LOCUS       NZ_CP124445             4245 bp    DNA     circular CON 10-JUN-2024
DEFINITION  Escherichia coli strain AVS0196 plasmid pAVS0196-C, complete
            sequence.
ACCESSION   NZ_CP124445
VERSION     NZ_CP124445.1
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 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  JOURNAL   Unpublished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_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
            CP124445.1.
            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="AVS0196"
                     /isolation_source="environmental: river near WWTP effluent"
                     /db_xref="taxon:562"
                     /plasmid="pAVS0196-C"
                     /geo_loc_name="Switzerland: Kanton Zug"
                     /collection_date="2020-11-26"
                     /collected_by="Amt fuer Verbraucherschutz, Kanton Zug"
     gene            complement(<25..867)
                     /locus_tag="QJP94_RS25925"
                     /old_locus_tag="QJP94_25925"
                     /pseudo=""
     CDS             complement(<25..867)
                     /locus_tag="QJP94_RS25925"
                     /old_locus_tag="QJP94_25925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557251.1"
                     /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            complement(857..1180)
                     /locus_tag="QJP94_RS25930"
                     /old_locus_tag="QJP94_25930"
     CDS             complement(857..1180)
                     /locus_tag="QJP94_RS25930"
                     /old_locus_tag="QJP94_25930"
                     /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(1330..>1512)
                     /locus_tag="QJP94_RS26110"
                     /pseudo=""
     CDS             complement(1330..>1512)
                     /locus_tag="QJP94_RS26110"
                     /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            1828..1941
                     /locus_tag="QJP94_RS25935"
                     /old_locus_tag="QJP94_25935"
     CDS             1828..1941
                     /locus_tag="QJP94_RS25935"
                     /old_locus_tag="QJP94_25935"
                     /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            2256..2843
                     /locus_tag="QJP94_RS25940"
                     /old_locus_tag="QJP94_25940"
     CDS             2256..2843
                     /locus_tag="QJP94_RS25940"
                     /old_locus_tag="QJP94_25940"
                     /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(3073..3591)
                     /locus_tag="QJP94_RS25945"
                     /old_locus_tag="QJP94_25945"
     CDS             complement(3073..3591)
                     /locus_tag="QJP94_RS25945"
                     /old_locus_tag="QJP94_25945"
                     /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(3720..3935)
                     /locus_tag="QJP94_RS25950"
                     /old_locus_tag="QJP94_25950"
     CDS             complement(3720..3935)
                     /locus_tag="QJP94_RS25950"
                     /old_locus_tag="QJP94_25950"
                     /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"
     Typing          complement(1295..1467)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.828"
                     /coverage="100.0"
                     /evalue="9.34e-71"
     Typing          1392..1937
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.078"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          complement(2..867)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.232"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(3629..4245)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="84.951"
                     /coverage="99.0"
                     /evalue="2.43e-102"
ORIGIN
        1 gacagcttcc ggtcgtggtc gaggatggcg gcgctgattc tcttctcgct ttcgctcagt
       61 tccgctctga cagacttctc gtgctcgctg aatgcggctt tcagcatctc gccggtactc
      121 tgctgctgcg ctttcgattt ctgctctaag tcctttgcca gcgttaaaag actgttcata
      181 gatggctccc ttcagtcgga tgtttcgccc cccgtccggg tcggcaatgc tgatgctgct
      241 ttttgtggtg cgtaccacct caaaacctgc gctttccagc gcctcagtga cgtcctggcg
      301 ggttttcagc tccccggacg aggctaaggc cagtaaaccc cgtgtaattg cctgagcggc
      361 ttcctgcttc gtttccggca gcgcggacgg cgtgaccagc gcccgccggt tttcaggcgc
      421 gttcgggtca tgcagcccca gcctgccgtt cacgatggtc tgccaggcat caatgcgcgg
      481 acggtcggcg cggtcgtaat acggctggag acgcctgccg gtcagcagct ccgtgttcgg
      541 gatcaggaag ttcagctcca gccgcccctt atcctggtgc tcaacccaca acacgctgta
