LOCUS       NZ_CP124479             4072 bp    DNA     circular CON 10-JUN-2024
DEFINITION  Escherichia coli strain AVS0969 plasmid pAVS0969-D, complete
            sequence.
ACCESSION   NZ_CP124479
VERSION     NZ_CP124479.1
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 4072)
  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  JOURNAL   Unpublished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 4072)
  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
            CP124479.1.
            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..4072
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0969"
                     /isolation_source="wastewater"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0969-D"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2022-01-23"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            complement(390..644)
                     /gene="mobC"
                     /locus_tag="QJP78_RS27125"
                     /old_locus_tag="QJP78_27125"
     CDS             complement(390..644)
                     /gene="mobC"
                     /locus_tag="QJP78_RS27125"
                     /old_locus_tag="QJP78_27125"
                     /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_000091747.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     gene            823..2982
                     /gene="mobQ"
                     /locus_tag="QJP78_RS27130"
                     /old_locus_tag="QJP78_27130"
     CDS             823..2982
                     /gene="mobQ"
                     /locus_tag="QJP78_RS27130"
                     /old_locus_tag="QJP78_27130"
                     /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_001029353.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAECRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(3238..3930)
                     /locus_tag="QJP78_RS27135"
                     /old_locus_tag="QJP78_27135"
     CDS             complement(3238..3930)
                     /locus_tag="QJP78_RS27135"
                     /old_locus_tag="QJP78_27135"
                     /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_001281403.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVDELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(646..822)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          823..1181
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          complement(3239..3930)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.965"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          737..2979
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.332"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccttaaattc ctccaccttt accttaaatt cctccacata tacctctata acatattgat
       61 tttattaatg aattttgacc ctaaaacaag tattaaaaac aagatcttaa aaacaagatc
      121 taaaaactta acggcgagcc tgtggataac ttggggcgct gaaaacaaaa aaccaataaa
      181 aacaatgtgt tgcaagaaag cagaattgca agttccgaat actccccttc caaccctgtg
      241 gaaatccagt attcatgcgg gttcagcgca tatcacctac cgaaaaaccg tgcgtatgtg
      301 ctcaacctgg cgacggattc acttccgctt cctcgcccac tcgctcgcta acgctcggtc
      361 gctggggctg cggcgagcgg acgatacaat cactgtcctg gcagcgcctc cagctcgtta
      421 atcagcggca gtatgcgcgt cacatcagcc tgtcgtgtca cctctgcctt caggaactgg
      481 agtaaccagg cacgcaactg cacctcctcc ggctttctga cctttgccag caatgctgca
      541 cccacaacaa ccttctgcgc tgtgtccagg ctccggctct tcgccttcag gcgctgtaat
      601 ctcgcctcag catcagcaat cttctgttcg agcgttctgc tcatgatgta actccgtgcg
      661 cgatgaaaaa tcgcatttta gcgcgtcact ggtagtttaa aaactgagct ggcataatgc
      721 gcgacaaatc acaaagtgcg cacttataca atctccactc cgtttcgatt gtgtgcgccc
      781 tgcggggctg aaagaaaact acaaaaaggc attacggcag aaatggcgat ttatcatctc
      841 agcatgaaaa ttatctccag aagcagcggc tacagcgccg tagcttccgc tgcctatcgt
      901 tccggttcac tgatgcttga tgagcgtacc ggactgactc acgactacac ccgcaaaagc
