LOCUS       NZ_CP124382             4064 bp    DNA     circular CON 07-JUN-2024
DEFINITION  Escherichia coli strain AVS0578 plasmid pAVS0578-H, complete
            sequence.
ACCESSION   NZ_CP124382
VERSION     NZ_CP124382.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34360983
            Assembly: GCF_029990415.1
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  JOURNAL   Unpublished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_029990415.1-RS_2024_06_07
            Annotation Date                   :: 06/07/2024 03:37:34
            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)                     :: 5,439
            CDSs (total)                      :: 5,325
            Genes (coding)                    :: 5,097
            CDSs (with protein)               :: 5,097
            Genes (RNA)                       :: 114
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 228
            CDSs (without protein)            :: 228
            Pseudo Genes (ambiguous residues) :: 0 of 228
            Pseudo Genes (frameshifted)       :: 81 of 228
            Pseudo Genes (incomplete)         :: 162 of 228
            Pseudo Genes (internal stop)      :: 38 of 228
            Pseudo Genes (multiple problems)  :: 47 of 228
            Pseudo Genes (short protein)      :: 1 of 228
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124382.1.
            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="AVS0578"
                     /isolation_source="environmental: river/lake"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0578-H"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2021-07-07"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            join(3917..4064,1..86)
                     /locus_tag="QJP97_RS27110"
                     /old_locus_tag="QJP97_27105"
     CDS             join(3917..4064,1..86)
                     /locus_tag="QJP97_RS27110"
                     /old_locus_tag="QJP97_27105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137429.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_053879751.1"
                     /translation="MTELEMHLLNALEQLQQDYTQRLKDWESAFTDLQHMFELTRQENG
                     QMREQCDDLSQQVQRLAGQVDRLSRLFITNSR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(554..946)
                     /locus_tag="QJP97_RS27115"
                     /old_locus_tag="QJP97_27110"
     CDS             complement(554..946)
                     /locus_tag="QJP97_RS27115"
                     /old_locus_tag="QJP97_27110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014526575.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_249546626.1"
                     /translation="MALSACFRQQLNPVVNSLLKERIIHSPKELEHDNAVIRALQKLQI
                     QEVCNSTLWETAKQQLLQKSDGRYFAINSKHLAFPGPGESHAFCCIKYKNAIGINGNNA
                     ETQSTHYQPYPYDKISIWGPFPHNLT"
                     /name="hypothetical protein"
     gene            complement(1263..1421)
                     /locus_tag="QJP97_RS27310"
     CDS             complement(1263..1421)
                     /locus_tag="QJP97_RS27310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_005093880.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLTPLAAAIGNWTRWIEIL
                     RVLEVVA"
                     /name="hypothetical protein"
     gene            complement(2090..2281)
                     /locus_tag="QJP97_RS27120"
                     /old_locus_tag="QJP97_27115"
     CDS             complement(2090..2281)
                     /locus_tag="QJP97_RS27120"
                     /old_locus_tag="QJP97_27115"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_053880715.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADDQADICEALHDHA
