LOCUS       NZ_AP022181             4491 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP7-S17-ESBL-04 plasmid pWP7-S17-ESBL-04_4,
            complete sequence.
ACCESSION   NZ_AP022181
VERSION     NZ_AP022181.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194555
            Sequence Read Archive: DRR199391
            Assembly: GCF_014169475.1
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-S17-ESBL-04
            isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4491)
  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                   :: 115x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:20:54
            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)                     :: 4,856
            CDSs (total)                      :: 4,736
            Genes (coding)                    :: 4,482
            CDSs (with protein)               :: 4,482
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 254
            CDSs (without protein)            :: 254
            Pseudo Genes (ambiguous residues) :: 0 of 254
            Pseudo Genes (frameshifted)       :: 71 of 254
            Pseudo Genes (incomplete)         :: 181 of 254
            Pseudo Genes (internal stop)      :: 45 of 254
            Pseudo Genes (multiple problems)  :: 40 of 254
            Pseudo Genes (short protein)      :: 4 of 254
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022181.1.
            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..4491
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WP7-S17-ESBL-04"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP7-S17-ESBL-04_4"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.5619 N 139.7531 E"
                     /collection_date="2017-07-10"
     gene            complement(101..295)
                     /locus_tag="H7R11_RS23895"
                     /old_locus_tag="WP7S17E04_P40010"
     CDS             complement(101..295)
                     /locus_tag="H7R11_RS23895"
                     /old_locus_tag="WP7S17E04_P40010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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_001041618.1"
                     /translation="MNKQQQAVLNMAGFIKSQSLTLLEKLDALDADEQAAICEKLHELA
                     EELQNSIQTRFEAENRTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            579..902
                     /gene="mobA"
                     /locus_tag="H7R11_RS23900"
                     /old_locus_tag="WP7S17E04_P40020"
     CDS             579..902
                     /gene="mobA"
                     /locus_tag="H7R11_RS23900"
                     /old_locus_tag="WP7S17E04_P40020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     gene            complement(1136..1417)
                     /locus_tag="H7R11_RS23905"
     CDS             complement(1136..1417)
                     /locus_tag="H7R11_RS23905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000786945.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_071830593.1"
                     /translation="MKNEDDYKTGWTTQTTNPATGKKCSGGAARNLRIYQAGGANSVRV
                     KAAIEGVQSIQPIIDIQQSQIEQQQVQIAMLTQSLSQAINELTKSRNK"
                     /name="hypothetical protein"
     gene            complement(1427..1684)
                     /locus_tag="H7R11_RS23910"
                     /old_locus_tag="WP7S17E04_P40040"
     CDS             complement(1427..1684)
                     /locus_tag="H7R11_RS23910"
                     /old_locus_tag="WP7S17E04_P40040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001508827.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001125013.1"
                     /translation="MPKKTSKPNDLSNTINNIKKEINSGFTELLNRVEALEASDAQHSM
                     AIRDLQIQARAARGDKRMDIARDFDLSEGRISQIVNAGRN"
                     /name="hypothetical protein"
     gene            2229..2939
