LOCUS       NZ_CP124371             4082 bp    DNA     circular CON 07-JUN-2024
DEFINITION  Escherichia coli strain AVS0465 plasmid pAVS0465-D, complete
            sequence.
ACCESSION   NZ_CP124371
VERSION     NZ_CP124371.1
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 4082)
  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  JOURNAL   Unpublished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 4082)
  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
            CP124371.1.
            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..4082
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0465"
                     /isolation_source="environmental: river near WWTP effluent"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0465-D"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2021-06-07"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            complement(join(3776..4082,1..1853))
                     /gene="mobQ"
                     /locus_tag="QJP75_RS26100"
                     /old_locus_tag="QJP75_26100"
     CDS             complement(join(3776..4082,1..1853))
                     /gene="mobQ"
                     /locus_tag="QJP75_RS26100"
                     /old_locus_tag="QJP75_26100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_021545144.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRIELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            2032..2286
                     /gene="mobC"
                     /locus_tag="QJP75_RS26105"
                     /old_locus_tag="QJP75_26105"
     CDS             2032..2286
                     /gene="mobC"
                     /locus_tag="QJP75_RS26105"
                     /old_locus_tag="QJP75_26105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091745.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     gene            2819..3520
                     /locus_tag="QJP75_RS26110"
                     /old_locus_tag="QJP75_26110"
     CDS             2819..3520
                     /locus_tag="QJP75_RS26110"
                     /old_locus_tag="QJP75_26110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001281397.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCIGRLKSGADAESPKL
                     QKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRAQY
                     AKGEARAQITFSDAVMPYLTQLQGQFTRVVIKNISRLSRSYSIRIYELLQQFRSTGERI
                     IALDDFRSMLDIEHKYQTYKSLNQQLLRPCIDELNKKSDLAVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(1496..1854)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1855..2031
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2820..3520
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(4..1940)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.69"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 acggcaaacg cgggatacag cgtaccatta agccggacaa caccgcccag agagtcatcc
       61 acgcccatga ccagcaaaag ctgaagctgg cgggtttccc ggtcgacaga actcattacc
      121 ggcatcagcg tcggtagcag acgtccctgc gtaaaatcca ccttccttgc tgccagtgat
      181 ggcatggctg gctggcggtc ttctccaaga cagaaagact ccggccatgt cttcggctgg
      241 cggagattgc gggtatattg cggccatgtc tggcaaacct gcgtcagaag ttgctcaaag
      301 gtcgcagagg aataaacacg ttgcagtggt ggatgttgac cgatttcgct tcggtcacag
      361 atataaccac tcctgtcacg cattaaatca acacgctcaa agattctggt gcggtatttc
      421 tccagctcgt tcccccagag cgtgtattct ccgttccggt tgtgaagcag aaggtaacag
      481 gtcatttccc cgttaccagg catgggggcc tcgccatacc ccgtaacgac tgcgctcagt
      541 acccctgaat ccataacggc attgtcattt ttcctgagct gttccgctcg tcgctccgcg
      601 cgactacgtt ctgtatcctc ctgctccttc cggcgcaatt cctcttcacg tttaagcaac
      661 tggactctga gagctgcaag gccggatgcc ccccactgct gccactgttt ttcaaatgcc
      721 gtctgactcg cgggaatgtc ctgtttctcc accttccggt aatgctgtcg caatttttcc
      781 atttgctggc tcagcgactg gatttttccc tgttcgctac ggtattccgg tgccgcccat
      841 tgcatcaggg gaatacggga aaaaccggac gaaaacggcg atgatttttt caggctggca
