LOCUS       NZ_AP022211             4073 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP7-S18-ESBL-09 plasmid pWP7-S18-ESBL-09_4,
            complete sequence.
ACCESSION   NZ_AP022211
VERSION     NZ_AP022211.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194579
            Sequence Read Archive: DRR199415
            Assembly: GCF_014169575.1
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. WP7-S18-ESBL-09
            isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4073)
  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                   :: 281x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:44:00
            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)                     :: 5,326
            CDSs (total)                      :: 5,200
            Genes (coding)                    :: 4,987
            CDSs (with protein)               :: 4,987
            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)              :: 213
            CDSs (without protein)            :: 213
            Pseudo Genes (ambiguous residues) :: 0 of 213
            Pseudo Genes (frameshifted)       :: 80 of 213
            Pseudo Genes (incomplete)         :: 145 of 213
            Pseudo Genes (internal stop)      :: 37 of 213
            Pseudo Genes (multiple problems)  :: 46 of 213
            Pseudo Genes (short protein)      :: 4 of 213
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022211.1.
            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..4073
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WP7-S18-ESBL-09"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP7-S18-ESBL-09_4"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.5619 N 139.7531 E"
                     /collection_date="2018-08-06"
     gene            101..1015
                     /locus_tag="H7R37_RS26325"
                     /old_locus_tag="WP7S18E09_P40010"
     CDS             101..1015
                     /locus_tag="H7R37_RS26325"
                     /old_locus_tag="WP7S18E09_P40010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001448734.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Abi family protein"
                     /protein_id="WP_042007279.1"
                     /translation="MPNTIHYPHVIPFISQGKINAIKSTFGNNLSDRECYGIYIWSQKA
                     SSAIYPLLQQLEVTLRNSIDKEATKLIGQKWWDNVYTDTSKSKHGDFIHNINKAKKRYE
                     NEFKKKNPSMANTKIIAPHDDIIAHTDFYTWQAVLSDAFHTQSRSEASRALWPRLTYRV
                     LKGLDRSKDEGTARIDFLNELNEIRNYRNRLSHNDCIWIKIHSKNLQSAVETIREKINK
                     IEGLIKTINPQVHLSLTKWGSFYHAKRICSQKEAELHLGKGIINSTTDEMNTILDQLYA
                     LTADGKLTGVVKRNTNNIAFHKF"
                     /name="Abi family protein"
     gene            1609..2202
                     /locus_tag="H7R37_RS26330"
                     /old_locus_tag="WP7S18E09_P40020"
     CDS             1609..2202
                     /locus_tag="H7R37_RS26330"
                     /old_locus_tag="WP7S18E09_P40020"
                     /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_012537770.1"
                     /translation="MSGRKFGRLPNWWARSSWLVNNVRSNEIGGGIASMKCLLALSVLI
                     DFHSRTASVSFTGMERLTGLSRPMIVKGVAKLEKDGLIKIDREMFVNSYELTVQPNDDR
                     WAKVPVDTIRKKLNTISNRGMAPFVALKLYLTIISLRYQSNNTVKVTHETLRSYTGVQP
                     NQIRFGLDVLYCSRLIHLQPKEDRESNIYEIIGL"
                     /name="hypothetical protein"
     gene            complement(2213..2404)
