LOCUS       NZ_CP135661             5169 bp    DNA     circular CON 07-OCT-2023
DEFINITION  Escherichia coli strain TUM10008 plasmid pMTY10008_Col1, complete
            sequence.
ACCESSION   NZ_CP135661
VERSION     NZ_CP135661.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35769064
            Assembly: GCF_032375225.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5169)
  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  JOURNAL   Unpublished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 5169)
  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_TUM10008_Comp_v1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: missing
            Genome Coverage                   :: 196x
            Sequencing Technology             :: Complete Genomics
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/07/2023 14:08:22
            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)                     :: 5,263
            CDSs (total)                      :: 5,143
            Genes (coding)                    :: 4,853
            CDSs (with protein)               :: 4,853
            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)              :: 290
            CDSs (without protein)            :: 290
            Pseudo Genes (ambiguous residues) :: 0 of 290
            Pseudo Genes (frameshifted)       :: 72 of 290
            Pseudo Genes (incomplete)         :: 213 of 290
            Pseudo Genes (internal stop)      :: 50 of 290
            Pseudo Genes (multiple problems)  :: 48 of 290
            Pseudo Genes (short protein)      :: 5 of 290
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP135661.1.
            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..5169
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="TUM10008"
                     /db_xref="taxon:562"
                     /plasmid="pMTY10008_Col1"
                     /geo_loc_name="Japan"
                     /collection_date="2010"
                     /collected_by="Toho University School of Medicine"
     gene            1..915
                     /locus_tag="RS168_RS26270"
                     /old_locus_tag="RS168_26270"
     CDS             1..915
                     /locus_tag="RS168_RS26270"
                     /old_locus_tag="RS168_26270"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /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_001271363.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(1119..1517)
                     /locus_tag="RS168_RS26275"
                     /old_locus_tag="RS168_26275"
     CDS             complement(1119..1517)
                     /locus_tag="RS168_RS26275"
                     /old_locus_tag="RS168_26275"
                     /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_001222914.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            1699..2625
                     /locus_tag="RS168_RS26280"
                     /old_locus_tag="RS168_26280"
     CDS             1699..2625
                     /locus_tag="RS168_RS26280"
                     /old_locus_tag="RS168_26280"
                     /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_001331297.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2628..3161
                     /locus_tag="RS168_RS26285"
                     /old_locus_tag="RS168_26285"
     CDS             2628..3161
                     /locus_tag="RS168_RS26285"
                     /old_locus_tag="RS168_26285"
                     /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_000168770.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(3227..3436)
