LOCUS       NZ_AP027175             6213 bp    DNA     circular CON 06-JUN-2024
DEFINITION  Escherichia coli strain 20.1 plasmid pO26_20.1_5, complete sequence.
ACCESSION   NZ_AP027175
VERSION     NZ_AP027175.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562884
            Sequence Read Archive: DRR424512
            Assembly: GCF_027925685.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Yano,B., Taniguchi,I., Gotoh,Y., Hayashi,T. and Nakamura,K.
  TITLE     Dynamics and temporal change of Shiga toxin (Stx)-transducing phages
            in the O26:H11 Stx-producing E. coli lineage
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6213)
  AUTHORS   Yano,B., Taniguchi,I., Hayashi,T. and Nakamura,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-JAN-2023) Contact:Keiji Nakamura Kyushu University,
            Faculty of Medical Sciences; Higashi-ku Maidashi 3-1-1, Fukuoka,
            Fukuoka 812-8582, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. 2.9
            Genome Coverage                   :: 74x
            Sequencing Technology             :: MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_027925685.1-RS_2024_06_06
            Annotation Date                   :: 06/06/2024 03:12:16
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 6,055
            CDSs (total)                      :: 5,925
            Genes (coding)                    :: 5,573
            CDSs (with protein)               :: 5,573
            Genes (RNA)                       :: 130
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 97
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 352
            CDSs (without protein)            :: 352
            Pseudo Genes (ambiguous residues) :: 0 of 352
            Pseudo Genes (frameshifted)       :: 141 of 352
            Pseudo Genes (incomplete)         :: 215 of 352
            Pseudo Genes (internal stop)      :: 80 of 352
            Pseudo Genes (multiple problems)  :: 74 of 352
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027175.1.
            Annotated by DFAST v.1.2.18 (https://dfast.nig.ac.jp).
            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..6213
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="20.1"
                     /serovar="O26:H11"
                     /host="Bos taurus"
                     /db_xref="taxon:562"
                     /plasmid="pO26_20.1_5"
                     /geo_loc_name="Belgium"
                     /collection_date="2008"
     gene            1..804
                     /gene="aph(3'')-Ib"
                     /locus_tag="QMG87_RS30150"
                     /old_locus_tag="B201_p5_01"
     ARG             2..801
                     /name="aph(3'')-Ib"
                     /gene="aph(3'')-Ib"
                     /gene_name="aminoglycoside O-phosphotransferase
                     APH(3'')-Ib"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            804..1640
                     /locus_tag="QMG87_RS30155"
                     /old_locus_tag="B201_p5_02"
     CDS             804..1640
                     /locus_tag="QMG87_RS30155"
                     /old_locus_tag="B201_p5_02"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000480972.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /protein_id="WP_000480968.1"
                     /translation="MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKP
                     IEDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYAGERMLSHIVAEHGDYQATEIA
                     AELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNA
                     SELRGLHGDLHHENIMFSSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIA
                     QMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEEEQRDLAIAAAIKQVRQTSY"
                     /name="aminoglycoside O-phosphotransferase APH(6)-Id"
     gene            complement(<1747..2151)
                     /locus_tag="QMG87_RS30160"
                     /old_locus_tag="B201_p5_03"
                     /pseudo=""
     CDS             complement(<1747..2151)
                     /locus_tag="QMG87_RS30160"
                     /old_locus_tag="B201_p5_03"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001120888.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="IS91 family transposase"
                     /name="IS91 family transposase"
     gene            complement(2195..2584)
                     /locus_tag="QMG87_RS30165"
                     /old_locus_tag="B201_p5_04"
     CDS             complement(2195..2584)
                     /locus_tag="QMG87_RS30165"
                     /old_locus_tag="B201_p5_04"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000102614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000102614.1"
                     /translation="MSTELNSGTVGGFGHMGPNDPYNDGHSGSGSSGGSFNGGGNGGHD
                     NSSGSSYTASFGLITGRHPITVPGTKNINSVDLSAVINNIIHHEGARNNMYLDTANNVR
                     VGVTGTGWQCLATAGISAEGKRTFR"
                     /name="hypothetical protein"
     gene            2802..3243
                     /locus_tag="QMG87_RS30170"
                     /old_locus_tag="B201_p5_05"
                     /pseudo=""
     CDS             2802..3243
                     /locus_tag="QMG87_RS30170"
                     /old_locus_tag="B201_p5_05"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005119689.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="entry exclusion protein 1"