                     /locus_tag="H7R37_RS26750"
     CDS             complement(2213..2404)
                     /locus_tag="H7R37_RS26750"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001479926.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_225879636.1"
                     /translation="MCLMGTVCAQTVRHSFSCIAMQWAENDPDAFFRFSLGKTSLFAVS
                     ASESRSVRFSGARNATLW"
                     /name="hypothetical protein"
     gene            2975..3169
                     /locus_tag="H7R37_RS26335"
                     /old_locus_tag="WP7S18E09_P40030"
     CDS             2975..3169
                     /locus_tag="H7R37_RS26335"
                     /old_locus_tag="WP7S18E09_P40030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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_001041633.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3835..3948
                     /locus_tag="H7R37_RS26755"
     CDS             3835..3948
                     /locus_tag="H7R37_RS26755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_071531573.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHALTPLAAATGN"
                     /name="replication initiation protein"
     Typing          complement(2461..2716)
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.023"
                     /coverage="89.0"
                     /evalue="1.24e-101"
     Typing          complement(2841..2939)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.0"
                     /coverage="100.0"
                     /evalue="1.35e-41"
     Typing          complement(3250..3335)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.851"
                     /coverage="100.0"
                     /evalue="3.99e-36"
     Typing          3348..3907
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.027"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaaaccgccc gccaaggcgg ttttttcgtt taacactcta caactatcca tacgtgtatg
       61 gcaacatcca atcaccacta agtgtatgat agagatggat atgccaaata caattcatta
      121 ccctcatgta ataccattta tatcccaagg aaaaataaat gctataaaaa gcacgtttgg
      181 taataacctg tctgataggg agtgctacgg gatatatata tggagccaga aagcctcatc
      241 tgccatatat ccattactgc aacaactcga agttactttg agaaactcga ttgataaaga
      301 agcgacaaaa ctaataggcc aaaaatggtg ggataatgta tacaccgaca catcaaaaag
      361 caaacacggt gacttcatac ataatataaa caaagcaaaa aaaagatatg agaatgaatt
      421 caagaaaaaa aacccatcaa tggcaaatac caaaataatt gcacctcatg atgacatcat
      481 tgcacacaca gatttttaca catggcaagc ggttttgagc gatgcttttc atacacaatc
      541 aagatctgaa gcatcaagag ccttatggcc caggctcacc tacagagtac tgaagggatt
      601 agatagaagc aaagatgaag gcacagccag aattgatttc ttaaacgagc tgaatgagat
      661 cagaaactac agaaataggt tatcgcataa tgattgcata tggataaaaa tacactctaa
      721 aaatttgcaa tctgcagtag aaacaataag agaaaaaata aacaaaatag aaggactgat
      781 aaaaacgata aacccacagg tacatctatc attaacgaag tggggttcct tttatcacgc
      841 caaaagaata tgttctcaaa aagaggccga attgcatcta ggcaaaggaa taatcaatag
      901 cacaacagat gagatgaaca caattctaga tcaactatac gcactaactg ctgacggaaa
      961 gctaacgggt gttgtaaaac gaaataccaa caatatcgca tttcacaagt tttagatcac
     1021 aaaatagaaa aggcccgaca gtttcctgtc gagcctcatc caaatctctt gccattatca
     1081 cctttcggtg gagcgtggcc ttaatgtcat tgtgaatcta taaaaatttc acaatgcatt
     1141 aaagcgaaag ctcaaggctt cactgccata catgatacat catcatcagg aaaaagagca
     1201 aactatttcc catgatcacg ccaaagctta ccatccacca tttaccaata gatcaaaaaa
     1261 cacacaacaa aaataactaa aaacgccgat taaaccagca ttatcaaatt tacatttacc
