LOCUS       NZ_CP075859             3606 bp    DNA     linear   CON 21-JUL-2023
DEFINITION  Escherichia coli strain S19-651 plasmid pS19_651-g.
ACCESSION   NZ_CP075859
VERSION     NZ_CP075859.1
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 3606)
  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  JOURNAL   Unpublished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 3606)
  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 3606)
  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
            CP075859.1.
            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..3606
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="S19-651"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pS19_651-g"
                     /geo_loc_name="Switzerland: Zurich"
                     /lat_lon="47.40 N 8.55 E"
                     /collection_date="2019"
                     /collected_by="ILS/NENT"
     gene            278..472
                     /locus_tag="JFY28_RS26520"
                     /old_locus_tag="JFY28_026520"
     CDS             278..472
                     /locus_tag="JFY28_RS26520"
                     /old_locus_tag="JFY28_026520"
                     /inference="COORDINATES: protein motif:HMM:NF033650.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ANR family transcriptional regulator"
                     /protein_id="WP_024194141.1"
                     /translation="MNQDKAIYLENKYFSPANEAVRLEREGDYIGAWKKWHDALHYAKG
                     ENIDWCIARAEYCKKTGRF"
                     /name="ANR family transcriptional regulator"
     gene            complement(2031..3047)
                     /locus_tag="JFY28_RS26525"
                     /old_locus_tag="JFY28_026525"
     CDS             complement(2031..3047)
                     /locus_tag="JFY28_RS26525"
                     /old_locus_tag="JFY28_026525"
                     /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_217077974.1"
                     /translation="MKNPDSPVLSLRDYSTRDTKWDSDRVMADRVAQIYESDSMFSSRG
                     ERMFDCSRRLLFAPKVSRLTGEMKLALRKGEFCHVPFCPVCSRRRSLRWMRRLWEALPK
                     LLTERPAARWLFMTLTVKNPPVEDTRETLKRMNAAWNRLVQRKEFRPVLGWLRTTEITY
                     GRVPGCCHPHFHVLMMVPPSMLSGNGYVKHARWVEIWSECLRVDYEAGVDIRVVKPKQG
                     WKRPDGVPLPDMHRAALESGVIETMKYTVKSSEVVRDPAWFLELARQTYGLRMVATGGR
                     LKEVLKVDKPETDEDLIGADIPAELDEFEEQAFWLAFDWGRTEKRYKRNPEADRMKD"
                     /name="protein rep"
     Typing          complement(18..100)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="83.529"
                     /coverage="93.0"
                     /evalue="3.31e-12"
     Typing          complement(1396..1473)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.5"
                     /coverage="87.0"
                     /evalue="5.64e-30"
ORIGIN
        1 ggctgcgtga gacgttggcg gggtgtcggg gcgcagccct gaccaggcgg catttgtctg
       61 attgcttgtg cgcggtccga caaatacaca tcctgtcccg tttttcgcac ggtttttatt
      121 gattaccgga cagatgaacc cggattgcca tgttgcgaaa atcacgttaa aacgattacg
      181 agcgtgcagt tgggctgata tatcaacagt catgccaata tgtattaacc cgacaggccg
      241 ctctttttta attcaaataa aaatataaat tacgagtatg aatcaggaca aagcaattta
      301 tttagaaaat aaatattttt cacccgcaaa cgaagctgtc agactggagc gtgaaggcga
      361 ttacattgga gcatggaaaa aatggcatga tgcgcttcat tatgccaaag gcgaaaatat
      421 agattggtgt atagccagag ctgaatattg taaaaagaca ggccggtttt aattctgacg
      481 gggtttcaaa ggggcgtccc ctttggcacg tcgacgtatc aaaatgcgcc agcattttgt
      541 atacagtcgg taacgtgcct ccaggattgc cccataatat ttcctatcta cataatgtct
      601 aactaagatc catctaatat ccatctaaga tccatttaag gtccatctaa atcagtaaat
