LOCUS       NZ_CP147080             3373 bp    DNA     circular CON 16-MAY-2024
DEFINITION  Escherichia coli strain JSWP021 plasmid pJSWP021_6, complete
            sequence.
ACCESSION   NZ_CP147080
VERSION     NZ_CP147080.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN39992796
            Assembly: GCF_039645365.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3373)
  AUTHORS   Gomi,R.
  TITLE     Genomic analysis of environmental Escherichia coli carrying
            transferable quinolone resistance determinants
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3373)
  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                   :: Flye v. 2.9.1
            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_039645365.1-RS_2024_05_16
            Annotation Date                   :: 05/16/2024 00:04:43
            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)                     :: 4,858
            CDSs (total)                      :: 4,735
            Genes (coding)                    :: 4,599
            CDSs (with protein)               :: 4,599
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 136
            CDSs (without protein)            :: 136
            Pseudo Genes (ambiguous residues) :: 0 of 136
            Pseudo Genes (frameshifted)       :: 56 of 136
            Pseudo Genes (incomplete)         :: 80 of 136
            Pseudo Genes (internal stop)      :: 22 of 136
            Pseudo Genes (multiple problems)  :: 19 of 136
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP147080.1.
            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..3373
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="JSWP021"
                     /isolation_source="municipal wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pJSWP021_6"
                     /geo_loc_name="Japan"
                     /collection_date="2015"
                     /collected_by="Ryota Gomi"
     gene            complement(597..788)
                     /locus_tag="WAZ80_RS24270"
                     /old_locus_tag="WAZ80_24285"
     CDS             complement(597..788)
                     /locus_tag="WAZ80_RS24270"
                     /old_locus_tag="WAZ80_24285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165979.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNDLDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            852..1175
                     /locus_tag="WAZ80_RS24275"
                     /old_locus_tag="WAZ80_24290"
     CDS             852..1175
                     /locus_tag="WAZ80_RS24275"
                     /old_locus_tag="WAZ80_24290"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_001696562.1"
                     /translation="MLTIRVTDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     APPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1384..>1821
                     /locus_tag="WAZ80_RS24280"
                     /old_locus_tag="WAZ80_24295"
                     /pseudo=""
     CDS             1384..>1821
                     /locus_tag="WAZ80_RS24280"
                     /old_locus_tag="WAZ80_24295"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1853..2413
                     /locus_tag="WAZ80_RS24285"
                     /old_locus_tag="WAZ80_24300"
     CDS             1853..2413
                     /locus_tag="WAZ80_RS24285"
                     /old_locus_tag="WAZ80_24300"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_346008836.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKKQLDTLSTTVSMQFSTTEAELSRQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGMKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            2420..2653
                     /locus_tag="WAZ80_RS24290"
                     /old_locus_tag="WAZ80_24305"
     CDS             2420..2653
                     /locus_tag="WAZ80_RS24290"
                     /old_locus_tag="WAZ80_24305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137389.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          433..516
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.059"
                     /coverage="95.0"
                     /evalue="8.83e-18"
     Typing          1166..2736
