LOCUS       NZ_CP135679             3139 bp    DNA     circular CON 07-OCT-2023
DEFINITION  Escherichia coli strain TUM9803 plasmid pMTY9803_untypable4,
            complete sequence.
ACCESSION   NZ_CP135679
VERSION     NZ_CP135679.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35769040
            Assembly: GCF_032382315.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3139)
  AUTHORS   Komori,K., Aoki,K., Ishii,Y. and Tateda,K.
  TITLE     Analysis of the Plasmid-Driven Acquisition of blaCTX-M-14 in
            Escherichia coli ST131 Subclone H30
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3139)
  AUTHORS   Komori,K., Aoki,K., Ishii,Y. and Tateda,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-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 Date                     :: 13-SEP-2021
            Assembly Method                   :: SPAdes v. v3.15.5
            Assembly Name                     :: Toho-u_TUM9803_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 179x
            Sequencing Technology             :: Complete Genomics
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/07/2023 15:02:47
            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)                     :: 6,120
            CDSs (total)                      :: 6,000
            Genes (coding)                    :: 5,606
            CDSs (with protein)               :: 5,606
            Genes (RNA)                       :: 120
            rRNAs                             :: 7, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 394
            CDSs (without protein)            :: 394
            Pseudo Genes (ambiguous residues) :: 0 of 394
            Pseudo Genes (frameshifted)       :: 148 of 394
            Pseudo Genes (incomplete)         :: 272 of 394
            Pseudo Genes (internal stop)      :: 84 of 394
            Pseudo Genes (multiple problems)  :: 93 of 394
            Pseudo Genes (short protein)      :: 4 of 394
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP135679.1.
            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..3139
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM9803"
                     /db_xref="taxon:562"
                     /plasmid="pMTY9803_untypable4"
                     /geo_loc_name="Japan"
                     /collection_date="2010"
                     /collected_by="Toho University School of Medicine"
     gene            182..433
                     /locus_tag="RS166_RS30590"
                     /old_locus_tag="RS166_30590"
     CDS             182..433
                     /locus_tag="RS166_RS30590"
                     /old_locus_tag="RS166_30590"
                     /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_134233593.1"
                     /translation="MCNRITSHARQYDYRLVRAAPRHPANASRHAKKFRVPLTVPELVK
                     QKIAGSRASGVGSDFVIDDGTGRYWWWWLVSRSEANHL"
                     /name="hypothetical protein"
     gene            823..1812
                     /locus_tag="RS166_RS30595"
                     /old_locus_tag="RS166_30595"
     CDS             823..1812
                     /locus_tag="RS166_RS30595"
                     /old_locus_tag="RS166_30595"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016245711.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_264873928.1"
                     /translation="MQNPKLQNLTDYSPSDAPWDAHKSVSDDVGGIYLLAAEYERYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGETLNRMNMAFQRLKDRKEFRPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMVPPSMFTRDYVKHDRWVELWRECLRVNYDPNVDVRAVKPRKPKDGE
                     SLASATAELVRGAVAETLKYSTKPADMVADPEWFLELTKQTHKRRFVATGGALKNVLQL
                     DRETNEDLVMADGVNEEEDDGSRLAFSWETEIKKYRRDPKRDNPKSEG"
                     /name="protein rep"
     gene            complement(2453..2623)
                     /locus_tag="RS166_RS30600"
                     /old_locus_tag="RS166_30600"
     CDS             complement(2453..2623)
                     /locus_tag="RS166_RS30600"
                     /old_locus_tag="RS166_30600"
                     /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_157903596.1"
                     /translation="MTPQQSALKAASHKASQKIVARDQRSDDRFVCLTASFSNVSMPFR
