LOCUS       NZ_CP147078             4308 bp    DNA     circular CON 16-MAY-2024
DEFINITION  Escherichia coli strain JSWP021 plasmid pJSWP021_5, complete
            sequence.
ACCESSION   NZ_CP147078
VERSION     NZ_CP147078.1
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 4308)
  AUTHORS   Gomi,R.
  TITLE     Genomic analysis of environmental Escherichia coli carrying
            transferable quinolone resistance determinants
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4308)
  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
            CP147078.1.
            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..4308
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="JSWP021"
                     /isolation_source="municipal wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pJSWP021_5"
                     /geo_loc_name="Japan"
                     /collection_date="2015"
                     /collected_by="Ryota Gomi"
     gene            complement(203..649)
                     /locus_tag="WAZ80_RS23640"
                     /old_locus_tag="WAZ80_23655"
     CDS             complement(203..649)
                     /locus_tag="WAZ80_RS23640"
                     /old_locus_tag="WAZ80_23655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000184721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_000184723.1"
                     /translation="MTNREEWLSAKIAYINGLKSPSEQQRLLVLLAEKKNRTTTDEKTL
                     SALIRAEKTAEKAAAAKARVTAIIAAERKAAARAERKARDHELYKAAGLMIVAGLVDSK
                     TGKPKFSAAELVGALAGIAELPRNHPKWQEWERRGKELLTKDSA"
                     /name="conjugal transfer protein TraD"
     gene            821..2680
                     /locus_tag="WAZ80_RS23645"
                     /old_locus_tag="WAZ80_23660"
     CDS             821..2680
                     /locus_tag="WAZ80_RS23645"
                     /old_locus_tag="WAZ80_23660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000179380.1"
                     /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_343218163.1"
                     /translation="MASYHCTVKTGAKGSALKHADYISRTGEYENYKSREDLEFSSSGN
                     MPSWAKKNPYELWKAADEFERKNGTAYREIEIALPRELTREQRIELVEDFVQKELGDRH
                     AYQYAIHNPPGAIDGKEQPHAHIMFCERINDGIERDPQQFFKRANSKLPERGGAKKARF
                     GETQQERKSALVELRSRWADVQNEHLARHGHESRVDHRSLKEQGINRTPEVHLGPVQAA
                     SLNGEQIVAIQERRNAERELKTARDAANAIQPEQEQKQKIKAVEPVRSARLMDEYRDVA
                     RKVITLETRQNESQELALKHHLFMKAEAKEQELAKLKEQLKKMDEQRSVYKNKIDEKKQ
                     NITALVEQKKSLERSFIGLFKGGMKRELEEQIKTQVSQLEKTEHEVKQLDENYQQLQMQ
                     ADNEQKNFSHSPEYQYSEAVLSGIPRSILKLQFALLPSESTIAFNKNVLDVEQRKEAAI
                     AAELCLSEDERRQIRREIQDVLNGDACEGQQTETLQQKRPEKDAHIEWEREESPQVVIP
                     KTYVFFSACRGVKTEIRPFESCDDAIEWGLVECELHDRFKRDLIVYRVDAELIGKGDDT
                     VIKNAERIDLTDELEGWNQQTHIEKESLFERVQQRSQDDELEM"
                     /name="MobA/MobL family protein"
     gene            3224..4243
                     /locus_tag="WAZ80_RS23650"
                     /old_locus_tag="WAZ80_23665"
     CDS             3224..4243
