LOCUS       NZ_CP075861             2275 bp    DNA     circular CON 21-JUL-2023
DEFINITION  Escherichia coli strain S19-651 plasmid pS19_651-i, complete
            sequence.
ACCESSION   NZ_CP075861
VERSION     NZ_CP075861.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16993361
            Assembly: GCF_016404165.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2275)
  AUTHORS   Nusch-Inderbinnen,M., Stevens,M.J.A., Cernela,N., Muller,A.,
            Biggel,M. and Stephan,R.
  TITLE     Distribution of virulence factors, antimicrobial resistance genes
            and phylogenetic relatedness among Shiga toxin-producing Escherichia
            coli serogroup O91 from human infections
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2275)
  AUTHORS   Nusch-Inderbinnen,M., Stevens,M.J.A., Cernela,N., Muller,A.,
            Biggel,M. and Stephan,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-MAY-2021) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich, Zurich 8057,
            Switzerland
REFERENCE   3  (bases 1 to 2275)
  AUTHORS   Stevens,M.J.A., Stephan,R. and Nusch-Inderbinnen,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-DEC-2020) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich, Zurich 8057,
            Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: MAY-2021
            Assembly Method                   :: unicycler v. 0.4.9b
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina MiniSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/21/2023 04:43:18
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,346
            CDSs (total)                      :: 5,228
            Genes (coding)                    :: 4,987
            CDSs (with protein)               :: 4,987
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 241
            CDSs (without protein)            :: 241
            Pseudo Genes (ambiguous residues) :: 0 of 241
            Pseudo Genes (frameshifted)       :: 99 of 241
            Pseudo Genes (incomplete)         :: 130 of 241
            Pseudo Genes (internal stop)      :: 53 of 241
            Pseudo Genes (multiple problems)  :: 41 of 241
            Pseudo Genes (short protein)      :: 4 of 241
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP075861.1.
            Bacteria and source DNA available from Institute Food Hygiene and
            Safety, University Zurich.
            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..2275
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="S19-651"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pS19_651-i"
                     /geo_loc_name="Switzerland: Zurich"
                     /lat_lon="47.40 N 8.55 E"
                     /collection_date="2019"
                     /collected_by="ILS/NENT"
     gene            complement(352..1362)
                     /locus_tag="JFY28_RS26535"
                     /old_locus_tag="JFY28_026535"
     CDS             complement(352..1362)
                     /locus_tag="JFY28_RS26535"
                     /old_locus_tag="JFY28_026535"
                     /inference="COORDINATES: protein motif:HMM:NF013603.2"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006260 - DNA replication [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_187197384.1"
                     /translation="MKNPDSPILSLRDYSTQDSKWDSDRARADQVAKIYASDQAFFRRG
                     ERMFDCSQRLQFAPQSSRLTGEMRLALRHGEFCHVPFCPVCSRRRSLRWMRRLWEALPK
