LOCUS       NZ_CP124466             4072 bp    DNA     circular CON 10-JUN-2024
DEFINITION  Escherichia coli strain AVS0947 plasmid pAVS0947-F, complete
            sequence.
ACCESSION   NZ_CP124466
VERSION     NZ_CP124466.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34360966
            Assembly: GCF_030037835.1
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  JOURNAL   Unpublished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_030037835.1-RS_2024_06_10
            Annotation Date                   :: 06/10/2024 05:07:06
            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)                     :: 5,192
            CDSs (total)                      :: 5,086
            Genes (coding)                    :: 4,851
            CDSs (with protein)               :: 4,851
            Genes (RNA)                       :: 106
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 79
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 235
            CDSs (without protein)            :: 235
            Pseudo Genes (ambiguous residues) :: 0 of 235
            Pseudo Genes (frameshifted)       :: 85 of 235
            Pseudo Genes (incomplete)         :: 171 of 235
            Pseudo Genes (internal stop)      :: 36 of 235
            Pseudo Genes (multiple problems)  :: 48 of 235
            Pseudo Genes (short protein)      :: 1 of 235
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124466.1.
            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="AVS0947"
                     /isolation_source="environmental: river/lake"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0947-F"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2022-01-13"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            complement(join(2309..4072,1..396))
                     /gene="mobQ"
                     /locus_tag="QJP79_RS25920"
                     /old_locus_tag="QJP79_25920"
     CDS             complement(join(2309..4072,1..396))
                     /gene="mobQ"
                     /locus_tag="QJP79_RS25920"
                     /old_locus_tag="QJP79_25920"
                     /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            575..829
                     /gene="mobC"
                     /locus_tag="QJP79_RS25925"
                     /old_locus_tag="QJP79_25925"
     CDS             575..829
                     /gene="mobC"
                     /locus_tag="QJP79_RS25925"
                     /old_locus_tag="QJP79_25925"
                     /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            1361..2053
                     /locus_tag="QJP79_RS25930"
                     /old_locus_tag="QJP79_25930"
     CDS             1361..2053
                     /locus_tag="QJP79_RS25930"
                     /old_locus_tag="QJP79_25930"
                     /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(39..397)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          398..574
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          1362..2053
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.965"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2313..4072)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.83"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gggatttgtt ttatccatgt gatggaacgc cacatcagca atcatgccct gactgacaaa
       61 gttttctctg acaaaggcga gaacggtttc ccgtgcggca tcctgcggca gttcacgggg
      121 gatagcgagt tcaatttccc gcgcaagttg tgagttcttc cggcattcgg ccttctcaac
      181 ggcattccag agttcggcac ggttcgtaca ccaggcaggg gctgtcgcgg gggtcagaat
      241 cacagcttca gccacaccgc ttttgcgggt gtagtcgtga gtcagtccgg tacgctcatc
      301 aagcatcagt gaaccggaac gataggcagc ggaagctacg gcgctgtagc cgctgcttct
      361 ggagataatt ttcatgctga gatgataaat cgccatttct gccgtaatgc ctttttgtag
      421 ttttctttca gccccgcagg gcgcacacaa tcgaaacgga gtggagattg tataagtgcg
      481 cactttgtga tttgtcgcgc attatgccag ctcagttttt aaactaccag tgacgcgcta
      541 aaatgcgatt tttcatcgcg cacggagtta catcatgagc agaacgctcg aacagaagat
      601 tgctgatgct gaggcgagat tacagcgcct gaaggcgaag agccggagcc tggacacagc
      661 gcagaaggtt gttgtgggtg cagcattgct ggcaaaggtc agaaagccgg aggaggtgca
