LOCUS       NZ_CP128886             3750 bp    DNA     circular CON 07-JUL-2023
DEFINITION  Escherichia coli strain TUM14759 plasmid pMTY14759_Col156, complete
            sequence.
ACCESSION   NZ_CP128886
VERSION     NZ_CP128886.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35654571
            Assembly: GCF_030389215.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3750)
  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  JOURNAL   Unpublished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 3750)
  AUTHORS   Ikegaya,K., Aoki,K., Komori,K., Ishii,Y. and Tateda,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-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                     :: 01-JUN-2023
            Assembly Method                   :: SPAdes v. v3.15.5
            Assembly Name                     :: Toho-u_TUM14759_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 61x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/05/2023 07:44:22
            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)                     :: 5,236
            CDSs (total)                      :: 5,117
            Genes (coding)                    :: 4,856
            CDSs (with protein)               :: 4,856
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 261
            CDSs (without protein)            :: 261
            Pseudo Genes (ambiguous residues) :: 0 of 261
            Pseudo Genes (frameshifted)       :: 146 of 261
            Pseudo Genes (incomplete)         :: 132 of 261
            Pseudo Genes (internal stop)      :: 34 of 261
            Pseudo Genes (multiple problems)  :: 45 of 261
            Pseudo Genes (short protein)      :: 4 of 261
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP128886.1.
            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..3750
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM14759"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMTY14759_Col156"
                     /geo_loc_name="Japan"
                     /collection_date="2014"
                     /collected_by="Toho University School of Medicine"
     gene            join(2955..3750,1..224)
                     /locus_tag="QVN09_RS26160"
                     /old_locus_tag="QVN09_26160"
     CDS             join(2955..3750,1..224)
                     /locus_tag="QVN09_RS26160"
                     /old_locus_tag="QVN09_26160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221104.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001271364.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(484..882)
                     /locus_tag="QVN09_RS26165"
                     /old_locus_tag="QVN09_26165"
     CDS             complement(484..882)
                     /locus_tag="QVN09_RS26165"
                     /old_locus_tag="QVN09_26165"
                     /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_001222916.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            1059..1985
                     /locus_tag="QVN09_RS26170"
                     /old_locus_tag="QVN09_26170"
     CDS             1059..1985
                     /locus_tag="QVN09_RS26170"
                     /old_locus_tag="QVN09_26170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_014342223.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGYDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            1988..2521
                     /locus_tag="QVN09_RS26175"
                     /old_locus_tag="QVN09_26175"
     CDS             1988..2521
                     /locus_tag="QVN09_RS26175"
                     /old_locus_tag="QVN09_26175"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168772.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVTLED
                     KLAEKPVTGKSRKN"
                     /name="hypothetical protein"
     Typing          2956..3730
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.907"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          1060..1982
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.727"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggaaggccaa ttcgtcagaa aatcagtcgg acaaagggaa aaaaagcgcc gctgttcggt
       61 ggactgctaa cgacgacaaa cgtcgtaggg cgcttgatat gtatatcttg ggagcgtcaa
      121 cggaagatat tgcagtggcg gttggtgtta gcagccggac tattcgacgc tggatggata
      181 attctggaga atggctaacc aagaaacaaa taattaaatg ttagttaaca aagaagtaac
