LOCUS       NZ_CP124459             1306 bp    DNA     circular CON 10-JUN-2024
DEFINITION  Escherichia coli strain AVS0193 plasmid pAVS0193-D, complete
            sequence.
ACCESSION   NZ_CP124459
VERSION     NZ_CP124459.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34360967
            Assembly: GCF_030037975.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1306)
  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  JOURNAL   Unpublished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 1306)
  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_030037975.1-RS_2024_06_10
            Annotation Date                   :: 06/10/2024 05:19:23
            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)                     :: 5,282
            CDSs (total)                      :: 5,170
            Genes (coding)                    :: 4,921
            CDSs (with protein)               :: 4,921
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 249
            CDSs (without protein)            :: 249
            Pseudo Genes (ambiguous residues) :: 0 of 249
            Pseudo Genes (frameshifted)       :: 88 of 249
            Pseudo Genes (incomplete)         :: 188 of 249
            Pseudo Genes (internal stop)      :: 40 of 249
            Pseudo Genes (multiple problems)  :: 57 of 249
            Pseudo Genes (short protein)      :: 1 of 249
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124459.1.
            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..1306
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0193"
                     /isolation_source="environmental: river near WWTP effluent"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0193-D"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2020-11-26"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            complement(49..480)
                     /locus_tag="QJP76_RS26345"
                     /old_locus_tag="QJP76_26345"
     CDS             complement(49..480)
                     /locus_tag="QJP76_RS26345"
                     /old_locus_tag="QJP76_26345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001233485.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_063269671.1"
                     /translation="MRRVTQIDQESGEELGGFVAVIRPKQKSSFQRHFTMNQAALITIA
                     NELNHDQIRVLMALLADLDYENYIQVAQIDIADALKMQKTNVSRAIKNLIDFGIIIEGP
                     RIGRSKTYRLNPQFGWKGTVSNHRKALKNGLSVIQGGRV"
                     /name="helix-turn-helix domain-containing protein"
     gene            686..907
                     /locus_tag="QJP76_RS26350"
                     /old_locus_tag="QJP76_26350"
     CDS             686..907
                     /locus_tag="QJP76_RS26350"
                     /old_locus_tag="QJP76_26350"
                     /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_158414302.1"
                     /translation="MCKCNTVTRDDIPFAVWSGLRPDTPHQCVRAQCGFRFSSASSPTR
                     SLRSVAGAAASGVTSRMLSVIPLLFFRG"
                     /name="hypothetical protein"
     Typing          complement(667..747)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.122"
                     /coverage="87.0"
                     /evalue="9.59e-28"
     Typing          861..1119
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.0"
                     /coverage="99.0"
                     /evalue="1.09e-111"
ORIGIN
        1 tcaaaacgtt aacacgtagc ccctgattgt ccgcctgccg ctggctcttt aaaccctgcc
       61 accctgaatg acgctaagac cattcttgag tgctttcctg tgattgctta ccgtcccttt
      121 ccatccgaac tgaggattca agcgataggt tttactacgc ccgatccttg gtccttcgat
      181 gatgatccca aaatcaatca agttttttat tgcgcgactg acgttcgttt tttgcatttt
      241 caatgcatcc gcaatatcga tttgcgcaac ttggatgtag ttttcgtagt caagatcagc
      301 tagcaaagcc attaaaacac gaatttgatc atgattaagt tcgtttgcaa tcgtgattaa
      361 cgcagcctga ttcatcgtaa aatgcctctg aaatgacgat ttttgcttgg gacgaataac
      421 tgcaacaaat ccgcccaact cctctcctga ctcttggtct atctgtgtaa ctcttctcac
      481 ggcttcctcc gttctagaga aaatagttat ctctcaagat aactaagtta tctctcaaga
      541 taactatttg tcaaaagatc ccgcttctgg cgcggcttcc agaagacccc cttctgtatc
      601 ttattactct cgcaaccaaa acaaagagct ccatcatggt tttgccgtcc gttcaccgct
      661 aaaacgcctc agaaatcggg acaggatgtg caaatgtaat accgtcaccc gcgacgatat
      721 tccgtttgcc gtctggtcag ggcttcgccc cgacaccccg catcagtgcg tacgtgctca
      781 atgtggtttc cggttctctt ccgcttcctc gcccactcgc tcactacgtt cggtcgctgg
      841 ggctgcggcg agcggtgtca cctctcgcat gttgtcggtg attccgttgt tgttctttcg
      901 gggatgagtc gccagatagc ccctcaaacg cgctcagaag ctctcagaca cacgaaacgg
      961 gttttaaatg cccgtcaggg catggaaggc gcgaaaaacg cttacagagg ctctcaggag
     1021 gtcaggcgcg ccgatacccc taaccagggg ctttcaggtc gctaggaacc gcgtcagccc
     1081 cctgcaaagc ctatttgcac ggcacaggca gctattcggc tggttggtgg tcgtagaccg
     1141 tcggtgttac agcgatgggg gtctggggtt ctccccagac ggtttccggt tgcgctcaag
     1201 gcgctgccgg aaccgtggcg gcgcggtcgt tctggggatc ggggagcaaa aaacaagcaa
     1261 gggattttga ggcggcaaaa gagcaatgca ggatagacaa tcatgg
//
