LOCUS       NZ_CP124446             4064 bp    DNA     circular CON 10-JUN-2024
DEFINITION  Escherichia coli strain AVS0196 plasmid pAVS0196-D, complete
            sequence.
ACCESSION   NZ_CP124446
VERSION     NZ_CP124446.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34360969
            Assembly: GCF_030038515.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4064)
  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  JOURNAL   Unpublished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 4064)
  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_030038515.1-RS_2024_06_10
            Annotation Date                   :: 06/10/2024 05:18:18
            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)                     :: 5,205
            CDSs (total)                      :: 5,095
            Genes (coding)                    :: 4,882
            CDSs (with protein)               :: 4,882
            Genes (RNA)                       :: 110
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 213
            CDSs (without protein)            :: 213
            Pseudo Genes (ambiguous residues) :: 0 of 213
            Pseudo Genes (frameshifted)       :: 73 of 213
            Pseudo Genes (incomplete)         :: 155 of 213
            Pseudo Genes (internal stop)      :: 40 of 213
            Pseudo Genes (multiple problems)  :: 46 of 213
            Pseudo Genes (short protein)      :: 1 of 213
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124446.1.
            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..4064
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0196"
                     /isolation_source="environmental: river near WWTP effluent"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0196-D"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2020-11-26"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            complement(513..767)
                     /gene="mobC"
                     /locus_tag="QJP94_RS25955"
                     /old_locus_tag="QJP94_25955"
     CDS             complement(513..767)
                     /gene="mobC"
                     /locus_tag="QJP94_RS25955"
                     /old_locus_tag="QJP94_25955"
                     /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_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            946..3093
                     /gene="mobQ"
                     /locus_tag="QJP94_RS25960"
                     /old_locus_tag="QJP94_25960"
     CDS             946..3093
                     /gene="mobQ"
                     /locus_tag="QJP94_RS25960"
                     /old_locus_tag="QJP94_25960"
                     /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_053920598.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELKTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(3342..4043)
                     /locus_tag="QJP94_RS25965"
                     /old_locus_tag="QJP94_25965"
     CDS             complement(3342..4043)
                     /locus_tag="QJP94_RS25965"
                     /old_locus_tag="QJP94_25965"
                     /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_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(769..945)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          946..1304
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3343..4043)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          860..3090
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.856"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gtggcgtttt tttactgtac gccacttatc atatgggtgg aagttttttt tttgcaaccc
       61 cctttttctg tggattacac ccccaaaagc tccacctttc acccccaaaa gctccacctt
      121 tcacccccaa aagctccacc tttcaccccc aaaagctcca cttatcttgc cagaacatct
      181 ttaaaatcat ggtgttacaa gacctaaaaa ggttttaaaa aaaaagatct aaaaataaga
      241 tcttaaaaac ttaacggcga gcctgtggat aacttggggt gctgaaaaca aaaaaccaat
      301 aaaaacaatg cgttgcaata aagcagaatt gcaagtttcg aatacacccc ctccaaccct
      361 gtggaaaccc agtattcatg cgggttcagc gcatatcacc tgccgaaaaa ccgtgcgtat
      421 gtgctcaacc tggcgactga ttcacttccg cttcctcgcc cactcgctcg ctaacgctcg
      481 gtcgctgggg ctgcggcgag cggacgatac aatcactgtt ctggcagcgc ctccagctcg
      541 ttaatcagcg gcagtatgcg cgtcacatca gcctgtcgtg tcacctctgc cttcaggaac