                     RVRFTRTATPE"
                     /name="hypothetical protein"
     Typing          174..256
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="81.176"
                     /coverage="93.0"
                     /evalue="7.16e-09"
ORIGIN
        1 ttaagcacaa aaagtgatgc caagcaatac gttaagcggc tgcggtgcgt gcggaactgc
       61 gccaggcagt ggaacaaccg acgaccacga ccgcgccacc ggaacggacg ggtcgggaac
      121 ggtgacgggc ctgcgttctg acttggtgcg gccgaccgtg acggggccgc agcgggacag
      181 gatgtgtaat cgtataacct cgcacgcacg ccaatatgat taccgcctgg tcagggctgc
      241 gccccgacac cccgccaacg cctcacggca cgcgaaaaaa ttccgcgtcc cgctcaccgt
      301 tcccgaactc gtcaaacaga aaatcgcggg gtcccgcgcc tccggcgtgg gttccgattt
      361 tgtgattgac gatggcacgg gaagatactg gtggtggtgg ttggtgtcac ggagtgaggc
      421 caaccacctg tgaggctgtt tttgttgttc acaaattcgg ggtgaaagtc tgtggatgag
      481 atgggtgtaa gtgggtggga tgtgtggctt tgggggctaa aaaaatagct cgaaatttga
      541 gcaattctcg cgcgcgatcc ttgtatttat acttaaggga taactctggc gataaaaaat
      601 ggcatcaagc cttgcgtacc aaggcttcgg ggcttatttg cgttgtagaa ggttttggaa
      661 gtattctgtt gggagtggtc gccttaaaag cgacccccgc aacgacggcc atcgttcggg
      721 ggtgtgacca cctgcagaaa ttcgattcga agcgacaacc aacaggtgat acggcaatga
      781 taacacgtca aatgagccat cgcccagcat gggacggtgt gcatgcaaaa ccctaaactc
      841 cagaacctca cggattactc cccctcagac gcgccctggg acgctcacaa aagcgtttct
      901 gacgacgtag gtgggattta ccttctcgca gccgaatatg agcgctacgg ggcgcgtatg
      961 gcttcctgtg gcggtttact gaggtttggt tggtctaccc tcaaagaaac tggagaaact
     1021 cgccttaggc tacgtgaggc gcatttctgt cgtgtccggc actgtcctgt ctgccagtgg
     1081 aggcgatccc tgatgtggca agcccgtttt tatcagtccc tgccgcgtat tgttgcggat
     1141 tatccagatg cacgctggat gttcctgacc ctcacagtgc gaaactgcgc gatcggggaa
     1201 ttgggtgaga cacttaaccg aatgaacatg gccttccagc gacttaagga tcgcaaagag
     1261 tttcgacctg ttcagggctg gatccgcacc acggaagtta cacgtggaag tgacggtagt
     1321 gcgcacccgc actttcacac tctgatgatg gttcctccct caatgttcac gcgagattac
     1381 gttaaacatg accgctgggt agagctttgg cgagagtgtt tgcgtgtgaa ttacgatccg
     1441 aatgttgatg ttcgagcagt aaaaccccgc aagcctaagg acggagaatc attggcttct
     1501 gcaactgcgg aacttgtacg gggcgcagtg gctgaaaccc tgaaatattc cacgaagccg
     1561 gctgacatgg ttgctgatcc tgaatggttc ctcgaattga ctaagcagac acataagcgc
     1621 cgatttgtgg ctaccggtgg cgcactcaag aacgtcctac agcttgacag ggaaaccaat
     1681 gaggatcttg tgatggcgga cggtgtgaac gaagaagagg atgacggctc gcggctggcg
     1741 ttctcatggg aaacggaaat caaaaagtac cgacgtgatc cgaaacggga taacccgaaa
     1801 tcagaggggt gagcgcgtcg ttgtgacccc ccatgttata gccaacaccc gaacaggcca
     1861 cgcagacgcg ctcagagtgc gtctgagcgc gtttcagggt cgcggcccct gaaaacgtga
     1921 ttgcagacgt ttttgctcgc cagaaacgcg ctcaggcgtt ttttaacgca tagcgggtgc
     1981 ggtgtcgaga agggggtttt taaaacggaa tccgggtgcc ggaccggggg tgtcagaaaa
     2041 caccggttcg gatatgggtg aagaacggag ttcgggaacc tttgccggac attcgcaaga
     2101 aaaacaacag gtttaatctt ttaaaagatg cacaacgccc tccgtttgaa cgaaaacacc
     2161 caaagtacgt ttctttgttc aaacagatta acacattgat attgttagtt ttgcgtcatc
     2221 acggacggct ctgtaacgcg gttgctcgcc ttcctggctc gtttgatgtc gatgtagcag
     2281 agcttgcaca tgttgagttt ttacaggagt tcgctacctg tgcaccaggg cgatttttta
     2341 ctccccgtca tcttacgatg acgccttccg acatcagaac gatttttcat atttattcct
     2401 ttatttcaaa cagttaatac acttacctct catgtattac gaagtggaaa attcattccg
     2461 gcgtggccgt ccgtgtaaaa cggacgcgcc ggaaaggcat ggaaacgtta ctgaaagacg
     2521 ctgtcagaca gacgaaacgg tcatcagaac gctggtcacg agcgacgatt ttctggctgg
     2581 ccttatgtga tgctgctttc agggcagatt gttgtggcgt cacttggtgt tccctacggt
     2641 cgcacacaag tgacgccgca cagcttcaga ctccacgtac acacgcaagc agccaaattt
     2701 caaatggcct tatgccgtgc acacagtcac aagaagctaa tgcagctaga cagaaaagtt
     2761 ttaagacgca gatatataag gcattctcgc cactctgcga ggggaaaact cgtaagtttc
     2821 atgacacaca aaaccgtacg ggtaatccga aggtaaaaat aacgtacctc aatcaccagt
     2881 ggtgatatcc gttcccagag gctaaacgga tgtaccgcca taaaggcatc ccctttcagg
     2941 ctacgaggat attgcaatca cccgaaggcg tttctctcag atcgctgaaa cattggctgg
     3001 cagtcacccg aaggcgctcc tctcagactg ctggaacatt ggctggtcat ccgaagatga
     3061 cagtgtggtc gcgtaagcct ccctctcaga ccaccgggag attggttggt cgccgaagcg
     3121 acaagttagc gtttaaatt
//
