LOCUS       NZ_AP022180             5166 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP7-S17-ESBL-04 plasmid pWP7-S17-ESBL-04_3,
            complete sequence.
ACCESSION   NZ_AP022180
VERSION     NZ_AP022180.1
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  JOURNAL   Unpublished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 5166)
  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
            AP022180.1.
            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..5166
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WP7-S17-ESBL-04"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP7-S17-ESBL-04_3"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.5619 N 139.7531 E"
                     /collection_date="2017-07-10"
     gene            complement(101..1015)
                     /locus_tag="H7R11_RS23870"
                     /old_locus_tag="WP7S17E04_P30010"
     CDS             complement(101..1015)
                     /locus_tag="H7R11_RS23870"
                     /old_locus_tag="WP7S17E04_P30010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /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_001271348.1"
                     /translation="MSAALQYFDENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            2751..2960
                     /locus_tag="H7R11_RS23875"
                     /old_locus_tag="WP7S17E04_P30020"
     CDS             2751..2960
                     /locus_tag="H7R11_RS23875"
                     /old_locus_tag="WP7S17E04_P30020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_182913532.1"
                     /translation="MAKLGENTPHIIDATVDFMASSHAFLEYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     gene            complement(3026..3559)
                     /locus_tag="H7R11_RS23880"
                     /old_locus_tag="WP7S17E04_P30030"
     CDS             complement(3026..3559)
                     /locus_tag="H7R11_RS23880"
                     /old_locus_tag="WP7S17E04_P30030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168770.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(3562..4488)
                     /locus_tag="H7R11_RS23885"
                     /old_locus_tag="WP7S17E04_P30040"
     CDS             complement(3562..4488)
                     /locus_tag="H7R11_RS23885"
                     /old_locus_tag="WP7S17E04_P30040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /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_001331297.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            4665..5063
                     /locus_tag="H7R11_RS23890"
                     /old_locus_tag="WP7S17E04_P30050"
     CDS             4665..5063
                     /locus_tag="H7R11_RS23890"
                     /old_locus_tag="WP7S17E04_P30050"
                     /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_001222914.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     Typing          complement(241..1015)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.778"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          complement(3566..4488)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agccgcgcca ttgcagggct gaacggggaa aaacggcaaa aaacctgctg ctcaaaaaga