      961 ggtgtggctg aagctgtgat tctgaccccc gcgacagccc ctgcctggtg tacgaaccgt
     1021 gccgaactct ggaatgccgt tgagaaggcc gaatgccgga agaactcaca acttgcgcgg
     1081 gaaattgaac tcgctatccc ccgtgaactg ccgcaggatg ccgcacggga aaccgttctc
     1141 gcctttgtca gagaaaactt tgtcagtcag ggcatgattg ctgatgtggc gttccatcac
     1201 atggataaaa caaatcccca tgcgcacatc atgctgacca cgagggctgt cggacctgct
     1261 gggttcggcg gaaaggtcag ggactggaac gaccggacac atgccgagac gtggcgtgca
     1321 tcatgggctg accatgcaaa cagagcactg gcgaacgccg gttatcagga agagatagac
     1381 catcgttcat acgagcgaca ggggcttgag aaaacgcctg gtattcacct cggaaagtct
     1441 gcctgtgcga tggaaacacg cggtatcgaa acagaacgcg gcgaacagaa tcgtctgatt
     1501 aacaggctta acctggaaat acagatttcc cgcactgaac tcaggaacag cgggctgaca
     1561 gagcctgccc gccgtgtggc tgaccttctg aatatcgtgc ttcctgacaa cgcaacttcg
     1621 tacacactac gtgacatcat cgaagcgttg ccgaaggaca gtaatgcggc atggaaactc
     1681 accagtaatg ccatgtcgat gatggcagat atgcaggcga cgcgcagacg ctgggaagag
     1741 ctgaacaccg aacgaaagga agcgatgagc catgctgcca gcctgaaaaa atcatcgccg
     1801 ttttcgtccg gtttttcccg tattcccctg atgcaatggg cggcaccgga ataccgtagc
     1861 gaacagggaa aaatccagtc gctgagccag caaatggaaa aattgcgaca gcattaccgg
     1921 aaggtggaga aacaggacat tcccgcgagt cagacggcat ttgaaaaaca gtggcagcag
     1981 tggggggcat ccggccttgc agctctcaga gtccagttgc ttaaacgtga agaggaattg
     2041 cgccggaagg agcaggagga tacagaacgt agtcgcgcgg agcgacgagc ggaacagctc
     2101 aggaaaaatg acaatgccgt tatggattca ggggtactga gcgcagtcgt tacggggtat
     2161 ggcgaggccc ccatgcctgg taacggggaa atgacctgtt accttctgct tcacaaccgg
     2221 aacggagaat acacgctctg ggggaacgag ctggagaaat accgcaccag aatctttgag
     2281 cgtgttgatt taatgcgtga caggagtggt tatatctgtg accgaagcga aatcggtcaa
     2341 catccaccac tgcaacgtgt ttattcctct gcgacctttg agcaacttct gacgcaggtt
     2401 tgccagacat ggccgcaata tacccgcaat ctccgccagc cgaagacatg gccggagtct
     2461 ttctgtcttg gagaagaccg ccagccagcc atgccatcac tggcagcaag gaaggtggat
     2521 tttacgcagg gacgtctgct accgacgctg atgccggtaa tgagttctgt cgaccgggaa
     2581 acccgccagc ttcagctttt gctggtcatg ggcgtggatg actctctggg cggtgttgtc
     2641 cggcttaatg gtacgctgta tcccgcgttt gccgttccct cagccgataa cagccagctg
     2701 gtcatcagtg cactgaccga taaggggtta cggtatgcag ggtatggtgt tgccgtaaat
     2761 cacgatgcag acagccacat atcacctgcg ccggaactta tggagtttca tctgaaaacc
     2821 cgtgaggcac cgctttttgc tgccgtcaac acaccagaaa aacagccgga tcatctgttc
     2881 cgctctctgg gtttcaatcg tacctgggat gaatggcggc gcgaggaaga tgcaagaaca
     2941 cacaccaccg agaggagaca tgatcgcggt tggtcacagt gaatgtgaac aatattttgt
     3001 tttgtttaac atcgtgttat gttcgtcgat gttcttctat gttcatcgac agggatgaat
     3061 gcaagaagca cacacataat gcaagcatag ttttgttttt ccgcccccaa aaattggggg
     3121 ttcttttttc gctgcattag agcgcttttg acgcaatttt tcacttcaat agtaccttcg
     3181 cactactaac acaaaaaaaa cgcagcaggg agcgttttag gtgccttaaa atcgatttta
     3241 gatcgtcatc ttgatctgtt tgtcttcctt gaagcgaaaa tgcagggcta caaccgtgcg
     3301 cccctttttg atcgtctcaa ccgttacagc caggtcgctt tttttgttca gttcgtcaac
     3361 acagggtttt attagtattt tatttaagtc tctgaattgt ttgtatttat tttcaatccc
     3421 taacattgaa cgaaagtcat taagagcaat aattctctct cccgtactgc ggaattgctg
     3481 gaggaactcg tatattctta tactgtaact acttgataaa cctgatatgt tttttataac
     3541 aacgcgcgtg aattgcccct tcagttgcgt cagataaggc attaccgcgt cagaaaaggt
     3601 tattcgagcc ttggcctcac ctttagcgta ctgtgcccga tactggatcc agcggaactc
     3661 ctcacgcttc tcgtcattct tgagaatgat cgacctgtcc cataaacgat cgatcgcttc
     3721 ctgtaactga acctcggcat ttttccgccc catgtcaggg aatgaatcaa aatattccgc
     3781 agcggtaatg gtcattgtct tttgcaattc agcatcagca ccagatttca atcgactgat
     3841 acacagcaac agaaaacgtt gttcctgtag ggtcaacttg tagctggcct caaccaaagc
     3901 attcgacttg taggcaatca agtccgacat acaaagatcc cgttcaaatg tggtgatgct
     3961 ttaatgtgcc ccacaaataa gaaatgtgga atattttttt ttatatcctc acatttctgt
     4021 gaataacacc ttaaattcct ccacctttac cttaaattcc tccacctaaa ca
//