                     LLAEHPTASWLFLTLTVKNPPVGELRETLRQMNAAWERLIKRKAFAPVLGWLRSTEITY
                     GNVRGCCHPHFHVVLWVPSSWFTRDYVKHERWVEIWSECLRVDYAAGAHIKRVRPKRGK
                     VPEGASFAEVQRAALEAGVIETLKYTVKSSEIVRDPAWFLELARQTYGLRMIATGGRFR
                     EILQVEKPETDEDLIGADMPAKPDEFEEMAFWLAFDWRRDEKRYKRNSKADRRKE"
                     /name="protein rep"
     Typing          complement(1944..2026)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.882"
                     /coverage="93.0"
                     /evalue="1.53e-15"
ORIGIN
        1 ggagaaaatc caaaaaaccg gaagcaaaaa cgggacagga tgtgtgtttg tcggaccgcg
       61 cacgcgccat caaacaaaca ccatctggtc agggctgcgc cccgacaccc tagacaccgt
      121 gccagcgaca cgctaaaacg acaaacgcgc gtttctggca ccccaggaaa ccggaagtcc
      181 agagagagtt acagtcgaca acgccagaaa cgcgctcaaa acgcttctga gcgccttaaa
      241 acgaaaaaac gggcaaatac ttgcccgttt ctgaaaatcg cgttagaacg cttctgagcg
      301 cgtttcacct ccactaccgc actattccca caatgtgcct ctgaaacacg ctcactcctt
      361 ccgcctgtct gcttttgaat tccgcttgta gcgtttctcg tcacgtctcc agtcaaacgc
      421 cagccagaac gccatctcct cgaactcgtc cggcttcgct ggcatatcag caccaatcaa
      481 atcctcgtcc gtttccggct tctcgacctg gaggatctcc cgaaaccgtc ctcccgtggc
      541 aatcatccgc agcccgtagg tctgcctcgc cagctccaga aaccacgccg gatcgcgcac
      601 gatttccgat gatttcaccg tgtatttcag cgtctcgatc acgcccgctt ccagcgctgc
      661 ccgctgcacc tcagcaaaac ttgccccttc cggcactttc ccccgttttg gccgcacgcg
      721 cttgatgtgc gcgccagctg cgtaatccac ccgcaggcat tcactccaga tttccaccca
      781 gcgctcatgt ttcacgtaat cccgcgtgaa ccatgacgaa ggaacccaga gcaccacatg
      841 gaagtgcggg tgacaacatc cgcgcacatt cccgtaggta atttccgtac tccgcagcca
      901 tcccagaaca ggcgcaaacg ctttgcgctt gattaaacgc tcccaagccg cattcatctg
      961 ccggagtgtc tcgcgcaact caccaacggg aggatttttt acagtcaggg tcaggaataa
     1021 ccaactcgca gtagggtgct cagccagtag tttcggtagc gcctcccaca gacgacgcat
     1081 ccagcgtaac gagcggcgac ggctacacac cggacaaaac gggacatgac agaattcacc
     1141 atgacgcagt gcaagtcgca tctcgcctgt aagacgggaa ctctgtggag cgaactgtaa
     1201 acgctgactg caatcaaaca tcctctcgcc gcgacggaaa aatgcctggt ctgacgcgta
     1261 aatctttgcc acctggtcag ccctcgcgcg atcgctgtcc cattttgaat cctgcgtgct
     1321 gtagtcacgc agtgagagga tcggactatc tggatttttc atgacctgcc ctcagtaggc
     1381 aggggcagaa atcttgtgtt agcatgttct taccacctgt gcttggctta ccgaatttta
     1441 cctttcaggt ggtcgccccc ggagtggtag cacactgccg gggaacctca ccaacctgtt
     1501 gctcacactg tagccaaaaa aagttgtaaa aacaatttaa caaccatcta caactaaaaa
     1561 acccctcaaa cccgcgccat tactgggctg aaaggcaaaa atgcatccgc gagttgttgc
     1621 ctatagtata aatacaaggc gcaccccaaa atcgctcaat atttgcgcag attttcagca
     1681 ccgcaaaacc ccgtttttcg cgcctgttac acccacccca tccacaacct tttcacccga
     1741 atctgtgaac aacaaaaaac cgtccggcag gtggttggcc tcactgcgtg acaccaacca
     1801 ccactcccag tgtttttatc cgccatgtcg tcaatcacaa aatcggaacc cacgccggag
     1861 gcgcgggacc ccgcgatttt ctgtttgacg agtcagggaa cggcgaacgc tgacagattt
     1921 caatctggct gtgtgagacg ttggcggggt gtcggggcgc agccctgacc agatggtgtt
     1981 tgtttgatgg cgcgtgcgcg gtccgacaaa cacacatcct gtcccgattt tttcgcctga
     2041 acgctggcag atgggcagat gaggctcggc attttcgacg accggacaac aaatcatttt
     2101 gccgtttctt tgagcgtcgc agaccgcaca caatcggaac ggagtggaga ttgtataaat
     2161 gcgcatttca tgattttttt ccgcgcagca atctggcgct cgtgaggtcc aactcgttcg
     2221 caaaaaccgc aaaatgattt gccgtcacat ttccgaaatg ttccgttacc acgcc
//