      601 tggagtaacc aggcacgcaa ctgcacctcc tccggctttc tgacctttgc cagcaatgca
      661 gcacccacaa caaccttctg cgctgtgtcc aggctccggc tcttcgcctt caggcgctgt
      721 aatctcgcct cagcatcagc aatcttctgt tcgagcgttc tgctcatgat gtaactccgt
      781 gcgcgatgaa aaatcgcatt ttagcgcgtc actggtagtt taaaaactga gctggcataa
      841 tgcacggcaa atcacgaagt gcgcacttat acaatctcca ctccgtttcg attgtgtgcg
      901 ccctgcgggg ctgaaagaaa actacaaaaa ggcattacgg cagaaatggc gatttatcat
      961 ctcagcatga aaattatctc cagaagcagc ggctacagcg ccgtagcttc cgctgcctat
     1021 cgttccggtt cactgatgct tgatgagcgt accggactga ctcacgacta cacccgcaaa
     1081 agcggtgtgg ctgaggctgt gattctgacc cccgccaccg cccctgcctg gtgtacgaac
     1141 cgtgccgaac tctggaatgc cgttgagaag gccgaacgcc ggaagaactc acaacttgcg
     1201 cgggaaattg aactcgccat cccccacgaa ctgccgcagg atgccgcacg ggaaaccgtt
     1261 ctcgcctttg tcagagaaaa ctttgtcagt cagggcatga ttgctgatgt ggcgttccat
     1321 cacatggata aaacaaatcc ccatgcgcac atcatgctga ccacgagggc tatcggacct
     1381 gctgggttca gcggaaaggt cagggactgg aacgaccgga cacatgccga gacgtggcgg
     1441 gcatcatggg ctgaccatgc aaacagggca ctggcgaacg ccggttatca ggaagagata
     1501 gaccatcgtt catacgagcg acaggggctt gagaaaacgc ctggtattca cctcggaaag
     1561 tctgcctgtg cgatggaaac acgcggtatc gaaacagaac gcggcgaaca gaatcgtctg
     1621 attaacaggc ttaacctgga aatacagatt tcccgcaccg aactcaggaa cggagggctg
     1681 acagagcctg cccgccgtgt ggctgacctt ctgaatatcg ggcttcctga caacgcaact
     1741 tcgtacacac tacgtgacat tatcgaagcg ttgccgaagg acagtaactc ggcatggaaa
     1801 ctcaccagta atgccatgtc gatgatggca gatatgcagg cgacgcgcag acgctgggaa
     1861 gagctgaaga ccgaacgaaa ggaagcgatg agccatgctg ccagcctgaa aaaatcatcg
     1921 ccgttttcgt ccggtttttc ccgtattccc ctgatgcaat gggcggcacc ggaataccgt
     1981 agtgagcagg gaaaaatcca gtctctgagc cagcaaatgg aaaaattacg acagcattac
     2041 cggaaggtgg agaaacagga cattcccgcg agtcagatgg catttgaaaa acagtggcag
     2101 cagtgggggg aatccggcct tgcagctctc agagcccagt tgcttaaacg tgaagaggaa
     2161 ttgcgccgga aggaacagga agatactgaa cgtagtcgcg cggagcagct caggaaaaat
     2221 gacaatgccg ttatggattc aggggtgctg agagcagtcg ttacggggta tggcgaggct
     2281 cccatgcctg gtaacgggga aatgacctgt taccttctgc ttcacaaccg gaacggagaa
     2341 tatacgctct gggggaacga gctggagaaa taccgcacca gaatctttga gagtgttgat
     2401 ttaatgcgtg acaggagtgg ttatatctgt gaccgaagcg aaatcggcca acgtccgcca
     2461 ctgcaacgtg tttattcctc tgcaaccttt gagcaactgc tgacgcaggt ttgccagaca
     2521 tggccgcaac atacccgcaa tctccgccag ccgaagacat ggccggagtc tttctgtctt
     2581 ggagaagacc gccagccagc catgccatca ccagcggcaa ggaaggtgga ttttatgcag
     2641 ggacgtctgc caccgacgct gatgccggtc atgagttctg tcgaccggga aacccgccag
     2701 cttcagcttt tgctggtcat gggcgtggat gactctctgg gcggtgttat ccggcttaat
     2761 ggtacgctgt atcccgcgtt tgccgttccc tcagccgata acaggcatct ggtcatcagt
     2821 gcgctgaccg ataaggggtt acggtatgca gggtatggtg ttgccgtaaa tcacgatgca
     2881 gacagccaca tatcacctgc accagaactg atgcagtttc atctgaaaac ccgtgaggca
     2941 ccgctttttg ctgccgtcaa cacaccagaa aaacagccgg atcatctgtt ccgctcgctg
     3001 ggttttaatc gtacctggga ggaatggcag cgcgaggaag atgcacgaac acacaccacc
     3061 gagaggagac atgatcgcgg ttggtcacag tgaatgtgaa caatattttg ttttgtttaa
     3121 catcgtgtta tgttcgtcga tgttcatcga cagggatgaa tgcaagaagc acactcacat
     3181 aacgcaagca tagttttgtt tttccgcccc ccaaaaattg gggggtcttt tttcgctgca
     3241 tcagagcgtt tttgacgcaa tttttcactt caatagtacc ttcgcactac taacacaaaa
     3301 aaaacgcagc agggagcgtt ttaggtgcct taaaatcgat tttagatcgt catcttgatc
     3361 tgtttgtctt ccttgaagcg aaaatgcagg gctacaaccg tgcgcccctt tttgatcgtc
     3421 tcaacagtta caaccagatc gcttttttcg ttcagttcgg cgatggctgg cttgattatc
     3481 atcttattca agtctttgaa ttgttgatat ttatcttcaa cggcaagcat ggttcggaaa
     3541 tcatcgatag ctatcgttct gtcaccggtg ctgcggaact gctggagcag ctcgtaaatg
     3601 cggatgctgt aggtgctgga aaggctggag acgttcttca cgactacccg cgtaaactgc
     3661 cccttgagct gtgtcagata cggcatgatg gcatcggaga aggtgatatc tactttcgcc
     3721 tcacctttga aatactgcgc ccggtactgc acccagcgga actcttctcg tttttcctcg
     3781 ttcttgatga ttactgacct gtcccagagg cgatctatcg cttccttgag cctagcttca
     3841 gcgtgctgcc gtcccatgtc aggaaaggca tcatgaaact ctgcagccgt gatggtcatg
     3901 gttttttgtt catccggcga aggggaatct tctccggatt ttaggcggct gatacagacc
     3961 agcaggaagc gctgttcctg caaagtgagc ttgtagcttg cctcgataag ggcgtttgat
     4021 ttgtaagcta tcagatctga catttcgctt gctcgttgct attg
//