      241 actacccccg ttttttgtta atggggggtt aaattcgcgg acatgaacaa gcctatatca
      301 gataacagcg cctttcggcg tctttttgag cagcgggctt tccggcggtt ttctcctctc
      361 agcccagcaa tggtgcggct taccgcatga ttgaggtggt cgtgctcgcc gcagtctcat
      421 gaccgagcgt agcgagcgaa tgagcgagga agcaccaggg aaccggaaca cggatggagg
      481 cacttacgcg tctgggtttg gggatgtctc cagatcgtac ttaatttcct taagtgcctg
      541 taatatcctg tcttttttat agcatagctc gcctgttttt gtgtctacca gtcctgcttc
      601 gatcagtagc ccagccgcga gaaagagtcg gtgattgcgt tctcgtcgtt gtttttttcc
      661 ctcgattcgt ttttggaccg cctgttttcg ttcgctctcc tgtgcctgta agtcgttttt
      721 ttccgctgtt gccagtacgt ggaggagttt gcgttcctgt tctgtgagtc ctgcttcgtt
      781 gtcgagcagg tcaataatct gtctctgtcg tgcggtctgt tctccgagct tcctgatgaa
      841 tccgatccgt ttcttcagcc attcgatgtt gctgatgcgc atgttcgtgg tgctccctgg
      901 tgtttttttg cggtgtgttg tggtcgtgca gtatatcgct tgcggtcggc gggtgcaggg
      961 ggtatcttcc gtgctaattc gtaaaattag aaggaagcgc acttatatgt ttctctcctt
     1021 cgtcgagaaa cagtgcgctc ctgcggaggg ctgaaaccgt ggcaacctat cacctcagcg
     1081 ttaaatttgg tggcaagggg caggctgcaa accacgccga ttacatcgag cgcaaagaga
     1141 aataccgcga ccgtcaggat ttggaatatt ccgcacacgg aaacatgccg gaatgggcgc
     1201 gagataatcc ctcacatttc tggcaggctg ctgaccagtt tgaacgtgcg aacggttcga
     1261 cctatcggga acttgaaatt gcattacccc gtgaactgac agcggaacag cgccttgaac
     1321 tggtgcagga ttttgtacgt caggaagctg gcgaacggca cgcctggagt tttgccattc
     1381 acaatccgaa agcgagcatt gacggcggcg aacagcctca tgcgcatatc atgatgagcc
     1441 agcgtgtgaa tgatggcatt gaacgtacac cggaacagta tttccggcgc tataacgcca
     1501 ggtatcccga gcggggaggt gcgaaaaagg attccggaag cctgactctc actcagcaaa
     1561 aagagcagtt gcgggaattg cgaaaacgct gggaggtgaa gcacaacgaa catatgagaa
     1621 agcatggctt tgaaaggggc ttcattgact gccggacgct gaaagaacag ggcattgaac
     1681 gacgtcccga agtgcatctg ggttttgaag ctgccggacg gcttgatgat gcccagcgtc
     1741 atgacatcat gcaaaaacgg tctgaaccgg actattcccg ccatcttgaa caggcgcgaa
     1801 cggtcgggta tgacatcagg gaatggctgg acactccggt taagcaacat gaactggtca
     1861 gaaggctgca acatgatgtt gcgcgggagc atggctttga catgagagac agagtgagca
     1921 gacagaaccg aactgaacct gaacgggtta aatcaccgtc acgtggattt tctatgggat
     1981 tctgaacatg gccagcacag aagaaaaatt actcacgctc ctgttatcgg tggagcatct
     2041 gcaacatacc gcaatggagc aacagaaagc tgttgctgat tctctggctg tggcaaggga
     2101 aacacttcgc ggatatcggg atatttctga cggtgtggca aaacaggtca gggatgaagt
     2161 cagaaacgag gtgcagaagc tggatgttgc agggctgata ggtgagcgca tcagccagga
     2221 ttttcagcgg ctggaagagt cagtcgcaaa catgaaggca aacgcggatg ccctgaacag
     2281 ggatattgcg acaattcaca gcaatatcgt gcaggaatac aacaccctta aagggtatag
     2341 ctggaaatgg ctgggtgggg tgtcagtggc ttttctggtt atgttctgtg tgcttggatg
     2401 gggaatgaaa acaatgctcg acaggaacta caacgccaca gcggcggtgt atcagaaagt
     2461 tgtgacactg gaagataaac tggcggagaa acctgtcacg ggcaagagcc ggaaaaactg
     2521 acgcgcttcg cttgtccaac gcctcacgac ccgcgaaaaa attccgcgtc ccgttcaccg
     2581 ttttctgatg agaaagtttg ctgttttgac ccgttcgccc ttctgaacgc tcgaaacaga
     2641 tcgcgcatcg ctttcgtgca tagttatgca acgcgctaaa aacgattctg acgcattttt
     2701 ctggtttagc ctggtgttta cttgtctttt tgcgtttttt gcgccagaga gcgactgatg
     2761 gcgttttaag gggggcgtac aacgggagtt atggtaaatg gatcggtttt gcgggaaggc
     2821 tcgacaggtt ttgttgttgg gggtagtgta agcgactgaa aaacaaacgc ccctgaaatt
     2881 cgtgtctctc cgccaagatt gtcacgagaa tacaggggcg aggtcggtcg ataacctgga
     2941 aggaatcgta acacatgagc gccgcgcttc aatacttcga agaaaattta ccccaccgcc
     3001 cctatcacac ggatgatctc gctttcggcc ttcgcatctc cggcaaaggg cgtgcgcttc
     3061 ttgcgcggta catccagcag aaccagcctc atgcgcagtt ctggctggtt tttgacgttg
     3121 accgcgaggg ggctgcgatt gactggagcg accggaacgc ccccgcgccg aacatcaccg
     3181 ttaaaaatcc tgtgaacgga cacgctcacc tgctctacgc actcaacatc gccgtgagaa
     3241 ccgcgcctga tgcctcggtt aaggcgctga aatatgccgc agcggttgaa cgttcgctgt
     3301 gtgagaaact ttgtgctgat gtgaactaca gcggcctgat ttgcaaaaat ccgttccacc
     3361 tggaatggca ggtgatggag tggcgcgagg acgcctatac cctcgatgaa ctggcagatt
     3421 atctcgattt gagcgcctca gagcgtcgta gcatcgataa acattacggg atggggcgaa
     3481 actgccacct gttcgaaatg acgcgcaaat gggcttacag ggcgattcgt cagggctggc
     3541 cagcgttctc acagtggctt gaagcggtga tccagcgtgt cgaaatgtac aatgcatcgc
     3601 ttcccgttcc gctttcactg gctgaatgtc gggctattgg caagagcatt gcgaaataca
     3661 cgcacaggaa cttcacgccg gaaactttcg cacagtatgt ggctgatacg cacacgccag
     3721 aaattcaggc agcacgcggt cgcaagggcg
//
