LOCUS       NZ_CP124439             4245 bp    DNA     circular CON 10-JUN-2024
DEFINITION  Escherichia coli strain AVS0790 plasmid pAVS0790-C, complete
            sequence.
ACCESSION   NZ_CP124439
VERSION     NZ_CP124439.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN34360970
            Assembly: GCF_030038665.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4245)
  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  JOURNAL   Unpublished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 4245)
  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_030038665.1-RS_2024_06_10
            Annotation Date                   :: 06/10/2024 05:11:55
            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)                     :: 5,212
            CDSs (total)                      :: 5,103
            Genes (coding)                    :: 4,894
            CDSs (with protein)               :: 4,894
            Genes (RNA)                       :: 109
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 82
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 209
            CDSs (without protein)            :: 209
            Pseudo Genes (ambiguous residues) :: 0 of 209
            Pseudo Genes (frameshifted)       :: 72 of 209
            Pseudo Genes (incomplete)         :: 152 of 209
            Pseudo Genes (internal stop)      :: 40 of 209
            Pseudo Genes (multiple problems)  :: 46 of 209
            Pseudo Genes (short protein)      :: 1 of 209
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP124439.1.
            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..4245
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="AVS0790"
                     /isolation_source="wastewater efflux"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0790-C"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2021-08-18"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            join(4016..4245,1..16)
                     /locus_tag="QJP66_RS26145"
     CDS             join(4016..4245,1..16)
                     /locus_tag="QJP66_RS26145"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_349294220.1"
                     /translation="MQPQPAVHDGLPGINARTVGAVVIRLETPAGQQLRVRDQEVQLQP
                     PLILVLNPQHAVLVFIESGHQNPFKARHQLFALPGR"
                     /name="hypothetical protein"
     gene            complement(198..521)
                     /locus_tag="QJP66_RS25955"
                     /old_locus_tag="QJP66_25955"
     CDS             complement(198..521)
                     /locus_tag="QJP66_RS25955"
                     /old_locus_tag="QJP66_25955"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_001347450.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGKLPSL
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(671..>853)
                     /locus_tag="QJP66_RS26150"
                     /pseudo=""
     CDS             complement(671..>853)
                     /locus_tag="QJP66_RS26150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001441803.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            1169..1282
                     /locus_tag="QJP66_RS25960"
                     /old_locus_tag="QJP66_25960"
     CDS             1169..1282
                     /locus_tag="QJP66_RS25960"
                     /old_locus_tag="QJP66_25960"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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_071590655.1"
                     /translation="MHEPPVQSDRCALSGNYHLESNPERHAKAPLAAATDN"
                     /name="replication initiation protein"
     gene            1597..2184
                     /locus_tag="QJP66_RS25965"
                     /old_locus_tag="QJP66_25965"
     CDS             1597..2184
                     /locus_tag="QJP66_RS25965"
                     /old_locus_tag="QJP66_25965"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_011017200.1"
                     /translation="MIRNIFFASAIVVAISGCTAMDKLAGMGVVSQQTSTFDNSTVIDV
