LOCUS       NZ_CP075710             2852 bp    DNA     linear   CON 27-JUN-2023
DEFINITION  Escherichia coli strain STEC2018-607 plasmid pSTEC2018_607-m.
ACCESSION   NZ_CP075710
VERSION     NZ_CP075710.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16993387
            Assembly: GCF_016403625.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2852)
  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  JOURNAL   Unpublished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 2852)
  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 2852)
  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
            Assembly Name                     :: STEC2018-607
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80.0x
            Sequencing Technology :: Illumina MiniSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/27/2023 06:12:10
            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)                     :: 5,666
            CDSs (total)                      :: 5,550
            Genes (coding)                    :: 5,293
            CDSs (with protein)               :: 5,293
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 257
            CDSs (without protein)            :: 257
            Pseudo Genes (ambiguous residues) :: 0 of 257
            Pseudo Genes (frameshifted)       :: 100 of 257
            Pseudo Genes (incomplete)         :: 139 of 257
            Pseudo Genes (internal stop)      :: 55 of 257
            Pseudo Genes (multiple problems)  :: 37 of 257
            Pseudo Genes (short protein)      :: 4 of 257
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP075710.1.
            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/
FEATURES             Location/Qualifiers
     source          1..2852
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="STEC2018-607"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pSTEC2018_607-m"
                     /geo_loc_name="Switzerland: Zurich"
                     /lat_lon="47.40 N 8.55 E"
                     /collection_date="2018"
                     /collected_by="ILS/NENT"
     gene            <1..336
                     /locus_tag="JFX52_RS28000"
                     /old_locus_tag="JFX52_28000"
     CDS             <1..336
                     /locus_tag="JFX52_RS28000"
                     /old_locus_tag="JFX52_28000"
                     /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_215771242.1"
                     /translation="HPVPTFSPKCSQRGGSFVPFSPPQERAVSRRRRETSKCASALNAR
                     MIFGTAATTAAQNSGERTANHFAVFVPQPFRAIDKLAVGGISRSAHLYNLNFVSIVCGL
                     RRGENRR"
                     /name="hypothetical protein"
     gene            complement(1176..2192)
                     /locus_tag="JFX52_RS28005"
                     /old_locus_tag="JFX52_28005"
     CDS             complement(1176..2192)
                     /locus_tag="JFX52_RS28005"
                     /old_locus_tag="JFX52_28005"
                     /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_062851214.1"
                     /translation="MKNPDSPVLSLRDYSTRDTKWDSDRVMADRVAQIYENDSMFSSRG
                     ERMFDCSRRLLFAPKVSRLTGEMKLALRKGEFCHVPFCPVCSRRRSLRWMRRLWEALPK
                     LLVERPAARWLFMTLTVKNPPVENTRETLIRMNAAWKRLSDRKEFRSVLGWLRTTEITY
                     GKVPGCCHPHFHVLMMVPPSMLSGNGYVKHARWVEIWSECLRVDYEAGVDIRVVKPKQG
                     WKRPDGVTLPDMHRAALESGVIETMKYTVKSSEVVRDPAWFLELARQTYGLRMVATGGR
                     LKEVLKVDKPETDEDLVGADIPAEPDEFEEQAFWLAFDWWRDEKRYKRNPKADKKKD"
                     /name="protein rep"
ORIGIN