       61 cgccagaaag gcgctgttat ctgatatagg cttatttggt ctactctacg agacctcgtt
      121 ttttcagttg gtaataccag gcgcgactga tccctaatgc ctcccacggt ttcagcgtgc
      181 gtgcagatgt agctactgtg ctgcgcttag acttagaacc gcccttgcga ccgcgtgcag
      241 cctgaatttc tggcgtgtgc gtatcagcca catactgtgc gaaagtttcc ggcgtgaagt
      301 tcctgtgcgt gtatttcgca atgctcttgc caatagcccg acattcagcc agtgaaagcg
      361 gaacgggaag cgatgcattg tacatttcga cacgctggat caccgcttca agccactgtg
      421 agaacgctgg ccagccctga cgaatcgccc tgtaagccca tttgcgcgtc atttcgaaca
      481 ggtggcagtt tcgccccatc ccgtaatgtt tatcgatgct acgacgctct gaggcgctca
      541 aatcgagata atcagccagt tcatcgaggg tataggcttc ctcgcgccac tccatcacca
      601 gccattccag gtggaacgga tttttgcaaa tcaggccgct gtagttcaca tccgcacaaa
      661 gtttctcaca cagcgaacgt tcaaccgctg cggcatattt cagcgcctta accgaggcat
      721 caggcgcggt tctcacggcg atgttgagtg cgtagagcag gtgagcgtgt ccgttcacag
      781 gatttttaac ggtgatgttc ggcgcgggag cgttccggtc gctccagtca atcgcagccc
      841 cctcgcggtc aacgtcaaaa accagccaga actgcgcatg aggctggttc tgctgtatgt
      901 accgcgcaag aagcgcacgc cctttgccgg agatgcgaag accaaaagcg agatcatccg
      961 tgtgataggg acgatggggt aaattttcgt cgaagtattg aagcgcggcg ctcatgtgtt
     1021 acgattctct ccgggttatg cgacctacac gccctctgta tttcatgttg aatcttgccg
     1081 gatctggaca tgatttcagg ggcgtttgtt tttcagtcgc ttacactaca cccaacggca
     1141 aatcctgtcg aaccttcccg aaaacccgat ccatttacca taactcccgt tgtacgcccc
     1201 ccttaaaacg ccctcagtcg ctttctggcg caaaaaacgc aaaaagacaa gaaaacacca
     1261 ggccaaacca gaaaaacgcg tcagaatcgt tttcagggcg ttgcataact atgcacgaaa
     1321 gcgatgtgcg atcggtttcg tgcgttctga acaccgaacg gctcaaaacg acaagttttc
     1381 tcccctggtg cgtggcgctc tgacggggtt tcctgtttcc aaacttcaca tctcgccagg
     1441 acaaaaaaaa accgacctgg ggtcggtggc aagaatcaga gtctatggga aatattttag
     1501 ttatcggatg ctcaatattc acaaacgcaa aaaatgcctc agtgatgccc taaaacaacc
     1561 tttccagaag gagtccgcgc tttacgatgc acggaagaga taaaaaaccc cacaaaagtg
     1621 gggaaccaag agaaacaaca attacaggtt gttggttgtg ttcgaacaac gatgaagtag
     1681 ctacgctaaa taataattac cgtacaggcc ctacatattc aacactaaat ttaagatcct
     1741 gacgaaggat ttataaatgc acgaaaacac atagacagac aaattcacta aattcataca
     1801 caaaaacaag tgtagttttc taagtaaatt agattcgaca accaattagt ttatccacat
     1861 cgcattccac tcttgctaca ccaatcacat ttcttgatat gtaatagcag aaaaaataaa
     1921 accagacacc aatagaccaa aaaacaaaca ttcaacaaga aacattttga acaatatcac
     1981 aaaactgtca caaccatcat cagactattg aaaaaaactg gttgctgttt tataaaagcg
     2041 actgtaacaa cctccactct atagttccat tagtttaaag tgtcacacaa actgagcatc
     2101 catttgtttt ccttactttt gcccctgtat tccaaggggt ttttttataa cttaaagatt
     2161 agcacaccac acaaaaacaa taaaaaaaac gacaagttat acaataaaac cagtactatc
     2221 catacagcta attacatata aatactatta aaccatctgg acattaaaaa taaactctta
     2281 taacataaaa ttaatgcggt tccggtacca tatgtcaggg ataatgtgca aatggaggta
     2341 tcggaactgc atttcagttc attattaatt aatgacaaaa aaaacctctg cgagcgcaga
     2401 gggggtaagg aatgttcccg gtcataatat gtcgatagtg tttatataca tacagaacaa
     2461 gaacaacaac cagccaacta ataaatattt tattttttag agctgaaacc ttaaagctca
     2521 cttccattcc atacattgtt ataaacctta tgttgaaaac tgaaagtaag tacggcagac
     2581 ttattaagtt gcgtgcagtc ttttcacgtt atacaaacaa gaacacctgc gaagttattt