     1321 agttaaaaaa cgagaaaaac aagataacat catgttttat atgggaaaac aagcaaccac
     1381 caaatattgc tttatctaga tttattctaa taagcgtata taaagttaaa acacaacaac
     1441 ttagtatgcg actggaggac caattggaaa ccctcaacaa tttgctggta acgctaactt
     1501 ccgcaaagcc ggaggttttg gtttctgttg tatctttagg tgcaatggtt ttcatgtata
     1561 tgataataaa gctatttata tctctccttg accgaaaatg gggtaaaaat gagcggtaga
     1621 aaatttggca ggcttccaaa ctggtgggcc cgaagctcat ggcttgtaaa caatgttcgt
     1681 tcaaatgaga tagggggcgg cattgcatca atgaaatgct tgttagctct atccgtcttg
     1741 attgatttcc attcaagaac agcctcagta tcatttaccg gaatggaaag actgactgga
     1801 ctaagccgcc ccatgatagt gaaaggagta gccaaacttg agaaagatgg tcttataaag
     1861 atagatagag agatgtttgt taactcctat gaattaacag tacagccaaa tgatgatagg
     1921 tgggcaaaag taccagtaga tactatcagg aaaaaactaa acaccatatc gaacaggggg
     1981 atggccccat ttgtggcatt aaaactatat ttaacaatta taagccttcg ttatcagtca
     2041 aataatactg ttaaggtgac acatgaaaca ctgagaagct atacaggtgt ccagccaaac
     2101 cagattaggt tcggcttaga tgtactgtac tgtagtcgcc tgatacatct gcaaccaaaa
     2161 gaagatagag agtcaaacat ctatgaaata atcggcctat gaggaaatgc atttaccata
     2221 acgtcgcatt acgcgcaccg ctaaaacgca ctgaacgcga ttctgacgca gataccgcaa
     2281 aaagagatgt tttacccagt gaaaaccgaa aaaatgcgtc aggatcgttt tcagcccact
     2341 gcatagctat gcatgaaaat gaatgacgaa cggtttgggc gcatacggtg cccatgagac
     2401 acattttcgg acattttcag ttcgtgaatc cctgactcat tgctacatat ctgaacagac
     2461 acccctggca gcgcccccag gggcgtcctg taaaaaaaca caccgcgccg ctagcagcac
     2521 ccctgatata aaatgatgtt ttttataaaa atagtcagta ccacccctac aaagcggtgt
     2581 cggcgcggtg ttgtagctgc gccggcaccg cttttttaaa tatcgcaaag agagcaagag
     2641 aaactaattt ttcataacta tctatttata aagaaaaatc agcaaaaact tgtttttgcg
     2701 tggggtgtgg gcatttcagg aatgagaaca gactcgcgtt tttccggagt atcagcggaa
     2761 ttattgatta agaaacactc gacgcagagc gaaattttat gcaacagcgg ctgcactgca
     2821 cagggattat ttatcagttg atatgctgtg ccatgatacg tcctaaaaaa acaggacagg
     2881 atgtgcaatt gtaataccgt cgcccgcaac gtcttacaat taccacctgc tcagagtccc
     2941 cccgacaccc ggaactgacg gagaacaacg gaaggtgaac aaacaacaac aaactgcgct
     3001 gaatatggcg cgatttatca aaagccagag cctgacactg cttgaaaaac tggatgctct
     3061 ggatgccgac gaacaggcgg ccatgtgcga acgactgcac gaactcgcgg aagaactcca
     3121 gaacagcatc caggttcgct ttgagaccga aagtgaaaca ggaacataac gaagctgacg
     3181 gaggcgctca cggcttgtcc gcgagcgttt tcggcagcag acaagcccgt cagggcgcgt
     3241 cagggggttt tagcgggtgt cggggcgcag ccatgaccaa gtcacgtagc gatagcggag
     3301 tgtatactgg cttaaccatg cggcatcagt gcagattgta tgaaaagtgc cccatgccgg
     3361 gtgtgaaatt ccgcacagat gcgtaaggag aaaatgcacg tccaggcgct tttccgcttc
     3421 ctcgctcact gactcgctac gctcggtcgt tcggctgcgg cgagcggtac tgactcacac
     3481 aaaaacggta acacagttat ccacagaatc aggggacaag gccggaaaga acatgtgagc
     3541 aacaaggcaa agccaggaca aaaggccgcg ccgctggcgt ttttccatag gctccgcccc
     3601 cctgacgagc atcacaaaaa tcgacgctca agtcagaggt ggcgaaaccc gacaggacta
     3661 taaagatacc aggcgtttcc ccctggaagc tccctcgtgc gctctcctgt tccgaccctg
     3721 ccgcttaccg gatacctgtc cgcctttctc ccttcgggaa gcgtggcgct ttctcatagc
     3781 tcacgctgta ggtatctcag ttcggtgtag gtcgttcgct ccaagctggg ctgtgtgcac
     3841 gaaccccccg ttcagcccga ccgctgcgcc ttatccggta actatcgtct tgagtccaac
     3901 ccggtaaggc acgccttaac gccactggca gcagccactg gtaactgatt tagaggagtt
     3961 tgtcttgaag ttatgcacct gttaaggcta aactgaaaga acagattttg gtgactgcgc
     4021 tcctccaagc cagttacctt ggttcacaga gcgccaactc tttgaacctt cga
//
