LOCUS       NZ_CP124370             4593 bp    DNA     circular CON 07-JUN-2024
DEFINITION  Escherichia coli strain AVS0465 plasmid pAVS0465-C, complete
            sequence.
ACCESSION   NZ_CP124370
VERSION     NZ_CP124370.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34360985
            Assembly: GCF_029990355.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4593)
  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  JOURNAL   Unpublished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 4593)
  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_029990355.1-RS_2024_06_07
            Annotation Date                   :: 06/07/2024 03:19:18
            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)                     :: 5,234
            CDSs (total)                      :: 5,121
            Genes (coding)                    :: 4,887
            CDSs (with protein)               :: 4,887
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 234
            CDSs (without protein)            :: 234
            Pseudo Genes (ambiguous residues) :: 0 of 234
            Pseudo Genes (frameshifted)       :: 78 of 234
            Pseudo Genes (incomplete)         :: 172 of 234
            Pseudo Genes (internal stop)      :: 44 of 234
            Pseudo Genes (multiple problems)  :: 52 of 234
            Pseudo Genes (short protein)      :: 1 of 234
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124370.1.
            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..4593
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0465"
                     /isolation_source="environmental: river near WWTP effluent"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0465-C"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2021-06-07"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            join(4266..4593,1..512)
                     /locus_tag="QJP75_RS26070"
                     /old_locus_tag="QJP75_26070"
     CDS             join(4266..4593,1..512)
                     /locus_tag="QJP75_RS26070"
                     /old_locus_tag="QJP75_26070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001354646.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     gene            complement(1200..1433)
                     /locus_tag="QJP75_RS26075"
                     /old_locus_tag="QJP75_26075"
     CDS             complement(1200..1433)
                     /locus_tag="QJP75_RS26075"
                     /old_locus_tag="QJP75_26075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137388.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1440..2000)
                     /locus_tag="QJP75_RS26080"
                     /old_locus_tag="QJP75_26080"
     CDS             complement(1440..2000)
                     /locus_tag="QJP75_RS26080"
                     /old_locus_tag="QJP75_26080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_000067488.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(<2035..2688)
                     /locus_tag="QJP75_RS26085"
                     /old_locus_tag="QJP75_26085"
                     /pseudo=""
     CDS             complement(<2035..2688)
                     /locus_tag="QJP75_RS26085"
                     /old_locus_tag="QJP75_26085"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(2678..3001)
                     /locus_tag="QJP75_RS26090"
                     /old_locus_tag="QJP75_26090"
     CDS             complement(2678..3001)
