LOCUS       NZ_AP022076             2100 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP4-W18-ESBL-09 plasmid pWP4-W18-ESBL-09_7,
            complete sequence.
ACCESSION   NZ_AP022076
VERSION     NZ_AP022076.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194468
            Sequence Read Archive: DRR199304
            Assembly: GCF_014169115.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Sekizuka,T., Itokawa,K., Yatsu,K., Inamine,Y. and Kuroda,M.
  TITLE     complete genome sequences of Escherichia coli str. WP4-W18-ESBL-09
            isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2100)
  AUTHORS   Sekizuka,T., Itokawa,K., Yatsu,K., Inamine,Y. and Kuroda,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-DEC-2019) Contact:Tsuyoshi Sekizuka National Institute
            of Infectious Diseases, Pathogen Genomics Center; 1-23-1 Toyama,
            Shinjuku-ku, Tokyo 162-8640, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: flye v2.5; minimap v0.2-r124; racon v1.1.0;
            circlator v1.5.3; Pilon v1.18; SPAdes v3.11.1; A5-miseq v20140604
            Genome Coverage                   :: 114x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:58:42
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,455
            CDSs (total)                      :: 5,329
            Genes (coding)                    :: 5,078
            CDSs (with protein)               :: 5,078
            Genes (RNA)                       :: 126
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 251
            CDSs (without protein)            :: 251
            Pseudo Genes (ambiguous residues) :: 0 of 251
            Pseudo Genes (frameshifted)       :: 100 of 251
            Pseudo Genes (incomplete)         :: 165 of 251
            Pseudo Genes (internal stop)      :: 41 of 251
            Pseudo Genes (multiple problems)  :: 50 of 251
            Pseudo Genes (short protein)      :: 4 of 251
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022076.1.
            Annotated by DFAST v.1.2.3 (https://dfast.nig.ac.jp).
            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..2100
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WP4-W18-ESBL-09"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP4-W18-ESBL-09_7"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.6514 N 139.4813 E"
                     /collection_date="2018-02-13"
     gene            101..1066
                     /locus_tag="H7R28_RS26985"
                     /old_locus_tag="WP4W18E09_P70010"
     CDS             101..1066
                     /locus_tag="H7R28_RS26985"
                     /old_locus_tag="WP4W18E09_P70010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_057077968.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGGGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     gene            1070..1336
                     /locus_tag="H7R28_RS26990"
                     /old_locus_tag="WP4W18E09_P70020"
     CDS             1070..1336
                     /locus_tag="H7R28_RS26990"
                     /old_locus_tag="WP4W18E09_P70020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001024536.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     Typing          495..726
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.05e-118"
ORIGIN
        1 tcagcggcaa actctggtga catgtactgg ctcgcaatgc acaggtacgt gatgaatata
       61 ccacatcaaa tcacagcctg cccagatcgg agcaggctta atgtcagaag ataaattcct
      121 ttcggactac agcccccgtg atgcagtttg ggatacccag cgcacgctta ccgattctgt
      181 cgggggtatc taccagactg ctgctgaatt cgagcgctat gcactccgta tggcctcctg
      241 tagcggtttg ttacgttttg gttggtctac catcatggaa accggagaaa cgcgcctacg
      301 gcttcgtagt gcgcaatttt gccgtgtccg tcattgccct gtctgccagt ggagaagaac
      361 cctcatgtgg caagcccgtt tttatcaggc tctaccgaaa atcgttgtgg attacccgtc
      421 ttcccgatgg ttgtttctga cgttaactgt caggaactgc gagataggtg aacttggaac
      481 agtccttaca gcaatgaatg cggcgtttaa gcgaatggaa aagcgaaagg agctatcacc
      541 tgttcagggg tggatcaggg ctacggaggt gacgcgaggt aaggatggca gcgcacatcc
      601 gcattttcac tgtctgctga tggtgcaacc ttcttggttt aaagggaaga actacgttaa
      661 gcacgaacgt tgggtagaac tctggcgcga ttgcttgcgg gtgaactatg agccgaatat
      721 cgatattcgg gcagtaaaaa ctaagacagg tgaggttgtg gccaacgttg ccgagcaact
      781 gcaaagcgcg gttgctgaaa cgctgaaata ctccgttaaa ccggaagata tggcaaacga
      841 tcctgagtgg tttcttgagc tgacgcggca gcttcacaag cgccgtttta tctcgaccgg
      901 tggggcgcta aaaaacgtcc tccagttgga tcgagaaacc aatgaggatc ttgtcattgc
      961 cgacgatgta gggggtggca ctgatgacgg gaagcggacg gcgtttgtct gggattcagg
     1021 taaacggcgt tacaaacgcg cccctgagaa ggataaatcg gattaacgta tgaatattaa
     1081 tattgaatac ctgaatggaa ataagactat tggtttattt tttttaagaa gtgaagcggt
     1141 gattcctgac aggtttaaaa accttatttt gcttattgat ggattaagtt ttggcacatt
     1201 tggttttcat ccgcacgaag gttttgagga tgaattaatt ttatatattc agaaaacaaa
     1261 cgagagggta aaaactcttt ttgtgaaaat agatttaaac ggtatcaagt ttggattttt
     1321 aagaacgcat tcttagttct ggaaaagagc cagcggcagg ctgaggtgat aggtacgaga
     1381 ttgcatgcaa tctctagtgc tctgtctatc ctgcattatc ctcagcatta tcctcagcat
     1441 tatcctcagc cttgccaact cgacaccaat gcaggataga caatccgatg tcaaatgtta
     1501 acactctgcg agtggtacat tttccccgga ttatcgtcct gagcctgccg ctggctctct
     1561 ttctaccgcc tcgctttgct cgttgctcaa cgcctcacag acacggatta aaatccgcat
     1621 ccgttcaccg ttttttaaag tccgttaaaa gcatgatgcc atctccgaga gttaatctcg
     1681 tcaaatgcta aatcgtgggg gtcccctttg gggttccgat ttagtgattg acgacaccac
     1741 cgattaaaaa acttatgcgg ggtggatggt ttcacgaagt gaggccatcc acctgtaaga
     1801 cagggttttg tttttattcc ctgttttggt gatcgggtgt gtggaaaagg ttggggtaag
     1861 ccgttcgggg gtgcttgttt tgggggttaa aattgtggtt attttttgcg caattctcgc
     1921 gcgtgatcct tgtatttata cttaagggat aaatggcgga tatgaaatag tggtttagcc
     1981 cagtaatgac gaggctttga gtgggttttg acaggtcaaa gaaaatggag cagaattgag
     2041 gcgtttttaa tcggcgttgg ggagtgcgtc aacactcccc aacatttcga atgtgtcacc
//
