LOCUS       NZ_CP075647             3494 bp    DNA     circular CON 27-JUN-2023
DEFINITION  Escherichia coli strain S19-141 plasmid pS19_141-g, complete
            sequence.
ACCESSION   NZ_CP075647
VERSION     NZ_CP075647.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16993351
            Assembly: GCF_016404325.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3494)
  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  JOURNAL   Unpublished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 3494)
  AUTHORS   Nusch-Inderbinnen,M., Stevens,M.J.A., Cernela,N., Muller,A.,
            Biggel,M. and Stephan,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-MAY-2021) Institute for Food Safety and Hygiene,
            University of Zurich, Winterthurerstrasse 272, Zurich, Zurich 8057,
            Switzerland
REFERENCE   3  (bases 1 to 3494)
  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                     :: S19-141_NP
            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                   :: 06/27/2023 06:11:28
            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)                     :: 5,151
            CDSs (total)                      :: 5,035
            Genes (coding)                    :: 4,825
            CDSs (with protein)               :: 4,825
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 210
            CDSs (without protein)            :: 210
            Pseudo Genes (ambiguous residues) :: 0 of 210
            Pseudo Genes (frameshifted)       :: 90 of 210
            Pseudo Genes (incomplete)         :: 109 of 210
            Pseudo Genes (internal stop)      :: 63 of 210
            Pseudo Genes (multiple problems)  :: 49 of 210
            Pseudo Genes (short protein)      :: 5 of 210
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP075647.1.
            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..3494
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="S19-141"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pS19_141-g"
                     /geo_loc_name="Switzerland: Zurich"
                     /lat_lon="47.40 N 8.55 E"
                     /collection_date="2019"
                     /collected_by="ILS/NENT"
     gene            join(3001..3494,1..523)
                     /locus_tag="JFX59_RS25610"
                     /old_locus_tag="JFX59_025610"
     CDS             join(3001..3494,1..523)
                     /locus_tag="JFX59_RS25610"
                     /old_locus_tag="JFX59_025610"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020240588.1"
                     /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_062892610.1"
                     /translation="MKNPDSPVLSLRDYSTRDTKWDSDRVMADRVAQIYESDSMFSSRG
                     ERMFDCSRRLLFAPKVSRLTGEMKLALRKGEFCHVPFCPVCSRRRSLRWMRRLWEALPK
                     LLVERPAARWLFMTLTVKNPPVENTRETLIRMNAAWKRLSDRKEFRPVLGWLRTTEITY
                     GRVLGCCHPHFHVLMMVPPSMLSGNGYVKHARWVEIWSECLRVDYEAGVDIRVVKPKQG
                     WKQPDGVTLPDMHRAALESGVIETMKYTVKSSEVVRDPAWFLELARQTYGLRMVATGGR
                     LKEVLKVDKPETDEDLVGADIPAEPDEFEEQAFWLAFDWGRTEKRYKRNPEADRMKD"
                     /name="protein rep"
     gene            1097..1291
                     /locus_tag="JFX59_RS25615"
                     /old_locus_tag="JFX59_025615"
     CDS             1097..1291
                     /locus_tag="JFX59_RS25615"
                     /old_locus_tag="JFX59_025615"
                     /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"
     Typing          complement(2345..2425)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.122"
                     /coverage="89.0"
                     /evalue="2.63e-28"
ORIGIN
        1 agtgctagga tgttgccatc cgcattttca cgttctgatg atggtccccc cttcgatgtt
       61 gtccggtaat ggttatgtga aacatgctcg ctgggtggag atctggagtg aatgccttcg
      121 tgtcgattat gaggcgggag tggatattcg ggtggtaaaa ccgaaacagg gctggaaaca
      181 gccggatggt gtaaccctgc ctgatatgca tcgtgcggcg ctggagtcag gcgtcattga
      241 gacgatgaaa tacacggtga aatcttcgga agttgtgcgt gatccggcgt ggtttctgga