                     SPNSLYDPNSTWGTQLQLGAIWSSSQPDQVGLILSYNSNVSNGSSAYLGFIGIDINIDG
                     KISSYKAQQLTNLSNSGYNTVSKTIYTSSKNTVVIPYEVLEKMVSAKNCRLRIHTTEGN
                     QDIDFSAASIPGGKATAIVSIKEFMTKVAKVK"
                     /name="hypothetical protein"
     gene            complement(2414..2932)
                     /locus_tag="QJP66_RS25970"
                     /old_locus_tag="QJP66_25970"
     CDS             complement(2414..2932)
                     /locus_tag="QJP66_RS25970"
                     /old_locus_tag="QJP66_25970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016246513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_011017199.1"
                     /translation="MKCFWACSVSVVLVMSFTVASAENITHTKPLARSDLYLTCKGYQV
                     KGASVINVEKPSYLEGTGEQVEFAIISLGDASDGLKVFFDSWGFSPFGLIESHVMHEHW
                     SLVHVGGRVSVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCINSDKRPSWVEKIYTRT
                     GVFRGGIED"
                     /name="hypothetical protein"
     gene            complement(3061..3276)
                     /locus_tag="QJP66_RS25975"
                     /old_locus_tag="QJP66_25975"
     CDS             complement(3061..3276)
                     /locus_tag="QJP66_RS25975"
                     /old_locus_tag="QJP66_25975"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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_058671277.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSDQLRRLSKG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3280..3765)
                     /locus_tag="QJP66_RS25980"
                     /old_locus_tag="QJP66_25980"
     CDS             complement(3280..3765)
                     /locus_tag="QJP66_RS25980"
                     /old_locus_tag="QJP66_25980"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /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_023139312.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSALLTASGASILWWQGQQIL
                     DNYTTIREQKRTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     Typing          complement(636..808)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.828"
                     /coverage="100.0"
                     /evalue="9.34e-71"
     Typing          733..1278
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.078"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          complement(202..521)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="9.38e-65"
     Typing          complement(2970..4243)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.824"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gctgcccggg cggtaaatcc ttttcggcaa aggacaggac gccggatgtg tacttttttg
       61 cgtagggcga ggcgtcgata agctccctga cttcttccgg cttcccctgc agaacggtgg
      121 cgccgtcgcg ctgtcggtct ttccccagca gataatccac cggaccggcg ccaccgccgc
      181 gccctcgcgg gtgaaactta acgatcatcg tctgcaccct tttccagcac ggcatgccgc
      241 agccgctcga gtccggcatc gatggccatc agcgcggcga cgacctgcac gcggtcgtgc
      301 ccgctgccac caccggcgtt aacctgccgg gcaatctggt tgaggttgtt ccccatgccg
      361 gcaagctgac gaagcagcgc cggcgagagc gagggaagct tgccggcgcg ggcgggtttc
      421 tcgtccaggc acgtctggcg catccaggct gcaagctgtt taccgtcgca gcgctccagc
      481 agacggcggt gctcatcttc ggtcacccac atcgtgagca ttttgctgcg tttgtctgcc
      541 aatccggcct cctgataacg ccgggacggg cgggaaatct tttcccggtc ggcgcggtgt
      601 tggacaagcc gcaggcgcgt cagtggtttt agcgggtttc ggggcgcagc cctgaaccag
      661 tcacgtagcg ctagcggagt gtatactggc ttactatgtt ggcacgggtg cgggaatcag
      721 tgaagcgctt catgtggcag gagaaaaatg cagcagcgga gcgtaagcag aatatatgag
      781 acaggatata ttccgcttcc tcgctcactg actcgctgcg ctcggtcgtt cggctgcggc
      841 gagcggtgcg ggcttacgaa tagggcggaa gtttcctggt aaatgccaag aaggaactta
      901 acagggaaat gagaaggccg cggcgaagcc gtttttccat aggctccgcc cccctgacaa
      961 gcatcacgaa atctgacgct caaatcagtg gtggcgaaac ccgacaggac ttaaagatac
     1021 caggcgtttc cccctggtgg ctccctcgtg cgctctcctg ttcctgcctt tcggtttacc
