LOCUS       NZ_CP124480             1687 bp    DNA     linear   CON 10-JUN-2024
DEFINITION  Escherichia coli strain AVS0969 plasmid unnamed.
ACCESSION   NZ_CP124480
VERSION     NZ_CP124480.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34360963
            Assembly: GCF_030037255.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1687)
  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  JOURNAL   Unpublished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 1687)
  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_030037255.1-RS_2024_06_10
            Annotation Date                   :: 06/10/2024 05:19:13
            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)                     :: 5,449
            CDSs (total)                      :: 5,330
            Genes (coding)                    :: 5,066
            CDSs (with protein)               :: 5,066
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 264
            CDSs (without protein)            :: 264
            Pseudo Genes (ambiguous residues) :: 0 of 264
            Pseudo Genes (frameshifted)       :: 112 of 264
            Pseudo Genes (incomplete)         :: 174 of 264
            Pseudo Genes (internal stop)      :: 48 of 264
            Pseudo Genes (multiple problems)  :: 60 of 264
            Pseudo Genes (short protein)      :: 1 of 264
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124480.1.
            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/
FEATURES             Location/Qualifiers
     source          1..1687
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0969"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="unnamed"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2022-01-23"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            <1..257
                     /locus_tag="QJP78_RS27140"
                     /old_locus_tag="QJP78_27140"
                     /pseudo=""
     CDS             <1..257
                     /locus_tag="QJP78_RS27140"
                     /old_locus_tag="QJP78_27140"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052640.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=3
                     /transl_table=11
                     /product="plasmid-partitioning protein SopA"
                     /name="plasmid-partitioning protein SopA"
     gene            257..1228
                     /locus_tag="QJP78_RS27145"
                     /old_locus_tag="QJP78_27145"
     CDS             257..1228
                     /locus_tag="QJP78_RS27145"
                     /old_locus_tag="QJP78_27145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052641.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ParB/RepB/Spo0J family plasmid partition protein"
                     /protein_id="WP_000817036.1"
                     /translation="MKRAPVIPKHTLNTQPVGDTSLSTPAAPMVDSLIARVGVMARGNA
                     ITLPVCGRDVKFTLEVLRGDSVEKTSRVWSGNERDQELLTEDSLDDLIPSFLLTGQQTP
                     AFGRRVSGVIEIADGSRRRKAAALTESDYRVLVGELDDEQMAALSRLGNDYRPTSAYER
                     GQRYASRLQNEFAGNISALADAENISRKIITRCINTAKLPKSVVALFSHPGELSARSGD
                     ALQKAFTDKEELLKQQASNLHEQKKAGVIFEAEEVITLLTSVLKTSSASRTSLSSRHQF
                     APGATVLYKGDKMVLNLDRSRVPTECIEKIEAILKELEKPAP"
                     /name="ParB/RepB/Spo0J family plasmid partition protein"
ORIGIN
        1 acagcaatag taatggctct cagtccccgt ggatggagga gcaaattcgg gatgcctggg
       61 gaagcatggt tctaaaaaat gttgtacgtg aaacggatga agttggtaaa ggtcagatcc
      121 ggatgagaac tgtttttgaa caggccattg atcaacgctc ttcaactggt gcctggagaa
      181 atgctctttc tatttgggaa cctgtctgca atgaaatttt cgatcgtctg attaaaccac
      241 gctgggagat tagataatga agcgtgcgcc tgttattcca aaacatacgc tcaatactca
      301 accggttgga gatacttcgt tatcgacacc agctgccccg atggtggatt cgttaattgc
      361 gcgcgtagga gtaatggctc gcggtaatgc cattactttg cctgtatgtg gtcgggatgt
      421 gaagtttact cttgaagtgc tccggggtga tagtgttgag aagacctctc gggtatggtc
      481 aggtaatgaa cgtgaccagg agctgcttac tgaggactca ctggatgatc tcatcccttc
      541 ttttctactg actggtcaac agacaccggc gttcggtcga agagtatctg gtgtcataga
      601 aattgccgat gggagtcgcc gtcgtaaagc tgctgcactt accgaaagtg attatcgtgt
      661 tctggttggc gagctggatg atgagcagat ggctgcatta tccagattgg gtaacgatta
      721 tcgcccaaca agtgcttatg aacgtggtca gcgttatgca agccgattgc agaatgaatt
      781 tgctggaaat atttctgcgc tggctgatgc ggaaaatatt tcacgtaaga ttattacccg
      841 ctgtatcaac acagccaaat tgcctaaatc agttgttgct cttttttctc accccggtga
      901 actatctgcc cggtcaggtg atgcacttca aaaagccttt acagataaag aggaattact
      961 taagcagcag gcatctaacc ttcatgagca gaaaaaagct ggggtgatat ttgaagctga
     1021 agaagttatc actcttttaa cttctgtgct taaaacgtca tctgcatcaa gaactagttt
     1081 aagctcacga catcagtttg ctcctggagc gacagtattg tataagggcg ataaaatggt
     1141 gcttaacctg gacaggtctc gtgttccaac tgagtgtata gagaaaattg aggccattct
     1201 taaggaactt gaaaagccag caccctgatg cgaccacgtt ttagtctacg tttatctgtc
     1261 tttacttaat gtcctttgtt acaggccaga aagcataact ggcctgaata ttctctctgg
     1321 gcccactgtt ccacttgtat cgtcggtctg ataatcagac tgggaccacg gtcccactcg
     1381 tatcgtcggt ctgattatta gtctgggacc acggtcccac tcgtatcgtc ggtctgatta
     1441 ttagtctggg accacgatcc cactcgtgtt gtcggtctga ttatcggtct gggaccacgg
     1501 tcccacttgt attgtcgatc agactatcag cgtgagacta cgattccatc aatgcctgtc
     1561 aagggcaagt attgacatgt cgtcgtaacc tgtagaacgg agtaacctcg gtgtgcggtt
     1621 gtatgcctgc tgtggattgc tgctgtgtcc tgcttatcca caacattttg cgcacggtta
     1681 tgtggac
//