      901 gcatggctca tcgcttcctt tcgttcggtg ttcagctctt cccagcgtct gcgcgtcgcc
      961 tgcatatctg ccatcatcga catggcatta ctggtgagtt tccatgccgc attactgtcc
     1021 ttcggcaacg cttcgatgat gtcacgtagt gtgtacgaag ttgcgttgtc aggaagcacg
     1081 atattcagaa ggtcagccac acggcgggca ggctctgtca gcccgctgtt tctgagttcg
     1141 atacgggaaa tctgtatttc caggttaagt ctgttaatca gacgattctg ttcgccgcgt
     1201 tctgtttcga taccgcgtgt ttccatcgca caggcagact ttccgaggtg aataccaggc
     1261 gttttctcaa gcccctgtcg ctcgtatgaa cgatggtcta tctcttcctg ataaccggcg
     1321 ttcgccagtg ccctgttcgc atggtcagcc catgatgcac gccacgtctc ggcatgtgtc
     1381 cggtcgttcc agtccctgac ctttccaccg aatccagcag gtccgacagc tctcgtggtc
     1441 agcatgatgt gcgcatgggg atttgtttta tccatgtgat ggaacgccac atcagcaatc
     1501 atgccctgac tgacaaagtt ttctctgaca aaggcgagaa cggtttcccg tgcggcatcc
     1561 tgcggtagtt cgcgggggat ggcgagttca atttcccgcg caagttgtga gttcttccgg
     1621 cgttcggcct tctcaacggc attccagagt tcggcacggt tcgtacacca ggcaggggct
     1681 gtcgcgggag tcagaatcac agcttcagcc acaccgcttt tgcgggtgta gtcgtgagtc
     1741 agtccggtac gctcatcaag catcagtgaa ccggaacgat aggcagcaga agcaacggcg
     1801 ctgtagccgc tgtttctgga gatgattttc atgctgagat gataaatcgc catttctgcc
     1861 gtaatgcctt tttgtggttt tctttcagcc ccgcagggcg cacacaatcg aaacggagtg
     1921 gagattgtat aagtgcgcac ttcgtgattt tccgtgcatt atgccagctc agtttttaaa
     1981 ctaccagtga cgcgctaaaa tgcgattttt catcgcgcac ggagttacat catgagcaga
     2041 acactcgaac agaagattgc tgatgctgag gccagattac agcgcctgaa ggcgaagagc
     2101 aggagtctgg acacagcgca gaaggtcatt gtgggtgcag cattgctggc aaaggtcaga
     2161 aagccggagg aggtgcagtt gcgtgcctgg ttactccagt tcctgaaggc agaggtgaca
     2221 cgacaggctg atgtgacgcg catactgccg ctgattaacg agctggaagc gctgccagga
     2281 cagtgattgt atcgtccgct cgccgcagtc ccagcgaccg agcgttagcg agcgagtggg
     2341 cgaggaagcg gaagtgaatc cgtcgcctga ttgagcacat acgcacggtt tttcgggagg
     2401 tgatatgcgc tgaacccgca tgaatactgg atttccacag ggttggaggg ggtgtattcg
     2461 gaacttgcaa ttctgctttt ttgcaacgca ttgtttttat tggttttttg ttttcagcac
     2521 tccaagttat ccacaggctc gtcgttaagt ttttagatct tgtttttaag atcttgtttt
     2581 taatacttgt tttagcgcca aaattcctta tagaaaacaa aatgttacaa tgctataggt
     2641 aatgtgattt aaggtaaagg taatatgatt taaggtgttt aggtggggga atttaaggta
     2701 aaggcaatat gatttaaggt aatattcaca gaaaaaggga tattaaaata aaaaggcatt
     2761 gcctttcgtt gagggtatgt ttatctttta ttcattacct tttggggagg gatgctctat
     2821 gtcggatcta attgcctata aatccaatgc gctggttgaa gccagttata aattgaccct
     2881 acaggaacag cgatttttgt tactttgcat cggtcgattg aagtctgggg ctgatgcaga
     2941 atctccaaaa ttgcaaaaga caatgaccat tacagctgcg gaatatttcg attcattccc
     3001 tgacatgggg cggaaaaatg ccgaggttca gttacaggaa gcaattgatc gtttgtggga
     3061 caggtcaatc attctcaagg atgacgagaa acgtgaggag ttccgctgga tccagtatcg
     3121 ggcacagtac gctaaaggcg aggccagagc acaaataaca ttttctgacg cagtaatgcc
     3181 ttatttgaca caactacaag ggcaatttac tagagttgta atcaagaata tatctagatt
     3241 atcaagaagt tacagtataa ggatatacga actcctccag cagttccgca gtactggcga
     3301 acgtattatc gctctcgatg attttcgctc aatgcttgat atagagcata aatatcaaac
     3361 atataaatca cttaaccagc aattattaag accctgcatt gacgaactga acaaaaaaag
     3421 cgacctggct gtaacggttg agacgatcaa aaaggggcgc acggttgtag ccctgcattt
     3481 tcgcttcaag gaagacaaac aaatcaagat gacgatctaa aatcgatttt aaggcaccta
     3541 aaacgctccc tgctgcgttt tttttgtgtt agtagtgcga aggtactatt gaagtgaaaa
     3601 attgcgtcaa aagcgctcta atgcagcgaa aaaagaaccc ccattttttg ggggcggaaa
     3661 aacaaaacta tgcttgcatt atgtgtgtgc ttcttgcatt catccctgtc gatgaacatc
     3721 gaagaacatc gacgaacata acacgatgtt aaacaaaaca aaatattgtt cacattcact
     3781 gtgaccaacc gcgatcatgt ctcctctcgg tggcgtgtgt tcgtgcatct tcctcgcgcc
     3841 gccattcgtc ccaggtacga ttaaaaccca gcgagcggaa cagatgatcc ggctgttttt
     3901 ctggtgtgtt gacggcagca aaaagcggtg cctcacgggt tttcagatga aactccataa
     3961 gttccggcgc aggtgatatg tggctgtctg catcgtgatt tacggcaaca ccataccctg
     4021 cataccgtaa ccccttatcg gtcagtgcac tgatgaccag ctggctgtta tcggctgagg
     4081 ga
//
