LOCUS       NZ_CP124413             4083 bp    DNA     circular CON 10-JUN-2024
DEFINITION  Escherichia coli strain AVS0543 plasmid pAVS0543-C, complete
            sequence.
ACCESSION   NZ_CP124413
VERSION     NZ_CP124413.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34360976
            Assembly: GCF_030039375.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4083)
  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  JOURNAL   Unpublished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 4083)
  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_030039375.1-RS_2024_06_10
            Annotation Date                   :: 06/10/2024 05:20:34
            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)                     :: 5,041
            CDSs (total)                      :: 4,938
            Genes (coding)                    :: 4,706
            CDSs (with protein)               :: 4,706
            Genes (RNA)                       :: 103
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 76
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 232
            CDSs (without protein)            :: 232
            Pseudo Genes (ambiguous residues) :: 0 of 232
            Pseudo Genes (frameshifted)       :: 82 of 232
            Pseudo Genes (incomplete)         :: 174 of 232
            Pseudo Genes (internal stop)      :: 41 of 232
            Pseudo Genes (multiple problems)  :: 54 of 232
            Pseudo Genes (short protein)      :: 1 of 232
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124413.1.
            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..4083
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0543"
                     /isolation_source="environmental: river near WWTP effluent"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0543-C"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2021-06-23"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            join(4014..4083,1..2090)
                     /gene="mobQ"
                     /locus_tag="QJP61_RS25145"
                     /old_locus_tag="QJP61_25145"
     CDS             join(4014..4083,1..2090)
                     /gene="mobQ"
                     /locus_tag="QJP61_RS25145"
                     /old_locus_tag="QJP61_25145"
                     /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            complement(2346..3047)
                     /locus_tag="QJP61_RS25150"
                     /old_locus_tag="QJP61_25150"
     CDS             complement(2346..3047)
                     /locus_tag="QJP61_RS25150"
                     /old_locus_tag="QJP61_25150"
                     /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"
     gene            complement(3581..3835)
                     /gene="mobC"
                     /locus_tag="QJP61_RS25155"
                     /old_locus_tag="QJP61_25155"
     CDS             complement(3581..3835)
                     /gene="mobC"
                     /locus_tag="QJP61_RS25155"
                     /old_locus_tag="QJP61_25155"
                     /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"
     Typing          2..289
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.46e-149"
     Typing          complement(3837..4013)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          complement(2347..3047)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4..2087
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.856"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cctatcgttc cggttcactg atgcttgatg agcgtaccgg actgactcac gactacaccc
       61 gcaaaagcgg tgtggctgaa gctgtgattc tgactcccgc gacagcccct gcctggtgta
      121 cgaaccgtgc cgaactctgg aatgccgttg agaaggccga acgccggaag aactcacaac
      181 ttgcgcggga aattgaactc gccatccccc gcgaactacc gcaggatgcc gcacgggaaa
      241 ccgttctcgc ctttgtcaga gaaaactttg tcagtcaggg catgattgct gatgtggcgt
      301 tccatcacat ggataaaaca aatccccatg cgcacatcat gctgaccacg agagctgtcg
      361 gacctgctgg attcggtgga aaggtcaggg actggaacga ccggacacat gccgagacgt
      421 ggcgtgcatc atgggctgac catgcgaaca gggcactggc gaacgccggt tatcaggaag
      481 agatagacca tcgttcatac gagcgacagg ggcttgagaa aacgcctggt attcacctcg
      541 gaaagtctgc ctgtgcgatg gaaacacgcg gtatcgaaac agaacgcggc gaacagaatc
      601 gtctgattaa cagacttaac ctggaaatac agatttcccg tatcgaactc agaaacagcg