        1 catcctgtcc cgactttttc tccgaaatgc tcgcagaggg gcggcagttt tgtgccgttc
       61 agccctccgc aggagcgcgc tgtttctcga cgaaggagag aaacgtctaa atgcgcatcc
      121 gcgcttaacg cgcggatgat ttttggcacc gcagccacca cggccgcgca aaattctggc
      181 gaacggacag caaatcattt tgccgttttt gtgccgcagc cgttccgcgc gatcgacaaa
      241 ctggcagtcg ggggaatctc acgaagtgcg cacttataca atctcaactt cgtttcgatt
      301 gtgtgcggtc tgcgacgcgg tgaaaaccgc agataacagg caaaaaaatc cccctgtgtc
      361 agggggccgt caaagtcaat ttcctgatga tgatagttat tttgaggtgt tgctatgccc
      421 gctcaatttg ccgcaggaac accgcaaaaa caactccgat gacgggacag gatgtgggaa
      481 tgtcggaccg cgcacgcgca ctcagacatt ccccacctgg tcagggctgc gccccgacac
      541 cctcgacaac ctgcccggga cacgttaaaa cgacatctgc gcgtttctgg agcgcccgtt
      601 aaccatgggg atggtattag cgccgggatg cgacagaaac gcgcttaaaa cgcccctgaa
      661 cgcatcaaac gcgaaaaaac gaataaaacc ttgcctgtct gcaaaaatcg cgttagaacg
      721 cgtctgagcg cgtctgaggg gttaaaattc actgtgcgtc aaatggggat tgttacaccc
      781 cgccctcaaa cgcgctcact tccccttccc gtctacatgc ggaaatgttg ttgttttgta
      841 tcttttatgt taagcatcgg atgagcgtgt ttcttatcgc atttccacta tcatcaaccc
      901 gcgaagacct gtagaaacac gctcaccccc cccgactact ggacagcaga atcgcaccgc
      961 gttaaacatg acatgcgcgt ttctggtgag cgaaaagctg tcagccgtgg attgccgtag
     1021 cagagaccca gaaacgcgct taaaacgctt ccgagtgcgc caaaacaaaa aaaacgacta
     1081 aatccttgcc cgtttctgaa aatcacatta gaacgcttct gagcgcgttt ctgaatattc
     1141 tcccagtgca tgaatagttc gcgcctgaaa cgcgctcaat ccttcttctt gtcagctttc
     1201 ggattccgct tatagcgctt ctcatcccgc caccagtcaa acgccagcca gaaggcttgc
     1261 tcctcgaact cgtccggttc tgccggaata tctgccccaa ccaaatcctc gtctgtctcc
     1321 ggtttatcga ctttcagaac ctctttgaga cgaccgccgg ttgccaccat ccgaagcccg
     1381 taggtctgcc gcgccagctc cagaaaccac gccggatcac gcacaacttc cgaagatttc
     1441 accgtgtatt tcatcgtctc aatgacgcct gactccagcg ccgcacgatg catatcaggc
     1501 agggttacac catccggccg tttccagccc tgtttcggtt ttaccacccg aatatccaca
     1561 cccgcctcat aatcgacacg aaggcattca ctccagatct ccacccagcg agcatgtttc
     1621 acataaccat taccggacaa catcgaaggg gggaccatca tcagaacgtg aaaatgcgga
     1681 tggcaacatc ctggcacctt cccgtaagta atttccgtcg tacgtaacca gccaagaacc
     1741 gacctgaatt ccttacgatc actcaagcgt ttccatgctg cattcatccg aatgagtgtt
     1801 tcgcgggtat tttccacagg aggatttttg acagtcagcg tcatgaacaa ccagcgggcc
     1861 gcaggacgtt caaccagcaa ttttggcaag gcctcccaga ggcgacgcat ccagcggaga
     1921 gagcgacgac gactacacac cggacaaaac ggaacatgac aaaactcccc cttccgaagg
     1981 gccagcttca tttcgccagt caggcgggac accttcggcg caaacaacaa ccgacgggaa
     2041 caatcaaaca tccgttctcc acgagaggaa aacatcgaat cattttcgta aatctgcgcc
     2101 accctgtcag ccatcactcg atcgctgtcc cattttgtat cccgcgtgct gtaatcacgt
     2161 aacgagagta ccggactgtc tggatttttc atttgcaccc cccaagaact gggcagatgc
     2221 ggaaattttg tgttagcatt tttctgtcac ctgtgactct gttgccgaac aacgaattcc
     2281 aaactggtga tcgacccctg gagtgttacc gcactcgcag ggacccctcc ccgagctgtt
     2341 tattttttaa ccatcttttt ttatctcttt tccatctatt tttaccgctc aaagccgcgc
     2401 caccactggg ctaagccaaa ataacacaga ccgcagttgt tgcctatagt atatatacaa
     2461 ggaaacgcgc gcgaagacct cgccaaggta gactattttt tgttcgattt tccgagaaca
     2521 aaaacaacaa ccacgaaagc gttttcccga caaaacaccc acaggctttt ccaccgattt
     2581 tgtgaacaac aaaaaacctg cctcgcaggt ggttggtccc actgcgtgac accaaccacc
     2641 atcaccagtg ttttttctcg tgccgtcgtc aaacacaaaa tcggaaccca cgccggaggc
     2701 gcgggacccc acgattttct gtttgacgag tcataaaacg tctcacgctg acagatttca
     2761 atctgactgc gtgagacgtt ggcggggtgt cggggcgcag ccctgaccag gtggcatttg
     2821 tctgattgcg cgtgcgcggt ccgacaaata ca
//