                     /locus_tag="QJP75_RS26090"
                     /old_locus_tag="QJP75_26090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_001677263.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3064..3255
                     /locus_tag="QJP75_RS26095"
                     /old_locus_tag="QJP75_26095"
     CDS             3064..3255
                     /locus_tag="QJP75_RS26095"
                     /old_locus_tag="QJP75_26095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000165986.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3925..4074
                     /locus_tag="QJP75_RS26270"
     CDS             3925..4074
                     /locus_tag="QJP75_RS26270"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032194431.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPERHVKTPLAAAIGNRLEELVLK
                     LCAG"
                     /name="hypothetical protein"
     Typing          complement(3344..3428)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          3439..3994
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.907"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1103..2688)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggtggcataa tgacctatat tcatcatttg agagaatgaa agcaattaat aaaatttact
       61 acccatccaa caaagagata aacacagaag gtctatccaa agccatcaca tcatctcttt
      121 tcaatgatga cgcgaactcg ttcgcaaaga gagattttcg cttgatgtgg gacttatctt
      181 ctgaaaaata tctttcctat aaagaaataa taataagaaa aggcgataag cttgacgctg
      241 tatgcttgag atttataaat gatgactaca agtttttagt taatttcaac agagatgaag
      301 aggttttcaa atactttcca tctataatgc aaccttcact caaaacatat agagcgttat
      361 caagactagt aaactcaatc aaagatcctt ctagatttaa gttcacgaca gagtcattag
      421 aaatggagtt actagaatac ttagagttaa gaaatgaatt attcaatgac atagaagaag
      481 taatgggtag ctatgctcag agggcaccat agttcatgat agccctcgat agtacttact
      541 tatattttta gagaggttta agtgtaagta gagggagtaa cacctggttt ttcagcatcc
      601 actccaatga atgctgacac cgatacgcga taattctctt tatcgtagca aaatcatcct
      661 ccagattgcg gttgagaata ggttcatggt gcgcaatacg attgcgcagt tttctcacgg
      721 gacttgttag cagtaatgct tccccccggg gacaaacgac agagatatac aacaaaggcc
      781 cgcaattaaa atactccgta tttaccataa cgtcgcattg cgcgtaccgc ttaaacgcgt
      841 tcagcgcgat cacggcagca gacaggtaaa aacagcaaca aaccacccga aaaactgccg
      901 cgatcgcgcc tggtaaattt taacctcatg catagttatg cgcgaaactg aatgacgatc
      961 agtttcgccc gttccagccg tcgaacgggg caaaatgggg aggtttggat attgttaatg
     1021 ctaatgtacg tacattaaca ttggcgccat ccgggtaggg cgtgccacaa actggctcga
     1081 tttcaggggg taccccggtc acatccccat tgacgggcca cgccagatcc gcgcttcggg
     1141 ttcctgctct tcatgccagc gccgggcaag ctcctgcgcc tgacgctcct gttcatccct
     1201 tatctgttgt tcgtgataaa taaccgactc aagcggtcga cttgtccggc taatagctgc
     1261 acctgctgac tcaagttcac gacacgctcg ttcagtatcg cgttgttctg ttgcgtaacc
     1321 gcgtgcatct tctgcaattc tgcgaaggcg ctctcccact cgttcagccg ccgcatatag
     1381 tcctgttgca aatgctctaa ggcgttcagc aaatgccctt ccagttccgt catactcgtt
     1441 tactccctga ccagcctcac ggcgttcttg tcgcccaccg tccaggtgtt ttcccctttc
     1501 accccgtccg gcagcaccag aaatttcccg ttctcgccat tgacgaacgt caccccccag
     1561 gtttttgcct cgagtttcgc cagcgtgttt tcctgctctc tgatggtcaa gatatttttc
     1621 gcaatcctgc tttcctgcca ctgaatcagc ccccagcacc ccaggaaaat gccgcccgtg
     1681 acgctgagcg cggtcagcgc cggaaacagt acccgccctt tgatcacctg ccagagcagg
     1741 tttttctgct gccgggacag ttcggcctct gtggtgctga gctgcgtgct cacggtggtg
     1801 ctcagcgtat ccagttgctg tttcacggat gttgtatgtt cgctgatagc gtctctgatt
