttaaaacgat attcggagct
     1501 ttatttcgtc aagggcgagc gtagcgagtt catttaccct tgacgatgca ctgtaaaaaa
     1561 cacttccgga aggtggttgg tgtcacaaag tgatgccaac cacctgtaga ctgggtttaa
     1621 tcttttttaa gcagtttata gccatctcta atgctaaata gcgtgtgcat aaacacaacg
     1681 tttctcccca gtattctctg gatctcagac gcggttagtg gtttttcgta cctaacaaag
     1741 cctgatagct tctggtagta ggtcttgtct ggcacgccat tatgatcttt ctttaaaaca
     1801 tcaccactgg cgataccatg tgcaacaatt ccttcgccgg agcgataaag aaagactaaa
     1861 tctccttttt taacctgctc cattttttcc ttataaccat cttcaaatgt tgccgctacg
     1921 ccctctgaaa tcatgaactt atcatcttct tcatgatgaa ctctgttagt gttaaccaca
     1981 taacaatttt ggtataagcc ttctgaaaac tcagcgccag gctcctcagc catttccttt
     2041 aagctttcat catcaaagat gtattccttt gctaggaggt agaatagctc gttcctttta
     2101 taaccagatt gctgggttgc taatgtcagt aaatggtcct cttcttgggt taacctaacg
     2161 ttaatcgtca cttctatttg gtctgtttga ttttttttgt ttagcgattt tatgaatgac
     2221 atcttacttt cctcaccaga gttaatatac taatcaatga tagtgaatca ctacattgaa
     2281 acagaagcat tgatcacatc tttgatttaa gcaatgactt tatgtcatat attttttatt
     2341 aagttgaatt taacgaacga ttttgcgtag caaagtctag tgagtacact atcatcctga
     2401 tagtggcccg ccggaggcat cgcaatgcga tcccccgact ggctggatgt acgccagaac
     2461 gagggggtaa gcatggcgaa ttacgcgata atgcgctgca aaaagctgac gggaatgggc
     2521 agtgtggcca gcgctttgca gcactgctac agggagcgtg agacgccgaa tgctgacgct
     2581 gaacggacac cagaaaacta ctgctctgtg tctcagtcgg cagatgaggc gatgggaaag
     2641 ctgcgggagc tgttgccgga aaaacgccgt aaagatgcgg tactggctgt tga
//