      301 gctggcgcgg cagacctacg ggcttcggat ggtggcaacc ggcggtcgtc tcaaagaggt
      361 tctgaaagtc gataaaccgg agacagacga ggatttggtt ggggcagata ttccggcaga
      421 accggacgag ttcgaggagc aagccttctg gctggcgttt gactggggac gtacggaaaa
      481 acgttacaag cggaatcctg aagctgacag gatgaaggat tgagcgcgaa tctgacaacg
      541 agtagcgaca cagcaacaaa aaagacgcca gaaacgcgct cagacgcttt ctaacgcact
      601 tttttgcatc gggcaatggt tttgtatgtt ttgttggatt caggccgtca gagacgtttt
      661 gagcgcgttt ctggcgcttg ctgctactgc caaaccatcc ccatggtcag ttgatgccag
      721 aaacgcgcag gagttttgta gcgcgtctcc ggtccctaat caatgaattc ccggtcatta
      781 acatgcgttt acccggaaac gcgccctgat gttctatcgt attgcgggaa cggtgtcgag
      841 ggtgtcgggg cgcagccctg accaggtggg gaatgtctga gtgcgcgtgc gcggtccgac
      901 attcccacat cctgtcccgt ttttcgcacg gtttttattg attaccggac agatgaaccc
      961 ggattgccat gttgcgaaaa tcacgttaaa acgattacga gcgtgcagtt gggctgatat
     1021 atcaacagtc atgccaatat gtattaaccc gacaggccgc tcttttttaa ttcaaataaa
     1081 aatataaatt acgagtatga atcaggacaa agcaatttat ttagaaaata aatatttttc
     1141 acccgcaaac gaagctgtca gactggagcg tgaaggcgat tacattggag catggaaaaa
     1201 atggcatgat gcgcttcatt atgccaaagg cgaaaatata gactggtgta tagccagagc
     1261 tgaatattgt aaaaagacag gccggtttta attctggcgg ggtttcaaag gggcgtcccc
     1321 tttggcacgt cgacgtatca aaatgcgcca gcattttgta tacagtcggt cacgtgcctc
     1381 caggatcgcc ccataatatt tcctatctac ataatgtcta actaagatcc atctaatatc
     1441 catctaagat ccatttaagg tccatctaaa tcagtaaata tctaactagt gtccatctaa
     1501 agtccatcta aaggctaact aacggttcac caacggatcg catgtagtag acgctacata
     1561 aaaaatcctg aaatgaagga ttcgtcataa agagattcct gtatttagcg ttctgatgca
     1621 ggatagggca aacgccgcaa aatgacgtct ctgacgccat tccgcaacgt ttgcccggtg
     1681 acctacagtc ggttcttgtt ggatgttttt atgagtattg atgtgattaa acaaattcag
     1741 agtatacagg acaaaggcat tattatttat tcaaaataca gagctaacga atttaacaga
     1801 gatgatgtat acagagagag ttacagcctg attattgagt ttaatcatct tattgctgaa
     1861 cacaccgttc atgatgaaaa actgattaac catactgtct gtattctgaa tgaattacga
     1921 agcatagcga taaattaaaa aagtccccct gaatttcagg gggaagccat catagtttga
     1981 gtaatgagaa atattatttt ggagagagca ccacaaatgc gctcttttcc aatctgccgt
     2041 aaccatcagc aaaagacaat caggacaggc gaaaaaatcc ccctatatgg caagggggtg
     2101 tcaatgagga catggcaatt gtgagttttt ctgtgtgttt tatgtgttgc agtttgcaac
     2161 gtcagaaatt tgccgcagtt cgtcatgaga ggcaacaaaa aaatcccccc cccggaactg
     2221 gtggaggcca ggaccagagg ggtagcaaat gcctgaataa ttttcgtagt tttgatattc
     2281 ccatcgttgc aaccgcaacg gggtgaattt gccgcagttg tgcgcgaaaa acaatcctga
     2341 ttccgggaca ggatgtgtaa tcgtataacc gcgcacgcac ggctatgcaa ttaccacctg
     2401 gtcagggctg cgccccgaca ccccgccaac gtctcacgca gccagattga aatctgtcag
     2461 cgttcgccgt tttctgactc gtcaaacaga aaatcgtggg gtcccgcgcc tccggcgtgg
     2521 gttccgattt tgtgattgac ggcggtacga gaaaaaacac tggtgatggt ggttggtgtc
     2581 acgcagtggg accaaccacc tgcaaagcgg ttttgttgtt cagaaagtcg gtgagaaacc
     2641 tgctgatcag gtggtttgga tgtgttgttt ttttgttctc gggaacgctc aaaaaacgcg
     2701 cattttgggt gggcgatcgc gcgcgcgatc cttgtattta tactataggc aacaactgcg
     2761 gtctgtgtta ttttggctta ggccagtggt ggcgcggctt tgagcggtaa aaatgggtgg
     2821 aaaagagata aaaatgtttg tttaaaaaat gaacagtttt gagggggttc ccctgcgagt
     2881 gcggtcacac tccaggggac gatcaccagt ttggaattcg ttgttcggca acagagtcac
     2941 aggtgacaga aaaatgctaa cacaaaattt ccgcatctgc ccagttcttg gggggtgcaa
     3001 atgaaaaatc cagatagtcc ggtactctcg ttgcgcgatt acagcacacg ggatacaaaa
     3061 tgggacagcg atcgcgtgat ggctgacagg gtggcgcaga tttacgaaag cgattcgatg
     3121 ttttcctctc gtggagagcg gatgtttgat tgttcccgtc ggttgttgtt tgcgccgaag
     3181 gtgtcccgcc tgactggcga aatgaagctg gctcttcgga agggggagtt ttgtcatgtt
     3241 ccgttttgtc cggtgtgtag tcgtcgtcgc tctctccgtt ggatgcgtcg tctctgggag
     3301 gccttgccaa agctgttggt tgaacgtcct gcggcccgct ggttgttcat gacgctgact
     3361 gtcaaaaatc cccctgtgga aaatacccgc gaaacactca ttcggatgaa tgcagcatgg
     3421 aaacgcttga gtgatcgtaa ggaattcagg ccggttcttg gctggttacg tacgacggaa
     3481 attacttacg ggcg
//
