LOCUS       NZ_CP124384             1822 bp    DNA     circular CON 07-JUN-2024
DEFINITION  Escherichia coli strain AVS0578 plasmid pAVS0578-j, complete
            sequence.
ACCESSION   NZ_CP124384
VERSION     NZ_CP124384.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34360983
            Assembly: GCF_029990415.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1822)
  AUTHORS   Biggel,M.
  TITLE     Genomic characteristics of ESBL-producing Escherichia coli ST131
            isolated from the water ecosystem in a defined region in Switzerland
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1822)
  AUTHORS   Biggel,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-APR-2023) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x, 100x
            Sequencing Technology :: Illumina MiniSeq, Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029990415.1-RS_2024_06_07
            Annotation Date                   :: 06/07/2024 03:37:34
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,439
            CDSs (total)                      :: 5,325
            Genes (coding)                    :: 5,097
            CDSs (with protein)               :: 5,097
            Genes (RNA)                       :: 114
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 228
            CDSs (without protein)            :: 228
            Pseudo Genes (ambiguous residues) :: 0 of 228
            Pseudo Genes (frameshifted)       :: 81 of 228
            Pseudo Genes (incomplete)         :: 162 of 228
            Pseudo Genes (internal stop)      :: 38 of 228
            Pseudo Genes (multiple problems)  :: 47 of 228
            Pseudo Genes (short protein)      :: 1 of 228
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124384.1.
            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..1822
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0578"
                     /isolation_source="environmental: river/lake"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0578-j"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2021-07-07"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            105..638
                     /locus_tag="QJP97_RS27150"
                     /old_locus_tag="QJP97_27145"
     CDS             105..638
                     /locus_tag="QJP97_RS27150"
                     /old_locus_tag="QJP97_27145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005707163.1"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA];
                     GO:0006276 - plasmid maintenance [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_000893324.1"
                     /translation="MLEQQFEDFEQQKRRDHQAQDQSKSAKQKRDRLNPPDWSQVTKAG
                     WNMLDSISEKVPRAFRLYSFFAQNIDKSCGAVVCDQKFLADYFGVSLRTIQYWIGDLES
                     IGAIVKIPVGIYYAYALDPYQVWRGYNKSKKYAAFNAKTLTQKDGVIDRKLRLMLSRRE
                     EFEGSLKTSNHDLD"
                     /name="replication/maintenance protein RepL"
     gene            651..938
                     /locus_tag="QJP97_RS27155"
                     /old_locus_tag="QJP97_27150"
     CDS             651..938
                     /locus_tag="QJP97_RS27155"
                     /old_locus_tag="QJP97_27150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001220925.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023909281.1"
                     /translation="MRIKYESRWKLEELKLEICRSIDSLIDEYHIEYAMGINLYMNCED
                     KEFNPVDIVNEDGKNIMFVVSNNEKIQKPKKSAKKKIPAPVIELDKYRKK"
                     /name="hypothetical protein"
     Typing          complement(1181..1441)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.985"
                     /coverage="100.0"
                     /evalue="1.85e-99"
ORIGIN
        1 gttatttgca tgtgtatacg caaacatgtt tgcgtgtgtt gtttcgtaat gtacgatata
       61 aatttcgtaa ggtacgaaac aacgttgcag gtaaggatgc aagtatgctg gaacagcaat
      121 ttgaagattt cgaacagcaa aaacggcgag atcatcaggc acaagatcaa tccaaaagtg
      181 ctaagcaaaa acgagatcgg ttgaatccac ctgactggtc gcaggttact aaggcgggct
      241 ggaatatgtt ggactctata tctgagaagg ttcccagagc atttaggcta tattcttttt
      301 ttgctcaaaa tatagataaa tcgtgtgggg ctgttgtatg tgaccaaaaa ttcttagctg
      361 attatttcgg tgttagttta aggacgatcc aatattggat tggagattta gaaagtattg
      421 gtgccatcgt gaaaatacca gtaggtatct attatgctta tgcgttagat ccgtatcagg
      481 tatggcgcgg atataataaa tctaaaaaat atgcagcgtt taacgcaaaa acattaactc
      541 aaaaagatgg cgttattgat cgcaagttgc ggctcatgct ctctaggaga gaagagtttg
      601 aaggctcgct taagacatct aatcatgact tggactaggt atgatgcgct atgagaatta
      661 aatatgaatc acgttggaaa ttagaagaac taaaattaga aatatgtaga tcaatagatt
      721 cgttaattga tgaatatcat atcgaatatg caatgggaat aaatctatat atgaattgtg
      781 aagataagga gtttaatccc gttgatattg tcaatgaaga tggaaagaat attatgtttg
      841 tcgttagcaa caatgaaaaa atacaaaaac caaaaaaaag tgcgaagaaa aaaattcctg
      901 cacctgtaat tgagttagat aaatatcgga aaaagtgatg gccatacaga gccagcggca
      961 ggcggacaat ccacagaaca ttgcatgcaa tttctagttg attgtctatc ctgcattgct
     1021 cttttgccgc ctcaaaatcc cttgcgtctt tttgctcccc gttttccaga acgaccgagc
     1081 cgccacggtt ccggcagcgc cttgagcgca accggaaacc gtctggggag aaccccagac
     1141 ccccatcgct gtaacatcga cggtctacga ccacctacca accgcgtggc tgcctattcc
     1201 gtgcaaatgg gctttgcagg gggctgacgc ggttcctggc gacctgaaat cccctggtta
     1261 ggggtatcgg cgcgcctgac ctcctaaaac cctctgtaag cgtttttcgc gccttccatg
     1321 ccctgatggg catttaaaac ccgtttcgtg cgtctgagag cttctgagag cgtttgaaga
     1381 gctatctggc gactcatccc cgaaagaaca acagcggaat caccgataac atgcgagagg
     1441 tggcaccgct cgccgcagcc ccagcgaccg aacgttagtg agcgagtggg cgaggaagcg
     1501 gaagagaacc ggaaaccaca ttgagcacgt acgcactgat gcggggcgtt ttagcggtga
     1561 acggactgca aaaacatgat cgagctgttg aacgtggaga gcgcgaaatc gggcaaaatc
     1621 acggctgacg aggcttgcag aagagtaagc cagtatacac tccgctatcg ctacgtgact
     1681 gggtcagggc ttcgccccga caccccaaat gttcgatgaa ctaattaaat cttgtgtagc
     1741 aaaaaagtgc tttgatagat ctttagagca aaaatcgaca ttctcttaaa aatcaaagca
     1801 ttatgacacc aacatacgaa ac
//