      661 atctaactag tgtccatcta aggtctatct aaagtccatc taaaggctaa ctaacggttc
      721 accaaaaagg aacgcatgta gtagacgcca cataaaaaag tcctgaaatg gaggaatcgt
      781 cataaagaga ttcctgtttt tagcgttctg atgcaggata aggcaaacac cgcaaaatga
      841 cgtctttggt atgttttgtg atgtttgctt ctggcatctg ttatctgttt tattgggtgt
      901 ttttatgagc gttgatgtaa ttaaacaaat tcagagtata caggacaaag gaattattat
      961 ttattcaaaa tacagagcta acgaatttaa cagagatgat gtatacagag agagttacag
     1021 cctgattatt gagtttaatc atcttattgc tgaacatgcc gttcatgatg aaaaactgat
     1081 taaccatact gtctgtattc tgaatgaatt acgaagcata gcgataaatt aaaaaatccc
     1141 cctggattac agggggaagc catcagagtt tgagtaatga gaaatattat tctggagaga
     1201 gcaccacaaa tgcgctcttt tccaatctgc cgtaaccatc agcaaaagac aatcaggaca
     1261 ggcgaaaaaa tccccctata tggcaagggg gtgtcaatga ggacatggca attgtgagtt
     1321 ttgtgtgttt tatgtgttgc agtttgcaac gtcagaaatt tgccgcagtt atgcgcgaaa
     1381 aacaatcctg atttcgggac aggatgtgta atcgtataac cgcgcacgca cggctatacg
     1441 attaccacct ggtcagggct ttgcccgaca ccctcgacac cgttcccgca atacgataga
     1501 acatcagggc gcgcttccgg gtaaacgcat gttaatgacc gggaattcat tgattaggga
     1561 ccggagacgc gctacaaaac tcctgcgcgt ttctggcatc aactgaccat ggggatggtt
     1621 tggcagtagc agcaagcgcc agaaacgcgc tcaaaatcat cagatgtaca gcgaacaaaa
     1681 aattgtcatc tgcaaaaaat cacgttaaaa caatcgcgag caccttcctg tctccttcaa
     1741 ttacggtcaa acattctgca tctgtcggga agttgctcac ttccataatt caatttctca
     1801 ttgacaataa ttccggtgct accccctctt ttgaggggct ttttttaccc acacaccaca
     1861 aacagcagcc atatcatcgt caaaaacgcg ctcaaaacgt ctctgacggc ctgaacccac
     1921 caaaacatac aaaaccattg cccaatgcaa aaaagtgcgt tagaaagcgt ctgagcgcgt
     1981 ttctgacgtc ttttttgttg ctgtgtcgct actcgttgtc agattcgcgc tcaatccttc
     2041 atcctgtcag cttcaggatt ccgcttgtaa cgtttttccg tacgtcccca gtcaaacgcc
     2101 agccagaagg cttgctcctc gaactcgtcc agttctgccg gaatatctgc cccgatcaaa
     2161 tcctcgtccg tctccggttt atcgactttc agaacctctt tgagacgacc gccagttgcc
     2221 accatacgaa gcccgtaggt ctgccgcgcc agctccagaa accacgccgg atcacgcaca
     2281 acttccgaag atttcaccgt gtatttcatc gtctcaatga cgcctgactc cagcgccgca
     2341 cgatgcatat caggcagggg tacaccatcc ggccgtttcc agccctgttt cggttttacc
     2401 acccgaatat ccacacccgc ctcataatcg acacgaaggc attcactcca gatctccacc
     2461 cagcgagcat gtttcacata accattaccg gacaacatcg aaggggggac catcatcaga
     2521 acgtgaaaat gcggatggca acatcctggc accctcccgt aagtaatttc tgtcgtacgt
     2581 aaccagccaa gaaccggcct gaattcctta cgctggacca acctgttcca tgccgcattc
     2641 atccgcttaa gtgtttcgcg ggtatcttcc actggagggt ttttgacagt cagcgtcatg
     2701 aacaaccagc gggccgcagg acgttcggta agtagcttcg gcaacgcctc ccacagacga
     2761 cgcatccagc gtagggagcg gcgacgacta cacacaggac aaaacgggac atgacaaaat
     2821 tcgcccttcc gaagagccag cttcatttcg cccgtcagac gagacacctt cggcgcaaac
     2881 aacaaccgac gggaacaatc aaacatccgt tctccacgag aggaaaacat cgaatcgctt
     2941 tcgtaaatct gcgccaccct gtcagccatc acgcgatcgc tgtcccattt tgtatcccgc
     3001 gtgctgtaat cgcgtaacga gagtaccgga ctgtctggat ttttcatttg caccccccaa
     3061 gaactgggca gatgcggaaa ttttgtgtta gcatttttct gtcacctgtg actctgttgc
     3121 cgaacaacga attccaaact ggtgatcgtc ccctggagtg tgaccgcact cgcaggggaa
     3181 cccctccccg agctgttcaa tttttaacca atcattttta tctcttttcc aaccattttt
     3241 accgctcaaa gccgcgccat cactggctta acccaaaata acacaccctt gagttgttgc
     3301 ctatagtata aatacaagga tcgcacgcac gatcacccgc ccaaatgcgc gtttcttgag
     3361 catttccgag cacaaaaaaa acaacacatc caaaccacct gatcagcagg tttctcaccg
     3421 actttctgaa ctacaaaacc agctttgcag gtggttggtc ccactgcgtg acaccaacca
     3481 ccatcaccag tgttttttct cgtaccgtcg tcaatcacaa aatcggaacc cacgccggag
     3541 gcgcgggacc ccacgatttt ctgtttgacg agtcagaaaa cggcgaacgc tgacagattc
     3601 caatct
//
