LOCUS       NZ_CP075860             2849 bp    DNA     circular CON 21-JUL-2023
DEFINITION  Escherichia coli strain S19-651 plasmid pS19_651-h, complete
            sequence.
ACCESSION   NZ_CP075860
VERSION     NZ_CP075860.1
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 2849)
  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  JOURNAL   Unpublished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 2849)
  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 2849)
  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
            CP075860.1.
            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..2849
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="S19-651"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pS19_651-h"
                     /geo_loc_name="Switzerland: Zurich"
                     /lat_lon="47.40 N 8.55 E"
                     /collection_date="2019"
                     /collected_by="ILS/NENT"
     gene            complement(join(2475..2849,1..642))
                     /locus_tag="JFY28_RS26530"
                     /old_locus_tag="JFY28_026530"
     CDS             complement(join(2475..2849,1..642))
                     /locus_tag="JFY28_RS26530"
                     /old_locus_tag="JFY28_026530"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010849026.1"
                     /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_198798564.1"
                     /translation="MKNLDSPVLSLRDYSTRDTKWDSDRVMADRMAQIYENDSMFSSRG
                     ERMFDCSRRLLFAPKVSRLTGEMKLALRKGEFCHVPFCPVCSRRRSLRWMRRLWEALPK
                     LLVERPAARWLFMTLTVKNPPVENTRETLIRMNAAWKRLSDRKEFRSVLGWLRTTEITY
                     GKVPGCCHPHFHVLMMVPPSMLSGNGYVKHARWVEIWSECLRVDYEAGVDIRVVKPKQG
                     WKRPDGVPLPDMHRAALESGVIETMKYTVKSSEVVRDPAWFLELARQTYGLRMVATGGR
                     LKEVLKVDKPETDEDLVGADIPAEPDEFEEQAFWLAFDWWRDEKRYKRNPKADKKKD"
                     /name="protein rep"
     Typing          complement(1234..1312)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.5"
                     /coverage="80.0"
                     /evalue="3.88e-17"
ORIGIN
        1 aatatccaca cccgcctcat aatcgacacg aaggcattca ctccagatct ccacccagcg
       61 agcatgtttc acataaccat taccggacaa catcgaaggg gggaccatca tcagaacgtg
      121 aaaatgcgga tggcaacatc ctggcacttt cccgtaagta atttccgtcg tacgtaacca
      181 gccaagaacc gacctgaatt ccttacgatc actcaagcgt ttccatgctg cattcatccg
      241 aatgagtgtt tcgcgggtat tttccacagg aggatttttg acagtcagcg tcatgaacaa
      301 ccagcgggcc gcaggacgtt caaccagcaa ttttggcaag gcctcccaga ggcgacgcat
      361 ccagcggaga gagcgacgac gactacacac cggacaaaac ggaacatgac aaaactcccc
      421 cttccgaagg gccagcttca tttcgccagt caggcgggac accttcggcg caaacaacaa
      481 ccgacgggaa caatcaaaca tccgttctcc acgagaggaa aacatcgaat cattttcgta
      541 aatctgcgcc atcctgtcag ccatcactcg atcgctgtcc cattttgtat cccgcgtgct
      601 gtaatcacgt aacgagagta ccggactgtc tagatttttc atttgcaccc cccaagaact
      661 gggcagatgc ggaaattttg tgttagcatt tttctgtcac ctgtgactct gttgccgaac
      721 aacgaattcc aaactggtga tcgacccctg gagtgttacc gcactcgcag ggacccctcc
      781 ccgagctgtt tattttttaa ccatcttttt ttatctcttt tccatctatt tttaccgctc
      841 aaagccgcgc caccactggg ctaagccaaa ataacacaga ccgcagttgt tgcctatagt
      901 atatatacaa ggaaacgcgc gcgaagacct cgccaaagta gactattttt tgttcgattt
      961 tccgagagca aaaacaacaa ccacgaaagc gttttcccga caaaacaccc acaggctttt
     1021 ccaccgattt tgtgaacaac aaaaaacctg cctcgcaggt ggttggtccc actgcgtgac
     1081 accaaccacc atcaccagtg ttttttctcg tgccgtcgtc aaacacaaaa tcggaaccca
     1141 cgccggaggc gcgggacccc acgattttct gtttgacgag tcataaaacg gcgaacgctg
     1201 acagatttca atctgactgc gtgagacgtt ggcggggtgt cggggcgcag ccctgaccag
     1261 gtggcatttg tctgagtgcg cgtgcgcggt ccgacaaata cacatcctgt cccgactttt
     1321 tctccgaaat gctcgcagag gggcggcagt tttgtgccgt tcagccctcc gcaggagcgc
     1381 gctgtttctc gacgaaggag agaaacgtct aagtacgcat ccgcacttaa cgcgcggatg
     1441 atttttggca ccgcagccac cacggccgcg caaaattctg gcgaacggac agcaaatcat
     1501 tttgccgttt ttgtgccgca gccgttccgc gcgatcgaca aactggcagt cgggggaatc
     1561 tcacgaagtg cgcacttata caatctcaac ttcgtttcga ttgtgtgcgg tctgcgacgc
     1621 ggtgaaaacc gcagataaca ggcaaaaaaa tccccctgtg tcagggggcc gtcaaagtca
     1681 atttcctgat gatgatagtt attttgaggt gttgctatgc ccgctcaatt tgccgcagga
     1741 acaccgcaaa aacaactccg atgacgggac aggatgtggg aatgtcggac cgcgcacgcg
     1801 cactcagaca ttccccacct ggtcagggct gcgccccgac accctcgaca acctgcccgg
     1861 gacacgttaa aacgacatct gcgcgtttct ggagcgcccg ttaaccatgg ggatggtatt
     1921 agcgccggga tgcgacagaa acgcgcttaa aacgccactg aacgcatcaa acgcgaaaaa
     1981 acgaataaaa ccttgcctgt ctgcaaaaat cgcgttagaa cgcgtctgag cgcgtctgag
     2041 gggttaaaat tcactgtgcg tcaaatgggg attgttacac cccgccctca aacgcgctca
     2101 cttccccttc ccgtctacat gcgtaaatgt tgttgttttg tatcttttgt gttaagcatc
     2161 ggatgagcgt gtttcttatc gcatttccac tatcatcaac ccgcgaagac ctgtagaaac
     2221 acgccccccc ccgactactg gacagcagaa tcgcaccgcg ttaaacatga catgcgcgtt
     2281 tctggtgagc gaaaagctgt cagccgtgga ttgccgtagc agagacccag aaacgcgctt
     2341 aaaacgcttc cgagtgcgtc aaaacaaaaa aaacgactaa atccttgccc gtttctgaaa
     2401 atcacattag aacgcttctg agcgcgtttc tgaatattct cccagtgcat gaatagttcg
     2461 cgcctgaaac gcgctcaatc cttcttcttg tcagctttcg gattccgctt atagcgcttc
     2521 tcatcccgcc accagtcaaa cgccagccag aaggcttgct cctcgaactc gtccggttct
     2581 gccggaatat ctgccccaac caaatcctcg tctgtctccg gtttatcgac tttcagaacc
     2641 tctttgagac gaccgccggt tgccaccatc cgaagcccgt aggtctgccg cgccagctcc
     2701 agaaaccacg ccggatcacg cacaacttcc gaagatttca ccgtgtattt catcgtctca
     2761 atgacgcctg actccagcgc cgcacgatgc atatcaggca ggggtacacc atccggccgt
     2821 ttccagccct gtttcggttt taccacccg
//
