LOCUS       NZ_AP022103             2188 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain WP4-S18-ESBL-09 plasmid pWP4-S18-ESBL-09_5,
            complete sequence.
ACCESSION   NZ_AP022103
VERSION     NZ_AP022103.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00194483
            Sequence Read Archive: DRR199319
            Assembly: GCF_014169175.1
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-S18-ESBL-09
            isolated from wastewater treatment plant effluent
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2188)
  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                   :: 224x
            Sequencing Technology             :: Sequel; NextSeq 500
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:00:21
            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)                     :: 5,009
            CDSs (total)                      :: 4,894
            Genes (coding)                    :: 4,728
            CDSs (with protein)               :: 4,728
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 166
            CDSs (without protein)            :: 166
            Pseudo Genes (ambiguous residues) :: 0 of 166
            Pseudo Genes (frameshifted)       :: 63 of 166
            Pseudo Genes (incomplete)         :: 106 of 166
            Pseudo Genes (internal stop)      :: 35 of 166
            Pseudo Genes (multiple problems)  :: 35 of 166
            Pseudo Genes (short protein)      :: 5 of 166
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP022103.1.
            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..2188
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="WP4-S18-ESBL-09"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pWP4-S18-ESBL-09_5"
                     /geo_loc_name="Japan:Tokyo"
                     /lat_lon="35.6514 N 139.4813 E"
                     /collection_date="2018-08-06"
     gene            complement(101..526)
                     /gene="mobA"
                     /locus_tag="H7R19_RS24730"
                     /old_locus_tag="WP4S18E09_P50010"
     CDS             complement(101..526)
                     /gene="mobA"
                     /locus_tag="H7R19_RS24730"
                     /old_locus_tag="WP4S18E09_P50010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001107325.1"
                     /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_113451212.1"
                     /translation="MVKNKRSGSETRQRSKVITLRINNKIDREIRRLAKAEGMTISEYI
                     RTSCLNKEIIQRIPSRYLDELLELGRMQKNLFDKGRTPKDKDYLDVMHKIITLCAEAKE
                     VILRNSDIYKEMDLLKQEIKIIKQHYKNKYPGSDLFN"
                     /name="mobA"
     gene            1752..2165
                     /locus_tag="H7R19_RS24735"
                     /old_locus_tag="WP4S18E09_P50020"
     CDS             1752..2165
                     /locus_tag="H7R19_RS24735"
                     /old_locus_tag="WP4S18E09_P50020"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_113451211.1"
                     /translation="MGAKFLDQKTGVILEEPEFVKLYIRDLCRVKGLSATQYKIFTFML
                     ANMNTDNVVSFGPRTKEKFLSEHSIKPQTFNNNVSQLIDSCLISRIARNEFLVNKKYAV
                     KVDWEKVQKIVWTTTYSNEGVDSTVTIAPKKTD"
                     /name="replication/maintenance protein RepL"
     Typing          complement(1127..1385)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.091"
                     /coverage="100.0"
                     /evalue="6.999999999999999e-64"
ORIGIN
        1 cgataaaaca aaagtaagat ttatgtaact aatgtaataa tcatgtcgct aatttttcta
       61 ttataggtct ttaaattttt ataaagacct atgttctgtt tcaattaaat aaatcagaac
      121 ctgggtattt atttttatag tgctgtttga ttatttttat ttcctgtttt aataaatcca
      181 tctctttata tatatcagaa ttacgtaaaa taacctcctt cgcttctgca cacagcgtga
      241 ttattttgtg catcacatca aggtagtcct tatccttcgg tgttcttcct ttatcaaata
      301 aattcttctg catccggcca agctctaata attcatccaa atatctggaa gggatgcgct
      361 gtattatttc tttatttaaa catgacgttc ttatatattc tgaaatcgtc atcccttccg
      421 cctttgccag gcgtcggatc tccctgtcaa tcttgttatt tatccgcaag gttataacct
      481 tgcttctctg ccgtgtttct gagccgctgc gcttattttt aaccatcaca atgaacctct
      541 ggtttccacg ttcggggtgt cggggcctgc cctgacagga ggtattttca tacaagcgaa
      601 tgtattcgcg gtatgacaaa tacacatcct gtcccatttt tcgctacaac ttttcggcgg
      661 aaaataaaaa aaccgcctca taagctggta tcttcaatac aaaaaagcaa ggcatcacgc
      721 aatatttttt acacaggttt taaaatggtg cttgttattt ttttattatg tttatttgat
      781 attacgtttc ttctcttatt gtctgcggta tatatatgct aaataattat ttaatcctcg
      841 cgatagtatt atttttagtg ttaaccgatg ccgtcaacat gctcgattaa ggcagaaatc
      901 gcacagatta caacgatgaa gcgaatatat atgtgtgtgt atgataacta tcgcgtttat
      961 atatatgaaa tataagttca gttcgcgctt taatttccga cctgtcgttt tttgttaaaa
     1021 aaaacccgcc acggttccga cagcgccttg agcgctaccg gaaaccgtct ggggagaccc
     1081 ccagaccccc gccgctgtaa caccaacggt cttcgaccac ccaccaaccg agtggcggcc
     1141 tgtcccgtgc ggttgggctt tgcagggggc ttgcgcggtt cctggcgacc tgaaagcccc
     1201 tggttagggg tatcggcgcg cctggcctcc tgaaaccctc tgtaagcgtt tttcgcgcct
     1261 tccatgccct cacgggcatt taaaccccgt ttcgtgcgtt tgagaggctc tgagcgcgtt
     1321 taacaggtgg ccaacgactc gatcgcctga gatcaaatct ggatcgtcaa cgatatgcga
     1381 gaggtggcac cgctcgccgc agccctagcg accgagccgg caggctcgcg agtgggcgag
     1441 gaagcggaaa ggaacctgta ttggcatagt gcacttacgc acgagatcta agatagattc
     1501 atagacagat aggaaaatca ggtgtggcaa ggcctagagc caaactaaat accgctcagc
     1561 gggaataaag ataccgctca gcggtaaagt ttttaccgct gagcggaggt tgaaataccg
     1621 ctcagcggta tttcaaatac cggaatactg ttgttgttgt cgataaaata ccgaaaaaaa
     1681 agtatttaca tagttgtgga acatacataa gataccgata aaacggtaac taaattacct
     1741 gtgaggcgag aatgggagcg aaatttttag atcaaaaaac gggcgtaatt ttggaagagc
     1801 cggagttcgt gaagctgtat atccgtgatt tatgccgtgt taaaggacta tcagcaacgc
     1861 aatacaaaat atttacgttc atgcttgcta atatgaatac tgataatgtt gtttcatttg
     1921 gaccaagaac taaagaaaaa tttttatcag aacattcaat taaaccacaa acatttaata
     1981 ataacgtgtc tcaactgatt gactcatgtt taatttctag aatagctaga aatgaattct
     2041 tggttaataa aaaatacgcg gttaaagttg attgggaaaa agtacaaaag atagtatgga
     2101 caacaactta tagtaatgaa ggggttgatt caacagtgac gatagccccg aaaaaaacgg
     2161 attaatttct tatattggta aaagatgt
//