                     /locus_tag="WAZ80_RS23650"
                     /old_locus_tag="WAZ80_23665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001271372.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_343218162.1"
                     /translation="MSAALQYFEENLPHRPYHSDDLSFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDSSVKA
                     LKYAAAIERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     PECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSRWTVRRWMDSSVEWLLSKQIIKI"
                     /name="replication initiation protein"
     Typing          3225..3999
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.04"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          822..2677
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.677"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gcatgaacaa gcctatatca gataacagcg cctttcggcg tctttttgag cagcggcttt
       61 ccggcggttt tctcctgtca gcccagcaat ggtgcggctt accgcatgat tgaggtggtt
      121 gtgctcgccg cagtctcatg accgagcgta gcgagcgaat gagcgaggaa gcaccaggga
      181 accggaacgt gaacggaggc tcttacgcac tgtctttggt tagtagctcc ttcccgcgtc
      241 tttcccattc ctgccatttt ggatggttgc gcggtagctc tgcgattcct gcgagtgcgc
      301 ctaccagttc ggcagcacta aactttggtt ttccggtttt gctgtccacc agtcctgcca
      361 caatcatgag gcctgcggcc ttgtagagtt catgatcccg cgcctttcgt tccgcccttg
      421 cggctgcctt ccgttctgcc gctatgattg ccgttaccct ggcttttgct gcggctgctt
      481 tctctgcggt tttttctgcc cgtatcagtg cggacaacgt tttttcatcc gtcgttgttc
      541 ggtttttttt ctctgccagt aacacaagta atctctgctg ctctgacggt gatttcagtc
      601 cgttgatgta ggcaattttt gcacttaacc actcttcacg atttgtcatt cttacctctg
      661 cacttttgcc gttaatgtga gttgttattg tgcataatat caccttgtct gcctgcgtgt
      721 gagaccgtaa aatcatccct gattaattca gggatgcgca cttagacgtt tctctccttc
      781 gtcgagaaac tgtgcgctcc tgcggagggc taaaaggcag atggctagtt accattgcac
      841 cgttaaaact ggtgcaaaag gcagtgcctt aaaacatgct gattacattt ccagaaccgg
      901 cgaatacgag aactataaat cgcgggagga tctggagttt tcgtcatccg gtaacatgcc
      961 atcatgggcg aagaaaaatc cctacgagct atggaaagcc gcagatgaat ttgaacgaaa
     1021 aaacgggacg gcataccgtg aaattgagat cgcgttaccg cgtgaactga cacgcgaaca
     1081 acggatagaa cttgttgaag attttgtgca aaaggaactt ggcgatcgcc atgcctacca
     1141 gtacgcgatc cacaatccgc caggtgcaat tgacggaaag gaacaaccac acgcgcatat
     1201 catgttttgc gagcggatta atgatggtat tgaacgcgat ccgcagcagt tttttaaacg
     1261 tgctaacagc aaattaccgg agagaggagg cgcaaaaaag gcacgctttg gtgaaacaca
     1321 acaagagcga aaatctgccc ttgttgaatt acgttcccgc tgggcggatg tgcagaatga
     1381 gcaccttgcg cgtcacggtc acgagtcgcg cgtagatcat cgttcgctga aagaacaggg
     1441 tatcaatcgc acgccggaag ttcatcttgg ccccgttcag gccgccagtc tgaatggtga
     1501 gcagattgtt gcaatccagg aacggaggaa tgccgagcgg gaactcaaga ccgccagaga
     1561 tgccgcaaat gccattcagc cggaacagga gcaaaagcaa aaaatcaagg cagttgagcc
     1621 tgttcgttct gcccgattaa tggatgagta tcgggatgtt gcccggaaag tgatcacact
     1681 ggagacaaga cagaatgaga gtcaggaact ggcgctaaaa catcacttgt ttatgaaggc
     1741 agaagcgaaa gagcaagaac tggcgaaact gaaagaacaa ctaaaaaaaa tggacgagca
