LOCUS       NZ_CP134357             1506 bp    DNA     circular CON 22-SEP-2023
DEFINITION  Escherichia coli strain TUM17668 plasmid pMTY17668_Col, complete
            sequence.
ACCESSION   NZ_CP134357
VERSION     NZ_CP134357.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37323663
            Assembly: GCF_031659955.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1506)
  AUTHORS   Aoki,K.
  TITLE     Visualization of food-borne spreading blaCTX-M trafficking to human
            using blaCTX-M-8 as an indicator: blaCTX-M-8-carrying IncI-1/pST113
            plasmid was transferring host from chicken E. coli to human E. coli
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1506)
  AUTHORS   Aoki,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-SEP-2023) Department of Microbiology and Infectious
            Diseases, Toho University, 5-21-16, Omori-nishi, Ota-ku, Tokyo
            143-8540, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.5.0
            Assembly Name                     :: TUM17668
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 103x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/22/2023 09:01:24
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,931
            CDSs (total)                      :: 4,818
            Genes (coding)                    :: 4,543
            CDSs (with protein)               :: 4,543
            Genes (RNA)                       :: 113
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 275
            CDSs (without protein)            :: 275
            Pseudo Genes (ambiguous residues) :: 1 of 275
            Pseudo Genes (frameshifted)       :: 96 of 275
            Pseudo Genes (incomplete)         :: 183 of 275
            Pseudo Genes (internal stop)      :: 52 of 275
            Pseudo Genes (multiple problems)  :: 54 of 275
            Pseudo Genes (short protein)      :: 5 of 275
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP134357.1.
            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..1506
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM17668"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMTY17668_Col"
                     /geo_loc_name="Japan"
                     /collection_date="2016"
                     /collected_by="Toho University"
     gene            1..441
                     /locus_tag="RJ647_RS24650"
                     /old_locus_tag="RJ647_24650"
     CDS             1..441
                     /locus_tag="RJ647_RS24650"
                     /old_locus_tag="RJ647_24650"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000031238.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000031238.1"
                     /translation="MSKDVERITQINDQGEIIGGFVAVIRPKQKSAFQRHFTMNQDALR
                     ILAKELTGEQFKVLMLMLADLDYENFIQIAQADIAETLGMQKTNVSRAVRALLDVGVIF
                     EGPKVGRSKTYRLNEQFGWKGTVTNHKKALKNGFSVIQGGRI"
                     /name="hypothetical protein"
     gene            complement(499..1158)
                     /locus_tag="RJ647_RS24655"
                     /old_locus_tag="RJ647_24655"
     CDS             complement(499..1158)
                     /locus_tag="RJ647_RS24655"
                     /old_locus_tag="RJ647_24655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001490767.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="rep protein"
                     /protein_id="WP_311042345.1"
                     /translation="MCKCNTVTRDDIPFAIWSGLHPNTPHQCVRAQCGFRFSSASSPTR
                     SLTFGRWGCGERCHLSHVIGDSAVVLSGMSRQIALQTLSEALRRTKRVLNARQGMEGAK
                     NAYRGFQEVRRADTPNQGLSGRQEPRQPPAKPICTALAAIQLVGGRRPSMLQRWGSGVL
                     PRRFPVALKALPEPWQLRRFGDYRAKVANDVNDVILRRLPYPASHRTDMRQKSNAG"
                     /name="rep protein"
     Typing          complement(727..983)
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.186"
                     /coverage="98.0"
                     /evalue="3.06e-107"
ORIGIN
        1 atgagtaagg atgtcgagag aatcactcag ataaatgacc agggtgagat tatcggcggc
       61 ttcgttgccg ttatccgccc taaacaaaaa tcagcatttc agaggcattt caccatgaat
      121 caagacgcat tacggatctt ggctaaggaa ttaaccgggg agcaattcaa ggtcttaatg
      181 ctgatgcttg cagatctgga ttacgaaaac ttcattcaga tcgcccaagc agatattgct
      241 gaaactttag ggatgcagaa aacgaatgtt agtcgcgccg ttcgcgcgct actggatgtt
      301 ggggtgatct ttgagggacc taaagttggc agatcaaaaa cataccggct gaatgaacaa
      361 tttggttgga aaggcaccgt aaccaaccac aaaaaggcac tcaaaaacgg ctttagtgtc
      421 attcagggcg gccggattta aagagccagc ggcaggcgga caatcagggc tacgtgttaa
      481 cgttttgacc atgattgtct atcctgcatt gctcttttgc cgcatgtcag ttcgatgcga
      541 tgcaggatag ggcaaacgcc gcaaaatgac gtcattgacg tcattcgcaa cctttgcccg
      601 ataatctcca aaacgtctga gctgccacgg ttccggcagc gccttgagcg caaccggaaa
      661 ccgtctgggg agaaccccag acccccatcg ctgtaacatc gacggtctac gaccaccaac
      721 cagctgaata gctgccagtg ccgtgcaaat gggctttgca gggggctgac gcggttcctg
      781 gcgacctgaa agcccctggt taggggtatc ggcgcgcctg acctcctgaa accctctgta
      841 agcgtttttc gcgccttcca tgccctgacg ggcatttaaa acccgtttcg tgcgcctgag
      901 agcttctgag agcgtttgaa gagctatctg gcgactcatc cccgaaagaa caacagcgga
      961 atcaccgata acatgcgaga ggtggcaccg ctcgccgcag ccccagcgac cgaacgttag
     1021 tgagcgagtg ggcgaggaag cggaagagaa ccggaaacca cattgagcac gtacgcactg
     1081 atgcggggtg ttggggtgaa gccctgacca gatggcaaac ggaatatcgt cgcgggtgac
     1141 ggtattacat ttgcacatcc tgtcccgatt tctgcggagt ttaacggtga acggacggca
     1201 aaaaacgtgc aggagctgtt gaacgtgaaa acctcgaaat ctggcaaaaa tcacggctga
     1261 cgaggcttgc agaggattaa gccagtatac actccgctat cgttacgtga ctgggtcagg
     1321 gcttcgcccc gacaccccaa agagtagcta ggataaatat ctaatggaat caatgcgtta
     1381 gacgcctaat ataaagatac agaaaggaga ataaaaacat taacaaaatc taagggttac
     1441 agttgacata gttatcaata atgataacac tgttatcatt attgataact caaatagggt
     1501 tcaaag
//