                     /locus_tag="RS168_RS26290"
                     /old_locus_tag="RS168_26290"
     CDS             complement(3227..3436)
                     /locus_tag="RS168_RS26290"
                     /old_locus_tag="RS168_26290"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001096196.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     Typing          2..915
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.802"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1700..2622
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgagcgccg cgcttcaata cttcgaagaa aatttacccc accgtcccta tcacacggat
       61 gatctcgctt ttggccttcg tatctccggc aaagggcgcg cgcttcttgc acggtatatc
      121 cagcagaacc agcctcatgc acagttctgg ctggtttttg acgttgaccg cgagggggct
      181 gcgattgact ggagcgaccg gaacgctccc gcgccgaaca tcaccgttaa aaatcctgtg
      241 aacggacacg ctcacctgct ctacgcactc aacatcgccg tgagaaccgc gcctgatgcc
      301 tcggttaagg cgctgaaata tgccgcagcg gttgaacgtt cgctgtgtga gaaactttgt
      361 gcggatgtga actacagcgg cctgatttgc aaaaatccgt tccacctgga atggctggtg
      421 atggagtggc gcgaggaagc ctataccctc gatgaactgg ctgattatct cgatttgagc
      481 gcctcagagc gtcgtagcat cgataaacat tacgggatgg ggcgaaactg ccacctgttc
      541 gaaatgacgc gcaaatgggc ttacagggcg attcgtcagg gctggccagc gttctcacag
      601 tggcttgaag cggtgatcca gcgtgtcgaa atgtacaatg catcgcttcc cgttccgctt
      661 tcactggctg aatgtcgggc tattggcaag agcattgcga aatacacgca caggaacttc
      721 acgccggaaa ctttcgcaca gtatgtggct gatacgcaca cgccagaaat tcaggctgca
      781 cgcggtcgca agggcggttc taagtctaag cgcagcacag tagctacatc tgcacgcacg
      841 ctgaaaccgt gggaggcatt agggatcagt cgcgcctggt attaccaact gaaaaaacga
      901 ggtctcgtag agtagaccaa ataagcctat atcagataac agcgcctttc tggcgtcttt
      961 ttgagcagca ggttttttgc cgtttttccc cgttcagccc tgcaatggcg cggctttccg
     1021 cgtgattgtg gtggtagtgc tcgccgcagt ctcatgaccg agcgtagcga gcgaatgagc
     1081 gaggaagcac cagggaatcg gaacacggat ggaggcactt acgcgtctgg gtttggggat
     1141 gtctccagat cgtacttaag ttccttaagt gcttgtaata tcctgtcttt tttatagcat
     1201 agctcgcctg tttttgtgtc taccagtcct gcttcgatca gtagcccagc cgcgagaaag
     1261 agccggtgat tgcgttcccg tcgttgtttt tttccctcga ttcgtttttg gaccgcctgt
     1321 tttcgttcgc tctcctgtgc ctgtaagtcg tttttttccg ctgttgccag tacgtggaga
     1381 agtttgcgtt cctgttctgt gagtccggct tcgttgtcga tcaggtcaat aatctgtctc
     1441 tgtcgtgcgg tctgttctcc gagcttcctg atgaatccga tccgtttctt cagccattcg
     1501 atgttgctga tgcgcatgtt cgtgatgctc cctggtgttt ttttgcggtg tgttgtggtc
     1561 gtgcagtata tcgcttgcgg tcggcgggtg cagggggtat cttccgtgct aattcgtaaa
     1621 attagaagga agcgcactta tatgtttctc tccttcgtcg agaaacatat aagtgcgctc
     1681 ctgcagaggg ctgaaaccgt ggcaacctat cacctcagcg ttaaatttgg tggcaagggg
     1741 caggctgcaa accacgccga ttacatcgag cgcaaagaga aataccgcga ccgtcaggat
     1801 ttggaatatt ccgcacacgg aaacatgccg gaatgggcca gggataatcc ttcccatttc
     1861 tggcaggcgg ctgaccagtt tgaacgtgcg aacggttcga cctataggga acttgaaatt
     1921 gcattacccc gtgaactgac accggaacag cgccttgaac tggtgcagga ttttgtacgt
     1981 caggaagctg gcgaacggca cgcctggagt tttgccattc acaatccgaa agcgagcatt
     2041 gacggcggcg aacagcctca tgcgcatatc atgatgagtc agcgtgtgaa tgatggcatt
     2101 gaacgtacac cggaacagta tttccggcgc tataacgcca ggtatcccga gcggggaggt
     2161 gcgaaaaagg attccggaag cctgactctc actcagcaaa aagagcagtt gcgggaattg
     2221 cgaaaacgct gggaggtgaa gcacaacgaa catatgagaa agcatggctt tgaaaggggc
     2281 ttcattgact gccggacgct gaaagaacag ggcattgaac gacgtcccga agtgcatctg