                     DELYRTCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2349..2672
                     /locus_tag="QJP97_RS27125"
                     /old_locus_tag="QJP97_27120"
     CDS             2349..2672
                     /locus_tag="QJP97_RS27125"
                     /old_locus_tag="QJP97_27120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_001444404.1"
                     /translation="MLTIRVTDEEHARLLARCEGKQLASWMRKVCLGAPPSKTSGLPTL
                     APPLLRQFASVGNNLNQIARKINSGQWSGHDRVHVVAALMAIGRELSELRDEVRKQGER
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2881..>3315
                     /locus_tag="QJP97_RS27130"
                     /old_locus_tag="QJP97_27125"
                     /pseudo=""
     CDS             2881..>3315
                     /locus_tag="QJP97_RS27130"
                     /old_locus_tag="QJP97_27125"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            3350..3910
                     /locus_tag="QJP97_RS27135"
                     /old_locus_tag="QJP97_27130"
     CDS             3350..3910
                     /locus_tag="QJP97_RS27135"
                     /old_locus_tag="QJP97_27130"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067489.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_000067492.1"
                     /translation="MSNLLQMGTDFEKKLKERAVSTENMLNSEFRKLEASVDRELNLNG
                     QKIRDAISAHTAAVKEQLETLNSAVNAQFSATENELARRQEELLWKLVKGRILYPSLTA
                     LCVTGGIFLASWGLIQWQESRIAANILAIRDQEETLAKLREKTWGVTYHEGRNGKFLVL
                     PSGVKGENNWTVEKKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     Typing          1918..2004
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.727"
                     /coverage="100.0"
                     /evalue="5.25e-35"
     Typing          complement(1350..1904)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.482"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          2663..4062
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.358"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 agtgcgacga cttgagtcag caggtgcaga gattagccgg gcaggtggac cgcttgagtc
       61 ggttatttat cacgaacagc agataaggga tgaacaggaa aggcaggcac gcctggaacg
      121 ggagcgtgcg cggtcctggc atgaagagca ggaacgggaa gctcgggtat ggcgtggccc
      181 gtcaatgggg atgtgacggt gagttgttcc gggaggttgc cagatggtac cggaacgcgt
      241 taaaaacgca tccgggcgcg attctggcgt gtcgtttttg ttgctgtgtt ttgcctcttt
      301 gccagatcgc gctcattcct cagcctcatc ccgcgatgtc tgcgtatgtc atcaactgaa
      361 aagatggaaa aaaacagtgt catgaggttt acgcaggcaa aaccagcgtt attcacatgg
      421 ctgaatagct atgcatacgg ttaaaattta tcaggtgcga tcgcggcagc ttttcgggtg
      481 gtttgttgcc atttttacct gtcagcagcc gtgatcgcgc tgaacgcatt tcagcggtgc
      541 gtacaataag atattacgtt aaattgtgag ggaatggtcc ccatatactg attttatcat
      601 agggataggg ttggtagtgg gtcgattggg tttcggcatt gtttccgtta atgccaattg
      661 catttttgta tttgatgcaa cagaaggcgt gagattctcc tgggcctgga aaggctaagt
      721 gtttagaatt gatggcaaaa tatcttccgt ccgatttttg aagtagttgt tgtttggctg
      781 tctcccaaag ggtgctgtta caaacttctt gaatttgtag tttttgcagg gctcttatta
      841 ctgcgttgtc atgttccaat tctttagggg agtgtattat tctctctttt aataagctgt
      901 ttaccacagg gtttagttgt tgtctaaagc acgcagataa tgccattgct acacaatttt
      961 gttcccgagg aagcatgttt ggcggggtat gccgtgtttg atgtgatatg tctattctca
     1021 tagaaggtct ctggcttata gcatcaacaa atacggctat aaaacaaaat tttcatagag
     1081 tgattcaaga tcttcttgag atcctttttt gcggcgcgta atctgctgcc tgcaaacaaa
     1141 aaaaccaccg ctaccaacgg tggtttgttt gccggaatct agagctacca actctttctt