      661 ggctgacaga gcctgcccgc cgtgtggctg accttctgaa tatcgtgctt cctgacaacg
      721 caacttcgta cacactacgt gacatcatcg aagcgttgcc gaaggacagt aatgcggcat
      781 ggaaactcac cagtaatgcc atgtcgatga tggcagatat gcaggcgacg cgcagacgct
      841 gggaagagct gaacaccgaa cgaaaggaag cgatgagcca tgctgccagc ctgaaaaaat
      901 catcgccgtt ttcgtccggt ttttcccgta ttcccctgat gcaatgggcg gcaccggaat
      961 accgtagcga acagggaaaa atccagtcgc tgagccagca aatggaaaaa ttgcgacagc
     1021 attaccggaa ggtggagaaa caagacattc ccgcgagtca gacggcattt gaaaaacagt
     1081 ggcagcagtg gggggcatcc ggccttgcag ctctcagagt ccagttgctt aaacgtgaag
     1141 aggaattgcg ccggaaggag caggaggata cagaacgtag tcgcgcggag cgacgagcgg
     1201 aacagctcag gaaaaatgac aatgccgtta tggattcagg ggtactgagc gcagtcgtta
     1261 cggggtatgg cgaggccccc atgcctggta acggggaaat gacctgttac cttctgcttc
     1321 acaaccggaa cggagaatac acgctctggg ggaacgagct ggagaaatac cgcaccagaa
     1381 tctttgagcg tgttgattta atgcgtgaca ggagtggtta tatctgtgac cgaagcgaaa
     1441 tcggtcaaca tccaccactg caacgtgttt attcctctgc gacctttgag caacttctga
     1501 cgcaggtttg ccagacatgg ccgcaatata cccgcaatct ccgccagccg aagacatggc
     1561 cggagtcttt ctgtcttgga gaagaccgcc agccagccat gccatcactg gcagcaagga
     1621 aggtggattt tacgcaggga cgtctgctac cgacgctgat gccggtaatg agttctgtcg
     1681 accgggaaac ccgccagctt cagcttttgc tggtcatggg cgtggatgac tctctgggcg
     1741 gtgttgtccg gcttaatggt acgctgtatc ccgcgtttgc cgttccctca gccgataaca
     1801 gccagctggt catcagtgca ctgaccgata aggggttacg gtatgcaggg tatggtgttg
     1861 ccgtaaatca cgatgcagac agccacatat cacctgcgcc ggaacttatg gagtttcatc
     1921 tgaaaacccg tgaggcaccg ctttttgctg ccgtcaacac accagaaaaa cagccggatc
     1981 atctgttccg ctcgctgggt tttaatcgta cctgggacga atggcggcgc gaggaagatg
     2041 cacgaacaca cgccaccgag aggagacatg atcgcggttg gtcacagtga atgtgaacaa
     2101 tattttgttt tgtttaacat cgtgttatgt tcgtcgatgt tcttcgatgt tcatcgacag
     2161 ggatgaatgc aagaagcaca cacataatgc aagcatagtt ttgtttttcc gcccccaaaa
     2221 aatgggggtt cttttttcgc tgcattagag cgcttttgac gcaatttttc acttcaatag
     2281 taccttcgca ctactaacac aaaaaaaacg cagcagggag cgttttaggt gccttaaaat
     2341 cgattttaga tcgtcatctt gatttgtttg tcttccttga agcgaaaatg cagggctaca
     2401 accgtgcgcc cctttttgat cgtctcaacc gttacagcca ggtcgctttt tttgttcagt
     2461 tcgtcaatgc agggtcttaa taattgctgg ttaagtgatt tatatgtttg atatttatgc
     2521 tctatatcaa gcattgagcg aaaatcatcg agagcgataa tacgttcgcc agtactgcgg
     2581 aactgctgga ggagttcgta tatccttata ctgtaacttc ttgataatct agatatattc
     2641 ttgattacaa ctctagtaaa ttgcccttgt agttgtgtca aataaggcat tactgcgtca
     2701 gaaaatgtta tttgtgctct ggcctcgcct ttagcgtact gtgcccgata ctggatccag
     2761 cggaactcct cacgtttctc gtcatccttg agaatgattg acctgtccca caaacgatca
     2821 attgcttcct gtaactgaac ctcggcattt ttccgcccca tgtcagggaa tgaatcgaaa
     2881 tattccgcag ctgtaatggt cattgtcttt tgcaattttg gagattctgc atcagcccca
     2941 gacttcaatc gaccgatgca aagtaacaaa aatcgctgtt cctgtagggt caatttataa
     3001 ctggcttcaa ccagcgcatt ggatttatag gcaattagat ccgacataga gcatccctcc
     3061 ccaaaaggta atgaataaaa gataaacata ccctcaacga aaggcaatgc ctttttattt
     3121 taatatccct ttttctgtga atattacctt aaatcatatt gcctttacct taaattcccc
     3181 cacctaaaca ccttaaatca tattaccttt accttaaatc acattaccta tagcattgta
     3241 acattttgtt ttctataagg aattttggcg ctaaaacaag tattaaaaac aagatcttaa
     3301 aaacaagatc taaaaactta acgacgagcc tgtggataac ttggagtgct gaaaacaaaa
     3361 aaccaataaa aacaatgcgt tgcaaaaaaa gcagaattgc aagttccgaa tacaccccct
     3421 ccaaccctgt ggaaatccag tattcatgcg ggttcagcgc atatcacctc ccgaaaaacc
     3481 gtgcgtatgt gctcaatcag gcgacggatt cacttccgct tcctcgccca ctcgctcgct
     3541 aacgctcggt cgctgggact gcggcgagcg gacgatacaa tcactgtcct ggcagcgctt
     3601 ccagctcgtt aatcagcggc agtatgcgcg tcacatcagc ctgtcgtgtc acctctgcct
     3661 tcaggaactg gagtaaccag gcacgcaact gcacctcctc cggctttctg acctttgcca
     3721 gcaatgctgc acccacaatg accttctgcg ctgtgtccag actcctgctc ttcgccttca
     3781 ggcgctgtaa tctggcctca gcatcagcaa tcttctgttc gagtgttctg ctcatgatgt
     3841 aactccgtgc gcgatgaaaa atcgcatttt agcgcgtcac tggtagttta aaaactgagc
     3901 tggcataatg cacggaaaat cacgaagtgc gcacttatac aatctccact ccgtttcgat
     3961 tgtgtgcgcc ctgcggggct gaaagaaaac cacaaaaagg cattacggca gaaatggcga
     4021 tttatcatct cagcatgaaa atcatctcca gaaacagcgg ctacagcgcc gttgcttctg
     4081 ctg
//