     2341 ggttttgaag ctgccggacg gcttgatgat gcccagcgtc atgacatcat gcaaaaacgg
     2401 tctgaaccgg actattcccg ccatcttgaa caggcgcgaa cggtcgggca tgacatcagg
     2461 gaatggctgg acactccggt taagcaacat gaactggtca gaaggctgca acatgatgtt
     2521 gcgcgggagc atggctttga catgagagac agagtgagca gacagaaccg aactgcacct
     2581 gaacgggtta aatcaccgtc acgtggattt tctatgggat tctgaacatg gccagcacag
     2641 aagaaaaatt actcacgctc ctgttatcgg tggagcatct gcaacatacc gcaatggagc
     2701 aacagaaagc tgttgctgat tctctggctg tggcaaggga aactcttcgc ggatatcggg
     2761 atatttctga cggtgtggca aaacaggtca gggatgaagt cagaaatgag gtgcagaagc
     2821 tggacgtggc aggactgata ggtgagcgca tcagccagga ttttcagcgg ctggaagagt
     2881 cagtcgcaaa catgaaggca aacgcggatg ccctgaacag ggatattgcg acaattcaca
     2941 gcaatatcgt gcaggaatac aacaccctta aagggtatag ctggaaatgg ctgggtgggg
     3001 tgtcagtggc ttttctggtt atgttctgtg tgctcggatg gggaatgaaa acaatactcg
     3061 acaggaacta caacgccaca gcggcggtgt atcagaaagt tgtgacactg gaagataaac
     3121 tggtggagaa acctgtcacg gggaagagcc ggaaaaactg acgcgcttcg cttgtccaac
     3181 gcctcacgac ccgcgaaagg atttcgcgaa ccgttcaccg tttttttcaa tatgattctg
     3241 tctgctttgg tcgataaagc agacgatagt attccagcct tcgtatatat aacggtacgt
     3301 gctcatcagt aagagctggc ggtattgtgt tatcaggggg aagttttttc agatactcac
     3361 gaaatgcctg gcttgatgcc ataaaatcta cagtagcatc gataatatgt ggggtgtttt
     3421 cacctaattt tgccatgatg ataatcctta tattatcacg gtttgtgaat gatagggtgt
     3481 cactattatt tatgcgttag tgaaccagaa aaaatccccc gttggcatag ggggatatgt
     3541 aaggagaaat aacttcgcag gtgttcttgt ttgtataacg tgaaaagact gcacgcaact
     3601 taataagtct gccgtactta ctttcagttt tcaacataag ggttataaca atgtatggaa
     3661 tggaagtgag ctttaaggtt tcagctctaa aaaataaaat atttattagt tggctggttg
     3721 ttgttcttgt tctgtatgta tataaacact atcgacatat tatgaccggg aacattcctt
     3781 accccctctg cgctcgcaga ggtttttttt gtcattaatt aataatgaac tgaaatgcag
     3841 ttccgatacc tccatttgca cattatccct gacatatggt accggaaccg cattaatttt
     3901 atgttataag agtttatttt taatgtccag atggtttaat agtatttata tgtaattagc
     3961 tgtatggata gtactggttt tattgtataa cttgtcgttt ttttttattg tttttgtgtg
     4021 gtgtgctaat ctttaagtta taaaaaaacc ccttggaata caggggcaaa agtaaggaaa
     4081 acaaatggat gctcagtttg tgtgacactt taaactaatg gaactataga gtggaggttg
     4141 ttacagtcgc ttttataaaa cagcaaccag tttttttcaa tagtctgatg atggttgtgg
     4201 cagttttgtg atattgttca aaatgtttct tgttgaatgt ttgttttttg gtctattggt
     4261 gtctggtttt attttttctg ctattacata tcaagaaatg tgattggtgt agcaagagtg
     4321 gaatgcgatg tggataaact aattggttgt cgaatctaat ttacttagaa aactacactt
     4381 gtttttgtgt atgaatttag tgaatttgtc tgtctatgtg ttttcgtgca tttataaatc
     4441 cttcgtcagg atcttaaatt tagtgttgaa tatgtagggc ctgtacggta attattattt
     4501 agcgtagcta cttcatcgtt gttcgaacac aaccaacaac ctgtaattgt tgtttctctt
     4561 ggttccccac ttttgtgggg ttttttatct cttccgtgca tcgtaaagcg cggactcctt
     4621 ctggaaaggt tgttttaggg catcactgag gcattttttg cgtttgtgaa tattgagcat
     4681 ccgataacta aaatatttcc catagactct gattcttgcc accgacccca ggtcggtttt
     4741 ttttgtcctg gcgagatgtg aagtttggaa acaggaaacc ccgtcagagc gccacgcacc
     4801 aggggagaaa acttgtcgtt ttgagccgtt cggtgttcag aacgcacgaa accgatcgca
     4861 catcgctttc gtgcatagtt atgcaacgcc ctgaaaacga ttctgacgcg tttttctggt
     4921 ttggcctggt gttttcttgt ctttttgcgt tttttgcgcc agaaagcgac tgagggcgtt
     4981 ttaagggggg cgtacaacgg gaattatggt aaatggatcg ggttttcggg aaggttcgac
     5041 aggatttgcc gttgggtgta gtgtaagcga ctgaaaaaca aacgcccctg aaattcgtgt
     5101 ctatccgcca agactttcac gaaaatacag gggcgatgtc ggtcgataac ctggaaggaa
     5161 tcgtaacac
//