     1861 ttctgcctgt ttaagctcag tgccttgtct acagactctt ctagcttcct gaactcgctg
     1921 ttcagcatgt tctcggtaga agcggctcgc tctttcagtt tcttctcgaa gtccgttccc
     1981 atttgtaaaa gattgctcat acagcgcccc ctttagcctg agattccgcc ccccctccgg
     2041 gtcggcaata ctgatactgc ttctggttgt cctcaccacc tcaaaacctg ccgctgtgag
     2101 cgcctcagtg acatcctgac gcgtttttat tgctccggca cggtaaagcg cctcaagacc
     2161 ccgtgtaatc gcttctgcgg cctcctgttt cgcttttggc agattattcg gtgtgacaag
     2221 cgtccgtctg ttctccggtg cgttcgggtc acgcagcccg taatgatgat taaccagcgt
     2281 ctgccaggca tttatcctcg gcctgtccgc acggtcgtag tacggctgga ggcgcttacc
     2341 gctctgtagt tccatgttcg gaatgacaaa attcagttcg agccgcccct tatcctggtg
     2401 ttccacccag agaatgctgt actggtcttt ttcgagaccg ggcataagaa cacgctcaaa
     2461 gctcgtcatc actctttcgc gttcacccgg cggtaactcc ttctccgcga acgacagaac
     2521 gcctgacgtg tatttcttcg aaaatggcgt ggcatcaatg agttcccgga tttcttccgg
     2581 gttaccccgg agcaccgttg cgccttcgcg gttacgctcc cgccccagca ggtaatcgac
     2641 cgggccactt ccaccgcctt tccccctggc atgaaattta actatcatcc cgtcccccct
     2701 gttccctgac agcctgccgc aactggcgca attcaccctc gatggccatc agagcggcca
     2761 ccacatgaac ccggtcaatc gaagaccagt ggccgctgtt caccttccgg gctgtctggt
     2821 tcagattgtt cccgatggca gccagatgcc gcagcaatgg cggcgatagt gtcggcagtt
     2881 ttcctgtgcg cgcaaccggc tcccccagac agacccgccg catccattct gccagtcgtt
     2941 taccctcgca gcgttccagt aaccgggcgt gctcctcatc gctaacccgt atcgtgagca
     3001 tcttctcgcg tttcatcggt atcattcccc ctaaaaaatc ccctattaag gagccttaag
     3061 accatgacca aacaggaaaa aacagccctt aacatggccc gctttatcag aagccagacg
     3121 ctgaccctgc tggaaaaact caacgagctg gacgcggacg aacaggcaga catctgcgaa
     3181 tcacttcacg accacgccga cgaactctac cgtagttgcc tcgcacgctt cggcgatgac
     3241 ggtgaaagca actgaaacat gcagctcccg gagacgttca cagcttgcct gtgagcggat
     3301 gccgggagca gacaagcccg tcagggcgcg tcagcgggtt ttagcgggtg tcggggcgca
     3361 gccctgaccc agtcacgtag cgatagcgga gtgtatactg gcttaactat gtggcatcag
     3421 tgcggattat aagaaaagtg caccatatgc ggtgtgaaat accgcacaga tgcgtaagga
     3481 gaaaatgccg catcaggcgc tcttccgctt cctcgctcac tgactcgcta cgctcggtcg
     3541 ttcggctgcg gcgagcggta tcagctcact caaagacggt gatgcggtta tccacagaat
     3601 caggggataa cgccaaaaga aacatgtgag caaaaggcca ggaacaggaa gaaggccgcg
     3661 ccgctggcgt ttttccatag gctccgcccc cctgacgagc atcacaaaaa cagatgctca
     3721 agtcagaggt ggcgaaaccc gacaggacta taaagatacc aggcgtttcc ccctggaagc
     3781 tccctcgtgc gctctcctgt tccgaccctg ccgcttaccg gatacctgtc cgcctttctc
     3841 ccttcgggaa gcgtggcgct ttctcatagc tcacgctgtt ggtatctcgg cccggtgtag
     3901 gtcgttcgct ccaagctggg ctgtgtgcac gaaccccccg ttcagcccga ccgctgcgcc
     3961 ttatccggta actatcgtct tgagtccaac ccggaaagac acgtaaaaac gccactggca
     4021 gcagccattg gtaaccgttt agaggagtta gtcttgaagt tatgcgccgg ttaaggctaa
     4081 actgaaagga cagatttggt ggctgtgctc ctccaagcca gttaccttgg ttcaaagagt
     4141 tgctgctctg agaaccttcg aaaagccgcc ttgctgggcg gttttttcgt ttacggacaa
     4201 gactaccttc aggatcgtta gatctcaaga caatcatgca tagtgagcat acacaggagc
     4261 cgaacttgct tacactgttc atcttttttg ttttattaat agctgcatgt ttcttttgtt
     4321 ttgctccacc acgaagagga tatgacagaa atgagatcat tccatacaaa ataaaactat
     4381 caataaataa atatcgcctt tacatatact catcgggaaa ggtaagacaa taccttttat
     4441 ttttagttat tttatcactg tactactcca tagcggaacc atttaagtct gagttaataa
     4501 aaaacatatc atattcactg atggctgcat ttatttttga tacagggctt aattttagca
     4561 aggagaatat aactaaagga gtgatttcaa caa
//