     1201 ccgaaggtaa ctggcttggt ggagcacaga taccaaatgc tgtccttcta gtgtagccgc
     1261 agttaggcca ccacttcaag aactcttaat atctcaatcc accttgtcca gttaccaatg
     1321 gctgctgcca gtggcgttaa gtcgtgtctt accgggttgg actcaagacg atagttaccg
     1381 gataaggcgc agcggtcggg ctgaacgggg ggttcgtgca cacagcccag cttggagcga
     1441 acgacctaca ccgagccgag ataccaacag cgtgagctat gagaaagcgc cacgcttccc
     1501 gaagggagaa aggcggacag gtatccggta agcggcaggg tcggaacagg agagcgcacg
     1561 agggagcttc cagggggaaa cgcctggtat ctttatagtc ctgtcgggtt tcgccacctc
     1621 tgacttgagc gtcggttttt gtgatgctcg tcaggggggc ggagcctatg gaaaaacgcc
     1681 atcggcgcgg ccttcttcct gttcctggtc ttttgctcac atgttctttc cggcgttatc
     1741 ccctgattct gtggataaca gcatttcgtt tttgagtgcg tagataccgc tcgccgcagt
     1801 cgaacgaccg agcgtagcga gtcagtgagc gaggaagcgg aaaagcgcct ggacgtgcat
     1861 tttctcctta cgcatctgtg cggcatttca cacccggtat ggcgtacttt tcatacaatc
     1921 cgcactgatg ccgcatggtt cagccagtat acacttcgct atcgctacgt gactgggtca
     1981 tggctgcgcc ccgacacccg ctaaaacctg ctgacgcgcc ctgacgggct tgtctgctcc
     2041 cggcatccgc tcacaggcaa gctgtgaccg tctccgggag ctgtatgtgt cagaggtttt
     2101 caccgtcatc cccgaagcgt gcgaggcagg tgcggtaaag ctcgtcagcg tggtcgtgaa
     2161 gcgcttcgca gatgtcagcc tggtcgtcgg cgtccagttc attcagtttt tccagcaggg
     2221 tcagcgtctg gcttctgatg aagcgggcca tgttaagggc ggttttttcc tgtttagtca
     2281 cagttctgtt tctccatgtg tggggagtct gtcggaggtt tttaatgata ccggtgaaac
     2341 gcgaaaggat gctcacgata cgggtcacgg atgaggaaca tgcgcggctg ctggcacgtt
     2401 gtgagggaaa acaacttgcg tcatggatgc gtaaggtctg cctgggtgca ccgccatcga
     2461 aaacgtcagg tcttccgaca ctggcaccgc cgctgttgcg ccagttcgct tcggtcggca
     2521 ataacctgaa tcagatagcc cggaagataa acagcggaca gtggtcgggg catgaccggg
     2581 ttcatgtggt ggctgcactg atggccatcg gacgtgaact gagtgagctg agggatgagg
     2641 tccgtaaaca gggagaacgg gatgatagtt aagtttcatg ccaggggaaa aggcggtggc
     2701 agtggtccgg ttgattacct gctgggccgg gagcgtaacc gggaaggggc gagagttctg
     2761 cggggtgctc ccgaagaggt gcgggaactc atcgatgcca cgccgtttgc gaaaaaatac
     2821 acctcggggg ttctgtcttt tgcagagcag accctgccac cgggagagcg tgaaagggtg
     2881 atggagagct ttgagcgggt actgatgccc ggtcttgaaa aaaatcagta cagcatcctg
     2941 tgggtggagc accaggacaa ggggcgtctt gagctgaatt ttgtcatccc gaatatggag
     3001 ctggcgagcg gaaaacggct ccagccctat tacgaccgag cggaccgtcc gcgaatcaat
     3061 gcctggcaga cactggtgaa tcaccattac gggctgcacg acccgaacgc accggagaac
     3121 aggcggacac ttgtcacccc gaataatctg ccgaaagcga aacaggaggc cgcagaagcg
     3181 attacgaggg gactggaggc tctttaccat gccggagcgc taaaaacgcg tcaggatgtc
     3241 actgaggcgc ttacagcggc aggttttgag gttgtgagga caaccaggag cagtatcagt
     3301 atcgccgacc cggagggtgg gcgtaatctc aggctgaaag gggcgctgta tgagcaatct
     3361 tttacaaatg gggacagact tcgagaagaa actgaaagag cgtgccgtct ctacagagaa
     3421 catgctgaac agcgagttca ggaagctcga agcgtctgta gacagggaac tgaacttaaa
     3481 cgggcagaaa atcagagacg ctatcagcgc acacacagca gcggtgaaag aacaactgga
     3541 gacgctgaac agtgccgtga acgcgcagtt cagcgccaca gagaacgaac tggcccggcg
     3601 gcaggaagag ctgctctgga agctggtcaa agggcggata ctgtacccgt cgctgacggc
     3661 gctttgcgtc acgggcggga tttttctggc gtcatggggg ctgattcagt ggcaggaaag
     3721 ccggattgcg gcgaacatcc tggctatcag ggaccaggaa gagacgctgg cgaaactccg
     3781 ggaaaaaaca tggggtgtga cgtatcacga gggcaggaac gggaaatttc tggtattgcc
     3841 gtccggggtg aagggggaaa acaactggac ggtggagaag aagaacgcag taagactggt
     3901 cagggagtaa gtgagtatga cagagctgga aatgcactta ctgaacgcct tagagcaatt
     3961 gcagcaggac tatacgcagc ggctgaaaga ctgggagagc gccttcacgg atttgcagca
     4021 tatgttcgag ctgacacgac aggagaacgg gcaaatgagg gaac
//
