LOCUS       NZ_CP124383             2101 bp    DNA     circular CON 07-JUN-2024
DEFINITION  Escherichia coli strain AVS0578 plasmid pAVS0578-i, complete
            sequence.
ACCESSION   NZ_CP124383
VERSION     NZ_CP124383.1
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 2101)
  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  JOURNAL   Unpublished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 2101)
  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
            CP124383.1.
            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..2101
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0578"
                     /isolation_source="environmental: river/lake"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0578-i"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2021-07-07"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            join(1508..2101,1..372)
                     /locus_tag="QJP97_RS27140"
                     /old_locus_tag="QJP97_27135"
     CDS             join(1508..2101,1..372)
                     /locus_tag="QJP97_RS27140"
                     /old_locus_tag="QJP97_27135"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012421200.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001287824.1"
                     /translation="MSEDKFLSDYSPRDAVWDTQRTLTDSVGGIYQTAAEFERYALRMA
                     SCSGLLRFGWSTIMETGETRLRLRSAQFCRVRHCPVCQWRRTLMWQARFYQALPKIVVD
                     YPSSRWLFLTLTVRNCEIGELGTVLTAMNAAFKRMEKRKELSPVQGWIRATEVTRGKDG
                     SAHPHFHCLLMVQPSWFKGKNYVKHERWVELWRDCLRVNYEPNIDIRAVKTKTGEVVAN
                     VAEQLQSAVAETLKYSVKPEDMANDPEWFLELTRQLHKRRFISTGGALKNVLQLDRETN
                     EDLVIADDVGDGTDDGKRTAFVWDSGKRRYKRAPEKDKSD"
                     /name="protein rep"
     gene            376..642
                     /locus_tag="QJP97_RS27145"
                     /old_locus_tag="QJP97_27140"
     CDS             376..642
                     /locus_tag="QJP97_RS27145"
                     /old_locus_tag="QJP97_27140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001024536.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001024536.1"
                     /translation="MNINIEYLNGNKTIGLFFLRSEAVIPDRFKNLILLIDGLSFGTFG
                     FHPHEGFEDELILYIQKTNERVKTLFVKIDLNGIKFGFLRTHS"
                     /name="hypothetical protein"
     Typing          1902..2101
                     /name="Col(BS512)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.26e-100"
ORIGIN
        1 ttgcgggtga actatgagcc gaatatcgat attcgggcag taaaaactaa gacaggtgag
       61 gttgtggcca acgttgccga gcaactgcaa agcgcggttg ctgaaacgct gaaatactcc
      121 gttaaaccgg aagatatggc aaacgatcct gagtggtttc ttgagctgac gcggcagctt
      181 cacaagcgcc gttttatctc gaccggtggg gcgctaaaaa acgtcctcca gttggatcga
      241 gaaaccaatg aggatcttgt cattgccgac gatgtagggg atggcactga tgacgggaag
      301 cggacggcgt ttgtctggga ttcaggtaaa cggcgttaca aacgcgcccc tgagaaggat
      361 aaatcggatt aacgtatgaa tattaatatt gaatacctga atggaaataa gactattggt
      421 ttattttttt taagaagtga agcggtgatt cctgacaggt ttaaaaacct tattttgctt
      481 attgatggat taagttttgg cacatttggt tttcatccgc acgaaggttt tgaggatgaa
      541 ttaattttat atattcagaa aacaaacgag agggtaaaaa ctctttttgt gaaaatagat
      601 ttaaacggta tcaagtttgg atttttaaga acgcattctt agttctggaa aagagccagc
      661 ggcaggctga ggtgataggt acgagattgc atgcaatctc tagtgctctg tctatcctgc
      721 attatcctca gcattatcct cagcattatc ctcagccttg ccaactcgac accaatgcag
      781 gatagacaat ccgatgtcaa atgttaacac tctgcgagtg gtacattttc cccggattat
      841 cgtcctgagc ctgccgctgg ctctctttct accgcctcgc tttgctcgtt gctcaacgcc
      901 tcacagacac ggattaaaat ccgcatccgt tcaccgtttt ttaaagtccg ttaaaagcat
      961 gatgccatct ccgagagtta atctcgtcaa atgctaaatc gtgggggtcc cctttggggt
     1021 tccgatttag tgattgacga caccaccgat taaaaaactt atgcggggtg gatggtttca
     1081 cgaagtgagg ccatccacct gtaagacagg gttttgtttt tattccctgt tttggtgatc
     1141 gggtgtgtgg aaaaggttgg ggtaagccgt tcgggggtgc ttgttttggg gggttaaaat
     1201 tgtggttatt ttttgcgcaa ttctcgcgcg tgatccttgt atttatactt aagggataaa
     1261 tggcggatat gaaatagtgg tttagcccag taatgacgag gctttgagtg ggttttgaca
     1321 ggtcaaagaa aatggagcag aattgaggcg tttttaatcg gcgttgggga gtgcgtcaac
     1381 actccccaac atttcgaatg tgtcacctca gcggcaaact ctggtgacat gtactggctc
     1441 gcaatgcaca ggtacgtgat gaatatacca catcaaatca cagcctgccc agatcggagc
     1501 aggcttaatg tcagaagata aattcctttc ggactacagc ccccgtgatg cagtttggga
     1561 tacccagcgc acgcttaccg attctgtcgg gggtatctac cagactgctg ctgaattcga
     1621 gcgctatgca ctccgtatgg cctcctgtag cggtttgtta cgttttggtt ggtctaccat
     1681 catggaaacc ggagaaacgc gcctacggct tcgtagtgcg caattttgcc gtgtccgtca
     1741 ttgccctgtc tgccagtgga gaagaaccct catgtggcaa gcccgttttt atcaggctct
     1801 accgaaaatc gttgtggatt acccgtcttc ccgatggttg tttctgacgt taactgtcag
     1861 gaactgcgag ataggtgaac ttggaacagt ccttacagca atgaatgcgg cgtttaagcg
     1921 aatggaaaag cgaaaggagc tatcacctgt tcaggggtgg atcagggcta cggaggtgac
     1981 gcgaggtaag gatggcagcg cacatccgca ttttcactgt ctgctgatgg tgcaaccttc
     2041 ttggtttaaa gggaagaact acgttaagca cgaacgttgg gtagaactct ggcgcgattg
     2101 c
//