     1081 ggtgtcattc cgctgttatg gccgcgttta tctcattcca cgcctgacac tcagttccgg
     1141 gtaggcagtt cgctccaagc tggactgtat gcacgaaccc cccgttcagt ccgaccgctg
     1201 cgccttgtcc ggtaactatc atcttgagtc caacccggaa agacatgcaa aagcgccact
     1261 ggcagcagcc actgataact gatttagagg agttagtctt gaagttatgc gccggttaag
     1321 gctaaactga aaggacaagt tttggtgact gcgctcctcc aagccagtta cctcggttca
     1381 aagagttggt agctctgaga accttcgaaa aaccgccctg caaggcggtt ttttcgtttc
     1441 gtggtcaaga gattacgacg ctcgcttaag gatctcaaga agatctgccc gtatcctttc
     1501 aaaatccttc ttaaaaagaa aatcgcgtgc aaaatagttt cggtaatacg atgctttttt
     1561 cactctctgg taacaagaaa aaaataggat aacgaaatga taaggaatat tttttttgct
     1621 tctgcgatcg tagtagccat ctctggctgt acagcaatgg ataaactggc gggaatgggt
     1681 gtggtttctc aacaaacatc cacttttgac aactcaactg tcatagatgt ctctccaaat
     1741 tcgctatacg acccgaacag cacttgggga acacaacttc agttaggagc aatatggtcc
     1801 agctcccaac cagatcaagt agggctgatc ctttcctaca attcaaatgt atctaatgga
     1861 agttccgcat acttaggttt cataggaata gatataaata ttgatggcaa gatatctagc
     1921 tataaagcac agcaactaac taatctaagt aacagtggat acaatactgt atccaaaacg
     1981 atctacacat ccagcaaaaa taccgttgtt atcccatatg aagtgctaga aaagatggtg
     2041 tcggctaaaa actgccgcct tcgcatacat acaactgaag gtaatcaaga catcgatttc
     2101 tcagctgcaa gtatccctgg ggggaaagct actgcgattg tttccattaa agaattcatg
     2161 actaaagtgg caaaagttaa ataggtaact aagccgccat tacaggcggc acttcacact
     2221 atttaccata acatcccttg ggcgcaccgc tcagacgcgc tcagggcgtt tttccgtcct
     2281 gagccacaaa agagcccgtc ttctcaccga aaaccgcccg gaatcgcgct gataagtttt
     2341 gcgtgtatgc atagccatgc acgaaaatga actaacactc tgttcaatga attttcatgc
     2401 tgtacgcagt attttagtct tctatgcccc ctcgaaacac gcctgttctt gtgtagattt
     2461 tttcgaccca agatggcctt ttatcagagt taatgcagcc atacaggaac acacctgttt
     2521 tgggtttata gctcccaccc tcctgtggct ggttatctac aaatgaataa tcaatctttt
     2581 cacccttgac tgaaacacgc cccccaacat gaactaaaga ccagtgctca tgcattacat
     2641 gactttcaat caatccaaaa ggagaaaaac cccatgaatc aaaaaaaacc ttgagtccat
     2701 cagatgcatc accgagagaa atgattgcaa actcaacctg ctcacctgta ccttcaaggt
     2761 aagaaggttt ctcgacgtta attacagacg cccccttcac ctgataacct ttacaggtaa
     2821 gatataagtc gctcctggct aacggttttg tgtgtgtaat gttctccgca gaagcgactg
     2881 taaatgacat aaccaaaact actgagactg agcaagccca gaaacacttc ataacgcatc
     2941 ccttttcatt gattaactac attccaagct caaaaccttt ctgccgctgc gatcgttcca
     3001 gctccagcgt tttctgatgc tgcgccgccc gctcctgctg cctgtgtgct tcaatcgagt
     3061 tcagcctttc gacaaccggc gcagctgatc gctcaaactc tgcacctgcc tgctcaagcc
     3121 cgtgacgcgc tcgctcagcg ccgcgttctc ccgttgcata agaccagaca tcgtccgcca
     3181 ttccgcgaag gcgttctccc actcgtccag ccttttcgag tagtcctgct gtagctgctc
     3241 taatgcgctc agcaactgtt tttccagctc cgtcatgtgc tatttccccg ccagtatcat
     3301 ccagctcgaa tcctctccga accgtcccgc ttccgggttc accctcacgc agcggcgtct
     3361 ctgctctccg caggtcgaga gctgcacgcc gctgttcctc tcggacagca tggcctgcgt
     3421 gcgcttctgc tcccggatag tcgtgtaatt gtcgagtatc tgctgcccct gccaccacag
     3481 aatgcttgcg cccgatgctg tcagcagtgc agacaccagg acgatggtca gccacgtctg
     3541 gctgaccata cgcaccatgc ctttcgtgcg ctggctcatg gctgaggaca gcttccggtc
     3601 gtggtcgagg atggcggcgc tgattctctt ctcgctttcg ctcagttccg ctctgacaga
     3661 cttctcgtgc tcgctgaatg cggctttcag catctcgccg gtactctgct gctgcgcttt
     3721 cgatttctgc tctaagtcct ttgccagcgt taaaagactg ttcatagatg gctcccttca
     3781 gtcggatgtt tcgccccccg tccgggtcgg caatgctgat gctgcttttt gtggtgcgta
     3841 ccacctcaaa acctgcgctt tccagcgcct cagtgacgtc ctggcgggtt ttcagctccc
     3901 cggacgaggc taaggccagt aaaccccgtg taattgcctg agcggcttcc tgcttcgttt
     3961 ccggcagcgc ggacggcgtg accagcgccc gccggttttc aggcgcgttc gggtcatgca
     4021 gccccagcct gccgttcacg atggtctgcc aggcatcaat gcgcggacgg tcggcgcggt
     4081 cgtaatacgg ctggagacgc ctgccggtca gcagctccgt gttcgggatc aggaagttca
     4141 gctccagccg ccccttatcc tggtgctcaa cccacaacac gctgtactgg tctttatcga
     4201 gtccgggcat cagaacccgt tcaaagctcg ccatcagctt ttcgc
//
