LOCUS       NZ_CP128930             1477 bp    DNA     circular CON 07-JUL-2023
DEFINITION  Escherichia coli strain TUM9812 plasmid pMTY9812_untypable, complete
            sequence.
ACCESSION   NZ_CP128930
VERSION     NZ_CP128930.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35769045
            Assembly: GCF_030389695.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1477)
  AUTHORS   Ikegaya,K., Aoki,K., Komori,K., Ishii,Y. and Tateda,K.
  TITLE     Analysis of the stepwise acquisition of blaCTX-M-2 and subsequent
            acquisition of either blaIMP-1 or blaIMP-6 in highly conserved
            IncN-pST5 plasmids
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1477)
  AUTHORS   Ikegaya,K., Aoki,K., Komori,K., Ishii,Y. and Tateda,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-JUN-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                     :: 18-NOV-2021
            Assembly Method                   :: SPAdes v. v3.15.5
            Assembly Name                     :: Toho-u_TUM9812_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 112x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/05/2023 07:48:22
            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)                     :: 5,417
            CDSs (total)                      :: 5,297
            Genes (coding)                    :: 4,965
            CDSs (with protein)               :: 4,965
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 332
            CDSs (without protein)            :: 332
            Pseudo Genes (ambiguous residues) :: 0 of 332
            Pseudo Genes (frameshifted)       :: 101 of 332
            Pseudo Genes (incomplete)         :: 238 of 332
            Pseudo Genes (internal stop)      :: 49 of 332
            Pseudo Genes (multiple problems)  :: 54 of 332
            Pseudo Genes (short protein)      :: 3 of 332
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP128930.1.
            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..1477
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM9812"
                     /db_xref="taxon:562"
                     /plasmid="pMTY9812_untypable"
                     /geo_loc_name="Japan"
                     /collection_date="2010"
                     /collected_by="Toho University School of Medicine"
     gene            complement(1327..>1476)
                     /gene="gpW"
                     /locus_tag="QVM98_RS27085"
                     /old_locus_tag="QVM98_27085"
                     /pseudo=""
     CDS             complement(1327..>1476)
                     /gene="gpW"
                     /locus_tag="QVM98_RS27085"
                     /old_locus_tag="QVM98_27085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000263125.1"
                     /GO_process="GO:0019058 - viral life cycle [Evidence IEA]"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="gpW family head-tail joining protein"
                     /name="gpW"
ORIGIN
        1 cggcaccaat ccactcggca cgacaccatc cggaacgggc ctcccagaat gaaaaacggg
       61 atttcggcgg gcggatcaca ccgcgaataa gagcttcctc cagccagcag gcaaacatct
      121 gtgatgccag tcggctggcc acaaattttc gtttgcccat aaaataccgc cacgactcat
      181 tggcggatgc cctggcactg gaataactga cctgtgaata atcacgggaa agctgttcat
      241 aggacacccc cagcccggca gcaatgtaac gtaacagcgc cttttccagt tcagagaaac
      301 cattatctgc attctgcgct gtctgcagat tcagtgaatc ccccggataa agatgcggaa
      361 tacggacccc gcccagcttt accgtattgg tggcgtaata acgcgcgtag cctttcatga
      421 tggtgttcag gggattttta ccgccatctc ccaccccggc gatatattca aatgcttttt
      481 ctgaatccag agtggattca atcgtcgcgg catacatcgc ccgcaccacc gccgactgca
      541 gttgcgtggc ctgcagtgtg tcgagcatct tgaggcgctc catcacggaa taaaactggt
      601 tggccccgcg cgtctgtccg tcctcctgcg gctgaaacac atggatcatt cccggtcgcc
      661 cggagggcag cgtcgccgca atccgtgtcc agttgctgac accgtaacca ggccagtcat
      721 cgtcctgaac atgataagcc atcgcctttc cgtaacggtt gatttccact ccggcacgca
      781 taaaacgatc gccggtacca taaccgggcg tgctgacgcg cttcggactg atggtcttga
      841 attttgttct gaataatgac gtggattccg tatcccatac gggctggaca aaaatttcac
      901 cgttaaacgt atggaccccc accccttcac gaataaattc ggtaaacgag cgacgccctt
      961 ccacatccat cgaaccaaac accggatcgc aatattccat ccacgccgcc tccacatctt
     1021 caataaaggc atgcgaatca gcttccgaca tccccagcca gcgccagttg ggccggtagc
     1081 tcagacgaaa catgtgcccg acgatatggt ctttatgaat ttccactgca tttgcggcaa
     1141 taccgttgtt acggaccaga tcatccgcac gggcgttacc cagctgaatg gaaggtaaga
     1201 gcgccacgtc ggcactttcc ggtgcaggca accattccgc aagctgcccg ccaaatccgg
     1261 taccccctcc ggaatacccc atactctgcc gcagtggctg cccgtgaaga tccaccagtt
     1321 ccctgttcac agccccactc ctgccgggcc gcgacgccgt ccggatacac ccagcgcact
     1381 ttccagctct tcaatatact gacgcagttc accaatcgtc gcccgcgaat actgaacctg
     1441 acgcccgtcc ttgctgacgg aaaccacagc acgtccg
//