                     /locus_tag="H7R11_RS23915"
                     /old_locus_tag="WP7S17E04_P40060"
     CDS             2229..2939
                     /locus_tag="H7R11_RS23915"
                     /old_locus_tag="WP7S17E04_P40060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000967646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_024165718.1"
                     /translation="MLYWKRMPSLWIGIKISEFNDLDTAKAIAALKIYLTFCLFCKESD
                     SGQRTVELTFSNLCEIASLSRSLVNEGLKILYAKELIKNLSTTVRKKIYTVDVLEKHDD
                     GWCKLPFKGIVGEDGKISAFQSMHNRYPFELLALQTYMYLLYARDNRNEYTLARKKTIC
                     KKLKCKLPELNKAITYLIHIGLLDRIVKKSIENKPLEMFHDSCYFYFRAGSNSALTYKR
                     KSEVLNLSEEDLPF"
                     /name="hypothetical protein"
     gene            complement(3050..3565)
                     /locus_tag="H7R11_RS23920"
                     /old_locus_tag="WP7S17E04_P40070"
     CDS             complement(3050..3565)
                     /locus_tag="H7R11_RS23920"
                     /old_locus_tag="WP7S17E04_P40070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000675352.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
                     /protein_id="WP_126896380.1"
                     /translation="MKFYTISSSYIKYLKDFDDKVPNSEDPTYNNPKAFIGIVLEIEGH
                     KYLAPLTSPKAWHANIKESSPAFFKLHENGVPDNQLGLINLKFMIPIIEAEVSLLDLDS
                     MPDTPYKRMLYKQLQFIRVNEDKISEKSKLLRNLALQGRMQGTCDFSVLEEKYQHFGKK
                     PEDMEIDD"
                     /name="type III toxin-antitoxin system ToxN/AbiQ family
                     toxin"
     Typing          331..570
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.755"
                     /coverage="100.0"
                     /evalue="7.66e-118"
     Typing          complement(3800..4301)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="81.015"
                     /coverage="99.0"
                     /evalue="1.1e-104"
     Typing          580..899
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="3.8699999999999998e-62"
ORIGIN
        1 ccgagcgtag cgagtcagtg agcgaggaag cggaagagcg ccttatgtga cattttctcc
       61 ttacgctcct ctatgccgtt ctgcatcctg tccggatgcg ttatatcccg gtgcgatttt
      121 ccgcttcaaa gcgtgtctgt atgctgttct gaagttcttc cgcgagttcg tgcagcttct
      181 cacatatggc ggcctgttcg tcagcatcga gtgcgtccag tttttcgagc agcgtcaggc
      241 tctggctttt tatgaatcct gccatgttga gtacggcttg ctgctgcttg ttcatctttt
      301 cgttttctcc gttctgtctg tcatctgcgt tgtgtgatta tatcgcgtac cacttttcga
      361 ctgttttacc gccggtattc tgccgtctga cactttgacg ggtatttctg cctgacaata
      421 ctgtcactgc caaaaaactg ccgtgtcttt gtcggtaatt cgaacttgct gacaggacag
      481 gatgtgtaat tgttataccg cgcatgcatg cacgctatta caattaccgt ggtcagggct
      541 ttgccccgac acccatgtca gatacggagc catgttttat gacaaaaaga agtggaagta
      601 atacgcgcag gcgggctatc agtcgccctg ttcgtctgac ggcagaagaa gaccaggaaa
      661 tcagaaaaag ggctgctgaa tgcggcaaga ccgtttccgg ttttttacgg gcggcagctc
      721 tcggtaagaa agttaactca ctgactgatg atcgggtact gaaagaagtt atgagactgg
      781 gggcgttaca gaaaaaactc tttatcgacg gcaagcgtgt cggggacagg gagtatgcgg
      841 aggtgctgat cgctattacg gagtatcacc gtgccctgtt atccaggctt atggcagatt
      901 agcttcccgg agagaaaact gtcgaaaaca gacggtatga acaccgtaag ctcccaaagt
      961 gatcaccatt cgctttcatg catagctatg cagcgagctg aaaacgatcc tgacgcatcc
     1021 ttcctgtttt cccggggtaa aacatctctt tttgcggtgt ctgcgtcaga atcgcgttca
     1081 gcgcgtttct gcggtgcggg taacggatgt tatggtaaat aacatccgtt atagcctatt
     1141 tattcctgct ttttgttagc tcattgattg cctgagacaa agattgagtc agcattgcta
     1201 tttgaacttg ctgttgctca atttgtgact gttgtatatc aatgattggc tgtattgact
     1261 gcacaccctc gattgcagct ttaacccgca cggagtttgc tccgccagct tggtatattc
     1321 ttaagtttcg ggctgcgcct ccagaacatt ttttccctgt tgccgggttt gttgtctgag
     1381 tcgtccatcc tgttttgtag tcgtcttcat ttttcataag tctgccttag ttacgacccg