     2641 ctccttacat atccccctat gccaacgggg gattttttct ggttcactaa cgcataaata
     2701 atagtgacac cctatcattc acaaaccgtg ataatataag gattatcatc atggcaaaat
     2761 taggtgaaaa caccccacat attatcgatg ctactgtaga ttttatggca tcaagccatg
     2821 catttcttga gtatctgaaa aaacttcccc ctgataacac aataccgcca gctcttactg
     2881 atgagcacgt accgttatat atacgaaggc tggaatacta tcgtctgctt tatcgaccaa
     2941 agcagacaga atcatattga aaaaaacggt gaacggttcg cgaaatcctt tcgcgggtcg
     3001 tgaggcgttg gacaagcgaa gcgcgtcagt ttttccggct cttccccgtg acaggtttct
     3061 ccaccagttt atcttccagt gtcacaactt tctgatacac cgccgctgtg gcgttgtagt
     3121 tcctgtcgag tattgttttc attccccatc cgagcacaca gaacataacc agaaaagcca
     3181 ctgacacccc acccagccat ttccagctat accctttaag ggtgttgtat tcctgcacga
     3241 tattgctgtg aattgtcgca atatccctgt tcagggcatc cgcgtttgcc ttcatgtttg
     3301 cgactgactc ttccagccgc tgaaaatcct ggctgatgcg ctcacctatc agtcctgcca
     3361 cgtccagctt ctgcacctca tttctgactt catccctgac ctgttttgcc acaccgtcag
     3421 aaatatcccg atatccgcga agagtttccc ttgccacagc cagagaatca gcaacagctt
     3481 tctgttgctc cattgcggta tgttgcagat gctccaccga taacaggagc gtgagtaatt
     3541 tttcttctgt gctggccatg ttcagaatcc catagaaaat ccacgtgacg gtgatttaac
     3601 ccgttcaggt gcagttcggt tctgtctgct cactctgtct ctcatgtcaa agccatgctc
     3661 ccgcgcaaca tcatgttgca gccttctgac cagttcatgt tgcttaaccg gagtgtccag
     3721 ccattccctg atgtcatgcc cgaccgttcg cgcctgttca agatggcggg aatagtccgg
     3781 ttcagaccgt ttttgcatga tgtcatgacg ctgggcatca tcaagccgtc cggcagcttc
     3841 aaaacccaga tgcacttcgg gacgtcgttc aatgccctgt tctttcagcg tccggcagtc
     3901 aatgaagccc ctttcaaagc catgctttct catatgttcg ttgtgcttca cctcccagcg
     3961 ttttcgcaat tcccgcaact gctctttttg ctgagtgaga gtcaggcttc cggaatcctt
     4021 tttcgcacct ccccgctcgg gatacctggc gttatagcgc cggaaatact gttccggtgt
     4081 acgttcaatg ccatcattca cacgctgact catcatgata tgcgcatgag gctgttcgcc
     4141 gccgtcaatg ctcgctttcg gattgtgaat ggcaaaactc caggcgtgcc gttcgccagc
     4201 ttcctgacgt acaaaatcct gcaccagttc aaggcgctgt tccggtgtca gttcacgggg
     4261 taatgcaatt tcaagttccc tataggtcga accgttcgca cgttcaaact ggtcagccgc
     4321 ctgccagaaa tgggaaggat tatccctggc ccattccggc atgtttccgt gtgcggaata
     4381 ttccaaatcc tgacggtcgc ggtatttctc tttgcgctcg atgtaatcgg cgtggtttgc
     4441 agcctgcccc ttgccaccaa atttaacgct gaggtgatag gttgccacgg tttcagccct
     4501 ctgcaggagc gcactgtttc tcgacgaagg agagaaacat ataagtgcgc ttccttctaa
     4561 ttttacgaat tagcacggaa gataccccct gcacccgccg accgcaagcg atatactgca
     4621 cgaccacaac acaccgcaaa aaaacaccag ggagcatcac gaacatgcgc atcagcaaca
     4681 tcgaatggct gaagaaacgg atcggattca tcaggaagct cggagaacag accgcacgac
     4741 agagacagat tattgacctg atcgacaacg aagccggact cacagaacag gaacgcaaac
     4801 ttctccacgt actggcaaca gcggaaaaaa acgacttaca ggcacaggag agcgaacgaa
     4861 aacaggcggt ccaaaaacga atcgagggaa aaaaacaacg acgggaacgc aatcaccggc
     4921 tctttctcgc ggctgggcta ctgatcgaag caggactggt agacacaaaa acaggcgagc
     4981 tatgctataa aaaagacagg atattacaag cacttaagga acttaagtac gatctggaga
     5041 catccccaaa cccagacgcg taagtgcctc catccgtgtt ccgattccct ggtgcttcct
     5101 cgctcattcg ctcgctacgc tcggtcatga gactgcggcg agcactacca ccacaatcac
     5161 gcggaa
//