      601 ctggtcttta tcgagtccgg gcatcagaac ccgttcaaag ctcgccatca gcttttcgcg
      661 ctgcccgggc ggtaaatcct tttcggcaaa ggacaggacg ccggatgtgt acttttttgc
      721 gtagggcgag gcgtcgataa gctccctgac ttcttccggc ttcccctgca gaacggtggc
      781 gccgtcgcgc tgtcggtctt tccccagcag ataatccacc ggaccggcgc caccgccgcg
      841 ccctcgcggg tgaaacttaa cgatcatcgt ctgcaccctt ttccagcacg gcatgccgca
      901 gccgctcgag tccggcatcg atggccatca gcgcggcgac gacctgcacg cggtcgtgcc
      961 cgctgccacc accggcgtta acctgccggg caatctggtt gaggttgttc cccatgccgg
     1021 caagctgacg aagcagcgcc ggcgagagcg agggaagctt gccggcgcgg gcgggtttct
     1081 cgtccaggca cgtctggcgc atccaggctg caagctgttt accgtcgcag cgctccagca
     1141 gacggcggtg ctcatcttcg gtcacccaca tcgtgagcat tttgctgcgt ttgtctgcca
     1201 atccggcctc ctgataacgc cgggacgggc gggaaatctt ttcccggtcg gcgcggtgtt
     1261 ggacaagccg caggcgcgtc agtggtttta gcgggtttcg gggcgcagcc ctgaaccagt
     1321 cacgtagcgc tagcggagtg tatactggct tactatgttg gcacgggtgc gggaatcagt
     1381 gaagcgcttc atgtggcagg agaaaaatgc agcagcggag cgtaagcaga atatatgaga
     1441 caggatatat tccgcttcct cgctcactga ctcgctgcgc tcggtcgttc ggctgcggcg
     1501 agcggtgcgg gcttacgaat agggcggaag tttcctggta aatgccaaga aggaacttaa
     1561 cagggaaatg agaaggccgc ggcgaagccg tttttccata ggctccgccc ccctgacaag
     1621 catcacgaaa tctgacgctc aaatcagtgg tggcgaaacc cgacaggact taaagatacc
     1681 aggcgtttcc ccctggtggc tccctcgtgc gctctcctgt tcctgccttt cggtttaccg
     1741 gtgtcattcc gctgttatgg ccgcgtttat ctcattccac gcctgacact cagttccggg
     1801 taggcagttc gctccaagct ggactgtatg cacgaacccc ccgttcagtc cgaccgctgc
     1861 gccttgtccg gtaactatca tcttgagtcc aacccggaaa gacatgcaaa agcgccactg
     1921 gcagcagcca ctgataactg atttagagga gttagtcttg aagttatgcg ccggttaagg
     1981 ctaaactgaa aggacaagtt ttggtgactg cgctcctcca agccagttac ctcggttcaa
     2041 agagttggta gctctgagaa ccttcgaaaa accgccctgc aaggcggttt tttcgtttcg
     2101 tggtcaagag attacgacgc tcgcttaagg atctcaagaa gatctgcccg tatcctttca
     2161 aaatccttct taaaaagaaa atcgcgtgca aaatagtttc ggtaatacga tgcttttttc
     2221 actctctggt aacaagaaaa aaataggata acgaaatgat aaggaatatt ttttttgctt
     2281 ctgcgatcgt agtagccatc tctggctgta cagcaatgga taaactggcg ggaatgggtg
     2341 tggtttctca acaaacatcc acttttgaca actcaactgt catagatgtc tctccaaatt
     2401 cgctatacga cccgaacagc acttggggaa cacaacttca gttaggagca atatggtcca
     2461 gctcccaacc agatcaagta gggctgatcc tttcctacaa ttcaaatgta tctaatggaa
     2521 gttccgcata cttaggtttc ataggaatag atataaatat tgatggcaag atatctagct
     2581 ataaagcaca gcaactaact aatctaagta acagtggata caatactgta tccaaaacga
     2641 tctacacatc cagcaaaaat accgttgtta tcccatatga agtgctagaa aagatggtgt
     2701 cggctaaaaa ctgccgcctt cgcatacata caactgaagg taatcaagac atcgatttct
     2761 cagctgcaag tatccctggg gggaaagcta ctgcgattgt ttccattaaa gaattcatga
     2821 ctaaagtggc aaaagttaaa taggtaacta agccgccatt acaggcggca cttcacacta
     2881 tttaccataa catcccttgg gcgcaccgct cagacgcgct cagggcgttt ttccgtcctg
     2941 agccacaaaa gagcccgtct tctcaccgaa aaccgcccgg aatcgcgctg ataagttttg
     3001 cgtgtatgca tagccatgca cgaaaatgaa ctaacactct gttcaatgaa ttttcatgct
     3061 gtacgcagta ttttagtctt ctatgccccc tcgaaacacg cctgttcttg tgtagatttt
     3121 ttcgacccaa gatggccttt tatcagagtt aatgcagcca tacaggaaca cacctgtttt
     3181 gggtttatag ctcccaccct cctgtggctg gttatctaca aatgaataat caatcttttc
     3241 acccttgact gaaacacgcc ccccaacatg aactaaagac cagtgctcat gcattacatg
     3301 actttcaatc aatccaaaag gagaaaaacc ccatgaatca aaaaaaacct tgagtccatc
     3361 agatgcatca ccgagagaaa tgattgcaaa ctcaacctgc tcacctgtac cttcaaggta
     3421 agaaggtttc tcgacgttaa ttacagacgc ccccttcacc tgataacctt tacaggtaag
     3481 atataagtcg ctcctggcta acggttttgt gtgtgtaatg ttctccgcag aagcgactgt
     3541 aaatgacata accaaaacta ctgagactga gcaagcccag aaacacttca taacgcatcc
     3601 cttttcattg attaactaca ttccaagctc aaaacctttc tgccgctgcg atcgttccag
     3661 ctccagcgtt ttctgatgct gcgccgcccg ctcctgctgc ctgtgtgctt caatcgagtt
     3721 cagcctttcg acaaccggcg cagctgatcg ctcaaactct gcacctgcct gctcaagccc
     3781 gtgacgcgct cgctcagcgc cgcgttctcc cgttgcataa gaccagacat cgtccgccat
     3841 tccgcgaagg cgttctccca ctcgtccagc cttttcgagt agtcctgctg tagctgctct
     3901 aatgcgctca gcaactgttt ttccagctcc gtcatgtgct atttccccgc cagtatcatc
     3961 cagctcgaat cctctccgaa ccgtcccgct tccgggttca ccctcacgca gcggcgtctc
     4021 tgctctccgc aggtcgagag ctgcacgccg ctgttcctct cggacagcat ggcctgcgtg
     4081 cgcttctgct cccggatagt cgtgtaattg tcgagtatct gctgcccctg ccaccacaga
     4141 atgcttgcgc ccgatgctgt cagcagtgca gacaccagga cgatggtcag ccacgtctgg
     4201 ctgaccatac gcaccatgcc tttcgtgcgc tggctcatgg ctgag
//