     1441 cattaacgat ctggctaatt cgtccctcgc tgaggtcaaa gtctcttgct atatccatac
     1501 gtttgtctcc gcgagcggct ctagcctgaa tttgtaaatc acgtatcgcc atgctgtgtt
     1561 gtgcgtcact agcctctaag gcttctacgc gattaagtaa ctcagtaaaa ccggagttaa
     1621 tttctttctt tatgttgttg atagtgttgc ttaaatcgtt tggttttgat gtttttttag
     1681 gcatggcata tttctctata ctcggcggct aagtccgcta aagattttta gttttgttaa
     1741 agttgtaagg tagggattat tgctcctttt ggcaaggtaa atttaatgag ataaagaaat
     1801 ttagtacttt atgcagggtg gcttgcaagg cacaacgctt tgtttgttct gatctaaagt
     1861 cctaatgtga aaacatttaa cgtaactaaa aatgcatcag cactgcattt acagttcacc
     1921 atgaaccata atatgatttc taagaatact aaaagcaaaa taaaatctct tatataacat
     1981 atagatacct ttcttttgcc ttattttttc tttctagata gatttttgtg aaggcgttac
     2041 aacgccttca cagcctgaga taatcaaaaa aacaaagcta tcaggaggga taaaaaatgt
     2101 ttgagaaagg tgtgtttttg gctgaaaggc ttgcgaaggt cgcagtggtg ctaactaatc
     2161 tggtgctatc tctgtctgta ttggggttgg tctatttcat ttttcaaatt ctgggaatga
     2221 ggtgatttat gctgtactgg aaaagaatgc cttcactatg gataggtatc aaaatatctg
     2281 aattcaacga tcttgataca gcaaaagcca tcgccgcgtt aaagatttat ttaacatttt
     2341 gccttttctg caaagagtca gattcaggac agagaactgt tgagctaact tttagtaacc
     2401 tatgtgagat agcatcatta agccgatcgt tagttaacga agggcttaaa attctttatg
     2461 caaaagagtt gataaaaaat ttatcaacga cagtacgtaa aaaaatttat accgtagatg
     2521 tattagagaa gcatgatgat ggttggtgta agcttccctt taaaggaatt gtaggtgaag
     2581 atggaaaaat aagtgcattt caatccatgc acaacagata tccatttgag ttgctagctt
     2641 tacaaaccta catgtacctt ctttatgctc gtgataatag aaatgagtat actcttgcta
     2701 ggaaaaaaac aatatgtaaa aaactgaaat gcaaactacc tgaactaaat aaagctatta
     2761 cctatcttat tcatattggt ttacttgata ggattgttaa aaaatcaata gaaaacaagc
     2821 cgttggaaat gtttcatgat tcatgttact tctactttag agcgggaagt aacagcgctc
     2881 tcacttacaa aaggaaatca gaggtgctta atctttcaga ggaggacttg cctttttgat
     2941 tgcttctcga aatcaaaatt agaatatttt attcttatat tggatgagag caaaaaaata
     3001 ggtccaaaac cgcttgattt tggaccttca attccataaa aaagaatggt taatcgtcta
     3061 tttccatgtc ttcaggtttt ttaccgaaat gttgatattt ttcttctaat acggaaaagt
     3121 cgcatgttcc ttgcattctg ccttgcaagg caaggtttct taatagtttt gatttttcag
     3181 atattttatc ttcatttaca cgaataaatt gtaactgttt atatagcatt cttttgtaag
     3241 gcgtatcagg catgctatcc agatcaagta aagacacttc agcttcgatt attggaatca
     3301 taaatttcag attaatcaat ccaagctgat tgtcagggac accgttttca tgaagtttga
     3361 agaaggcggg tgatgactct tttatattag catgccatgc ttttggcgac gttaaaggtg
     3421 ctaaatattt atgtccttca atctctagta ctatgccaat gaaagcctta ggattgttgt
     3481 atgtaggatc ttcgctattg ggaactttgt catcaaagtc cttcaggtat tttatgtaac
     3541 tgcttgatat tgtgtaaaat ttcatttttt ttctcataaa aaaggcgact gtgtatagtc
     3601 gcctttttta ctttattact ttaaggtagt aaatgaccta aatttctagc tgcacttaaa
     3661 ggtagcaaat cacctaaatt tctagctgca cttaaaggta gcaaatcacc ttgaactaag
     3721 tatacatgat cttcgcttgg gcttacaact aggtgcttag catgggatgt tcagtcaaat
     3781 gacggcacta atcaaaagga tcttcttgag atcatctttt tctgcgcgta atctcttggt
     3841 ctgaaaacgg aaaaaccacc cggcaaggtg gttttttcga aggttcagta aaccggcaag
     3901 tttctgaacc gtggtaactg gctttcgcag agcacagcaa ccaaatctgt ccttccagtg
     3961 tagccgtact gaggcgcaca cttcaagagc aacctcgtgt ttagctaaca aatcatctgc
     4021 gaaccaagtt accaatggct accgccactg gcgatttttc gtgtctgttc cgggttggac
     4081 tcaagatgat agttaccggg acaacgtggt agtcgggctg aacggggggt tcttgcacac
     4141 agcccagctt ggagcgaact gtctaaacgg aacgggacgt ggtgatttag gtaaagcttc
     4201 caccacaaca cggatgccgc aggacgggaa caggagagcg caagagggag ccgccagggg
     4261 gaaacgcctg gtatctttaa gtcctgtcgg gtttcgccac ctctgacttg agcgtcgatt
     4321 tttgtgatgc tcgtcagggg ggcggagcct atggaaaaac gcctgcggcg ctggcttctt
     4381 ccggtgcttt gctttttgct cacatgttct ttccggcttt atcccctgat tctgtggata
     4441 accgtattac cgcttttgag tgagctgaca ccgctcgccg cagtcgaacg a
//