      721 gttgcgtgcc tggttactcc agttcctgaa ggcagaggtg acacgacagg ctgatgtgac
      781 gcgcatactg ccgctgatta acgagctgga ggcgctgcca ggacagtgat tgtatcgtcc
      841 gctcgccgca gccccagcga ccgagcgtta gcgagcgagt gggcgaggaa gcggaagtga
      901 atccgtcgcc aggttgagca catacgcacg gtttttcggt aggtgatatg cgctgaaccc
      961 gcatgaatac tggatttcca cagggttgga aggggagtat tcggaacttg caattctgct
     1021 ttcttgcaac acattgtttt tattggtttt ttgttttcag cgccccaagt tatccacagg
     1081 ctcgccgtta agtttttaga tcttgttttt aagatcttgt ttttaatact tgttttaggg
     1141 tcaaaattca ttaataaaat caatatgtta tagaggtata tgtggaggaa tttaaggtaa
     1201 aggtggagga atttaaggtg tttaggtgga ggaatttaag gtaaaggtgg aggaatttaa
     1261 ggtgttattc acagaaatgt gaggatataa aaaaaaatat tccacatttc ttatttgtgg
     1321 ggcacattaa agcatcacca catttgaacg ggatctttgt atgtcggact tgattgccta
     1381 caagtcgaat gctttggttg aggccagcta caagttgacc ctacaggaac aacgttttct
     1441 gttgctgtgt atcagtcgat tgaaatctgg tgctgatgct gaattgcaaa agacaatgac
     1501 cattaccgct gcggaatatt ttgattcatt ccctgacatg gggcggaaaa atgccgaggt
     1561 tcagttacag gaagcgatcg atcgtttatg ggacaggtcg atcattctca agaatgacga
     1621 gaagcgtgag gagttccgct ggatccagta tcgggcacag tacgctaaag gtgaggccaa
     1681 ggctcgaata accttttctg acgcggtaat gccttatctg acgcaactga aggggcaatt
     1741 cacgcgcgtt gttataaaaa acatatcagg tttatcaagt agttacagta taagaatata
     1801 cgagttcctc cagcaattcc gcagtacggg agagagaatt attgctctta atgactttcg
     1861 ttcaatgtta gggattgaaa ataaatacaa acaattcaga gacttaaata aaatactaat
     1921 aaaaccctgt gttgacgaac tgaacaaaaa aagcgacctg gctgtaacgg ttgagacgat
     1981 caaaaagggg cgcacggttg tagccctgca ttttcgcttc aaggaagaca aacagatcaa
     2041 gatgacgatc taaaatcgat tttaaggcac ctaaaacgct ccctgctgcg ttttttttgt
     2101 gttagtagtg cgaaggtact attgaagtga aaaattgcgt caaaagcgct ctaatgcagc
     2161 gaaaaaagaa cccccaattt ttgggggcgg aaaaacaaaa ctatgcttgc attatgtgtg
     2221 tgcttcttgc attcatccct gtcgatgaac atagaagaac atcgacgaac ataacacgat
     2281 gttaaacaaa acaaaatatt gttcacattc actgtgacca accgcgatca tgtctcctct
     2341 cggtggtgtg tgttcttgca tcttcctcgc gccgccattc atcccaggta cgattgaaac
     2401 ccagagagcg gaacagatga tccggctgtt tttctggtgt gttgacggca gcaaaaagcg
     2461 gtgcctcacg ggttttcaga tgaaactcca taagttccgg cgcaggtgat atgtggctgt
     2521 ctgcatcgtg atttacggca acaccatacc ctgcataccg taacccctta tcggtcagtg
     2581 cactgatgac cagctggctg ttatcggctg agggaacggc aaacgcggga tacagcgtac
     2641 cattaagccg gacaacaccg cccagagagt catccacgcc catgaccagc aaaagctgaa
     2701 gctggcgggt ttcccggtcg acagaactca ttaccggcat cagcgtcggt agcagacgtc
     2761 cctgcgtaaa atccaccttc cttgctgcca gtgatggcat ggctggctgg cggtcttctc
     2821 caagacagaa agactccggc catgtcttcg gctggcggag attgcgggta tattgcggcc
     2881 atgtctggca aacctgcgtc agaagttgct caaaggtcgc agaggaataa acacgttgca
     2941 gtggtggatg ttgaccgatt tcgcttcggt cacagatata accactcctg tcacgcatta
     3001 aatcaacacg ctcaaagatt ctggtgcggt atttctccag ctcgttcccc cagagcgtgt
     3061 attctccgtt ccggttgtga agcagaaggt aacaggtcat ttccccgtta ccaggcatgg
     3121 gggcctcgcc ataccccgta acgactgcgc tcagtacccc tgaatccata acggcattgt
     3181 catttttcct gagctgttcc gctcgtcgct ccgcgcgact acgttctgta tcctcctgct
     3241 ccttccggcg caattcctct tcacgtttaa gcaactggac tctgagagct gcaaggccgg
     3301 atgcccccca ctgctgccac tgtttttcaa atgccgtctg actcgcggga atgtcctgtt
     3361 tctccacctt ccggtaatgc tgtcgcaatt tttccatttg ctggctcagc gactggattt
     3421 ttccctgttc gctacggtat tccggtgccg cccattgcat caggggaata cgggaaaaac
     3481 cggacgaaaa cggcgatgat tttttcaggc tggcagcatg gctcatcgct tcctttcgtt
     3541 cggtgttcag ctcttcccag cgtctgcgcg tcgcctgcat atctgccatc atcgacatgg
     3601 cattactggt gagtttccat gccgcattac tgtccttcgg caacgcttcg atgatgtcac
     3661 gtagtgtgta cgaagttgcg ttgtcaggaa gcacgatatt cagaaggtca gccacacggc
     3721 gggcaggctc tgtcagcccg ctgttcctga gttcagtgcg ggaaatctgt atttccaggt
     3781 taagcctgtt aatcagacga ttctgttcgc cgcgttctgt ttcgataccg cgtgtttcca
     3841 tcgcacaggc agactttccg aggtgaatac caggcgtttt ctcaagcccc tgtcgctcgt
     3901 atgaacgatg gtctatctct tcctgataac cggcgttcgc cagtgctctg tttgcatggt
     3961 cagcccatga tgcacgccac gtctcggcat gtgtccggtc gttccagtcc ctgacctttc
     4021 cgccgaaccc agcaggtccg acagccctcg tggtcagcat gatgtgcgca tg
//