     1801 gcgttctgtt tataagaaca agattgatga gaaaaaacag aatattacag cgttagttga
     1861 acagaaaaaa tcgctcgaga gaagttttat tggcctgttt aaaggcggga tgaaacgtga
     1921 gcttgaggaa caaatcaaga cacaggtcag ccaactggaa aagaccgagc acgaggtgaa
     1981 gcagttggac gagaattatc agcagcttca gatgcaggct gataatgaac agaagaattt
     2041 ctcacactca ccggaatatc agtattcgga agcggttttg agcggaatac ctcgttcgat
     2101 tttaaaactg caattcgctc tgttgcccag tgagagcact atcgccttca acaagaatgt
     2161 actggacgta gaacaacgaa aagaagctgc tatagctgcc gaactttgcc ttagtgaaga
     2221 tgagcggcgg caaatcaggc gagagattca ggatgttcta aacggggacg cctgcgaagg
     2281 gcagcagaca gaaactctcc agcagaaacg tcccgagaaa gatgcgcaca tcgagtggga
     2341 acgggaagaa tctccgcaag tcgtcatccc aaaaacttat gtttttttct ctgcgtgcag
     2401 gggcgttaag acagaaatca ggccgtttga gtcgtgcgat gatgctatcg agtgggggtt
     2461 ggttgagtgt gaacttcatg atcgttttaa gcgtgatctc attgtttatc gagttgatgc
     2521 tgaattgata ggaaaaggtg atgatacagt gataaaaaat gccgaacgca ttgatcttac
     2581 tgatgaactt gaaggatgga atcagcaaac acacatcgaa aaagagagcc tttttgaacg
     2641 agtacagcag cggtcacaag atgatgagct ggagatgtag ttactgacgc gcttcgcttg
     2701 tccaacgcct cacagaccgc gaaaggattt cgcgtcccgt tcaccgtttg gctgtgatgt
     2761 atagtgagaa tgcaaccgca acctaactac ttgtttgcac ggtagaaaaa caaaaacgga
     2821 agcattctca aaaatgttct aatgtgcttt tttcagaacg gcaagtttgt cattttgacc
     2881 cgttcgccct tctgaacggt cgaaactgtt cgcgaatcgc ttttgtgcat agttatgcag
     2941 gcccctgaaa acaattctga cgcatttttc tggtttaccc tggtgtttcc ttgtcttttt
     3001 gcgttttttg cgtcagaaag cgactgaggg cgttttaagg ggtacgtaca acgggagtta
     3061 tggtaaatgg atcggttttg cgggaagact cgacaggttt tgtcgttggg ggtagtgtaa
     3121 gcgactgaaa aacaaacgcc cctgaaattc gtgtctctcc gccaagattg tcacgagaat
     3181 acaggggcgt gtgggtcgta acacacggag ggaatcctaa cacatgagcg ccgcgcttca
     3241 atacttcgaa gaaaatttac cccaccgtcc ctatcactcg gatgatctct ctttcggcct
     3301 tcgcatctcc ggcaaagggc gtgcgcttct tgcgcggtac atccagcaga accagcctca
     3361 tgcgcagttc tggctggttt ttgacgttga ccgcgagggg gcagcgattg actggagcga
     3421 ccggaacgct cccgcgccga acatcaccgt aaaaaatcct gtgaacggtc atgctcacct
     3481 gctctacgca ctcaatatcg ccgtgagaac cgcgccggac agctcggtta aggcgctgaa
     3541 atatgccgcc gcgattgaac gttcgctgtg tgagaaactt tgtgctgatg tgaactacag
     3601 cggactgatt tgcaaaaatc cgttccacct ggaatggcag gtgatggagt ggcgcgagga
     3661 agcctatacc ctcgatgaac tggcagatta tctcgatttg agcgcctcag agcgtcgtag
     3721 catcgataaa cattacggga tggggcgaaa ctgccacctg tttgaaatga cgcgcaaatg
     3781 ggcttacagg gcgattcgtc agggctggcc agcattctca cagtggcttg atgccgtgat
     3841 tcagcgtgtc gaaatgtaca acgcatcgct tcccgttccg ctttctccgc ctgaatgtcg
     3901 ggctattggc aagagcattg cgaaatacac gcacaggaac ttcacgccgg aaactttcgc
     3961 acagtatgtg gctgatacgc acacgccaga aattcaggca gcacgcggtc gcaagggcgg
     4021 gaaggccaat tcgtcagaaa atcagtcgga caaagggaaa aaaagcgccg ctgttcggtg
     4081 gactgctaac gacgacaaac gtcgtagggc gcttgatatg tatatcttgg gagcgtcaac
     4141 ggaagatatt gcagtggcgg ttggtgttag ccgttggact gttcgacgct ggatggatag
     4201 ctctgtagaa tggctactga gtaaacaaat aattaaaatt taattaacaa aaatggcaca
     4261 tacccccccc tattttgtta aaattctgtt aattttgggt gcatgaac
//