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.439"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aagacgcata cgtcacgcag gcgcgggttc ttccactgac gcgccccgtg atcgatggcc
       61 ttggctccgt ccggcatatc gagagcggca aactacccgt cccttcactg ggaggggtga
      121 gttgttgccg ttccctccga ccttccacca tccagcatat cgcacgatcc catgtgcacc
      181 gctactcctg ataactccag tgcaaaaaaa aaaacggatc tgcatcacaa cgagagtgat
      241 cccaccgctc gccgcagccc cagcgaccga acgtagtgag cgagtgggcg aggaagcgga
      301 agagtcacag aggcaagcat tgtgcactta cgcgcctgtg ccagtgtccg cgtgtgtgtt
      361 gtttatcggg cgcgctgttt ttacgcatct gtgcggcttt ttactcctga catggtgcac
      421 ttcccatcca ctctgcaccg atgcaaaatg aggtaagcca gtatacacat cgctatcgct
      481 ctgtgaactg ggtcagggct gcgccccgac acccgcactg acgcgccctg gcgggcttgt
      541 ctgctcccgg catccgctca caggcaagct gtgaacgtct ccgggagctg catgtttcag
      601 ttgctttcac cgtcatcgcc gaagcgtgcg aggcaactgc ggtagagttc gtcggcgtgg
      661 tcgtgaagtg attcgcagat gtctgcctgt tcgtccgcgt ccagatcgtt gagtttttcc
      721 agcagggtta gcgtctggct tctgataaag cgagccatgt taagggctgt tttttcctgt
      781 ttggtcatgg tcttaaggct ccttgtatgg gggatttgtt agggggaatg ataccgatga
      841 aacgcgagaa gatgctcacg atacgggtta ccgatgagga gcacgcccgg ttactggaac
      901 gctgcgaggg taaacgactg gcggaatgga tgcggcgggt ctgtctgggg gagccggttg
      961 cacgcacagg aaaactgccg acactggcac cgccattgct gcggcatctg gctgccatcg
     1021 ggaacaacct gaaccagaca gcccggaagg tgaacagcgg ccagtggtct tcgattgacc
     1081 gggttcatgt ggtggccgca ctgatggcca tcgagggtga attgcgccag ttgcggcagg
     1141 ctgtcaggga acagggggta cgggatgata gttaaatttc atgccagggg gaaaggcggt
     1201 ggaagtggcc cggtcgatta cctgctgggg cgggagcgta accgcgaagg cgcaacggtg
     1261 ctccggggta acccggaaga agtgcgggaa ctcattgatt ccacgccatt ttcgaagaaa
     1321 tacacgtcag gcgttctgtc gttcgcggag aaggagctac caccgggtga acgcgaaaga
     1381 gtgatgacga gctttgagcg tgttcttatg cccggtctcg aaaaagacca gtacagcatt
     1441 ctctgggtgg aacaccagga taaggggcgg ctcgaactga attttgtcat cccgaacatg
     1501 gagctacaga gcggtaagcg cctccagccg tactacgacc gtgcggacag gccgaggata
     1561 aatgcctggc agacgctggt taatcatcat tacgggctgc gtgacccgaa cgcaccggag
     1621 aacagacgga cgcttgtcac gccaaataat ctgccaaaag cgaaacagga ggccgcagaa
     1681 gcgattacac ggggtcttga ggctctttac catgccggag caataaaaac gcgtcaggat
     1741 gtcacagagg cgcttacagc ggcaggtttt gaggtggtga ggacaaccaa aagcagcatc
     1801 agtattgccg acccggaggg ggggcggaat ctcaggctaa agggggcgct gtatgagcaa
     1861 tcttttacaa atgggaacag acttcgagaa gaaactgaaa gagcgagccg cttctaccga
     1921 gaacatgctg aacagcgagt tcaggaagct cgaagagtct gtagacaagg cattgagctt
     1981 aaacaggcag aaaatcagag acgctatcag cgaacataca acatccgtga aaaagcaact
     2041 ggatacgctg agcaccaccg tgagcatgca gttcagcacc acagaggccg aactgtcccg
     2101 gcagcagaaa aaactgctct ggcgggtgat caaagggcgg atactgtttc cggcgctgac
     2161 cgcgctcagc gtcacgggcg ggattttcct ggggtgctgg gggctgatgg agtggcagga
     2221 aagcaggatt gcgaaaaata tcctgactat cagagagcag gaaaacacgc tggcgaaact
     2281 cgaggcaaaa acctgggggg tgacgttcgt caatggcgag aacgggaaat ttctggtgtt
     2341 gccggacggg atgaaagggg aaaacacctg gacggtgggc gacaagaacg ccgtgaggct
     2401 ggtcagggag taaacgagta tgacggaact ggaagggcat ttgctgaacg ccttagagca
     2461 tttgcaacag gactatatgc ggcggctgaa cgagtgggag agcgccttcg cggaattgca
     2521 gaagatgcac gaggttacgc aacggaacaa cgcgatactg aacgagcgcg tcgtgatatt
     2581 gagtcagcag gtgcagagat tagccgggca agtggatcgc ttgagtcggt tatttatcgc
     2641 gaacaacagc taagggatga acaggagcgt gcccggtaca gacatgaggt acaggaacgc
     2701 gcggcacggg ttcggagtgg gccatcaatg gagatgtgac cggggaagtg acgaaatctt
     2761 gccattttga cccgttcgac ggctggggcg agcgaaacaa atcgtgtgcc gtatttgtgc
     2821 atagctatgc aacatcctga aaacgcattt cacgcgtttt tggggattca gccaggggaa
     2881 aacatggttt ttttactttt tgagcgtaaa gacgtgaaaa atctcgttat tgcacttgcg
     2941 atctttcgtc ggcgggcgta gaacgaaaac agctcgccag gaaggcgagc tgtttcgggt
     3001 tcattgaggt ctctgacctc ctcaatgttc ctgtggaaac tgttgagatc cacaacagaa
     3061 accagttcat tcagtttgca tgagccttct gtattcttca agaatttttc aacagcacag
     3121 tctcccagga accccgaaaa aaacctgttt ttgcagatac ttgcgtattt gtgagaatcg
     3181 tttgcggttg ggggagctgt gacgacggcg accgcacgcg tgagagttcc gctaccggcg
     3241 cagagagttt catcgacagc ggacacctga tgagttgcca caaaaaccgt atgtagcgcg
     3301 gctagattgg ttgagttaga ccttggcggc agttcccggt atgtggtggc gtgacgggtg
     3361 agatggtgcg gcg
//