                     /name="entry exclusion protein 1"
     gene            complement(3999..4148)
                     /locus_tag="QMG87_RS30175"
                     /old_locus_tag="B201_p5_07"
     CDS             complement(3999..4148)
                     /locus_tag="QMG87_RS30175"
                     /old_locus_tag="B201_p5_07"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001138880.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGSPVG
                     REAL"
                     /name="hypothetical protein"
     gene            4719..4877
                     /locus_tag="QMG87_RS30305"
     CDS             4719..4877
                     /locus_tag="QMG87_RS30305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032287700.1"
                     /translation="MHEPPVQSDRCALSGNYQLESNPERHDKTPLAAAISNRSAREDRL
                     RGLEVEA"
                     /name="hypothetical protein"
     gene            5337..6152
                     /gene="sul2"
                     /locus_tag="QMG87_RS30180"
                     /old_locus_tag="B201_p5_08"
     ARG             5338..6149
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul2"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             805..1637
                     /name="aph(6)-Id"
                     /gene="aph(6)-Id"
                     /gene_name="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(4184..4357)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="100.0"
                     /evalue="1.19e-84"
     Typing          4281..4886
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.593"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ttgaatcgaa ctaatatttt ttttggtgaa tcgcattctg actggttgcc tgtcagaggc
       61 ggagaatctg gtgattttgt ttttcgacgt ggtgacgggc atgccttcgc gaaaatcgca
      121 cctgcttccc gccgcggtga gctcgctgga gagcgtgacc gcctcatttg gctcaaaggt
      181 cgaggtgtgg cttgccccga ggtcatcaac tggcaggagg aacaggaggg tgcatgcttg
      241 gtgataacgg caattccggg agtaccggcg gctgatctgt ctggagcgga tttgctcaaa
      301 gcgtggccgt caatggggca gcaacttggc gctgttcaca gcctatcggt tgatcaatgt
      361 ccgtttgagc gcaggctgtc gcgaatgttc ggacgcgccg ttgatgtggt gtcccgcaat
      421 gccgtcaatc ccgacttctt accggacgag gacaagagta cgccgcagct cgatcttttg
      481 gctcgtgtcg aacgagagct accggtgcgg ctcgaccaag agcgcaccga tatggttgtt
      541 tgccatggtg atccctgcat gccgaacttc atggtggacc ctaaaactct tcaatgcacg
      601 ggtctgatcg accttgggcg gctcggaaca gcagatcgct atgccgattt ggcactcatg
      661 attgctaacg ccgaagagaa ctgggcagcg ccagatgaag cagagcgcgc cttcgctgtc
      721 ctattcaatg tattggggat cgaagccccc gaccgcgaac gccttgcctt ctatctgcga
      781 ttggaccctc tgacttgggg ttgatgttca tgccgcctgt ttttcctgct cattggcacg
      841 tttcgcaacc tgttctcatt gcggacacct tttccagcct cgtttggaaa gtttcattgc
      901 cagacgggac tcctgcaatc gtcaagggat tgaaacctat agaagacatt gctgatgaac
      961 tgcgcggggc cgactatctg gtatggcgca atgggagggg agcagtccgg ttgctcggtc
     1021 gtgagaacaa tctgatgttg ctcgaatatg ccggggagcg aatgctctct cacatcgttg
     1081 ccgagcacgg cgactaccag gcgaccgaaa ttgcagcgga actaatggcg aagctgtatg
     1141 ccgcatctga ggaacccctg ccttctgccc ttctcccgat ccgggatcgc tttgcagctt
     1201 tgtttcagcg ggcgcgcgat gatcaaaacg caggttgtca aactgactac gtccacgcgg
     1261 cgattatagc cgatcaaatg atgagcaatg cctcggaact gcgtgggcta catggcgatc
     1321 tgcatcatga aaacatcatg ttctccagtc gcggctggct ggtgatagat cccgtcggtc
     1381 tggtcggtga agtgggcttt ggcgccgcca atatgttcta cgatccggct gacagagacg
     1441 acctttgtct cgatcctaga cgcattgcac agatggcgga cgcattctct cgtgcgctgg
     1501 acgtcgatcc gcgtcgcctg ctcgaccagg cgtacgctta tgggtgcctt tccgcagctt
     1561 ggaacgcgga tggagaagag gagcaacgcg atctagctat cgcggccgcg atcaagcagg
     1621 tgcgacagac gtcatactag atatcaagcg acttctccta tcccctggga acacatcaat
     1681 ctcaccggag aatatcgctg gccaaagcct tagcgtagga ttccgcccct tcccgcaaac
     1741 gaccccaaac aggaaacgca gctgaaacgg gaagctcaac acccactgac gcatgggttg
     1801 ttcaggcagt acttcatcaa ccagcaaggc ggcactttcg gccatccgcc gcgccccaca
     1861 gctcgggcag aaaccgcgac gcttacagct gaaagcgacc aggtgctcgg cgtggcaaga
     1921 ctcgcagcga acccgtagaa agccatgctc cagccgcccg cattggagaa attcttcaaa
     1981 ttcccgttgc acatagcccg gcaattcctt tccctgctct gccataagcg cagcgaatgc
     2041 cgggtaatac tcgtcaacga tctgatagag aagggtttgc tcgggtcggt ggctctggta
     2101 acgaccagta tcccgatccc ggctggccgt cctggccgcc acatgaggca tgttccgcgt
     2161 ccttgcaata ctgtgtttac atacagtcta tcgcttagcg gaaagttctt ttaccctcag
     2221 ccgaaatgcc tgccgttgct agacattgcc agccagtgcc cgtcactccc actcttacat
     2281 tgttcgcagt atctaggtac atgttattgc gtgcaccttc atgatgtata atgttattaa
     2341 tgacagcaga aagatcgaca gaattaatat tcttcgtacc tgggacagtt atcgggtgtc
     2401 ggccagtgat gagaccaaag gatgcagtat aagatgaacc actactatta tcatggccac
     2461 cattaccacc accgttaaaa ctacctcccg aacttccaga gccgctatga ccatcattgt
     2521 aggggtcatt tggtcccatg tgaccaaaac caccgacagt accgctattt aactctgtac
     2581 tcataaaatt atcctctttg acttttaaaa acagcaaaaa ctgtatttat aacaatgtgt
     2641 ttatatacag tattcgaaat actacgcccg tcaaaaccac accgtcaaca ggttttttgt
     2701 gtatttttca cgcctcacgg gcagcctcag accttttgtg ttaaaacagt aatatgttct
     2761 gctgttacaa tacggtacac acaggagaca ctgtcacttt tatggcatgg cacacagttc
     2821 aagagacact gaaattaaca ggaaagtcgc gctcgcaatt atatcgtgac atggctaaag
     2881 gccttgtcag ctatcgcaca ggaaaaaatg atcgccggga gttcgagacc agtgaactga
     2941 ttcgggccta tggcgagctg cgcacttctg agacaccaaa aaggcacaag gagggacact
     3001 ccaaatctgt cgttagccag gcggaaaatg ctcagctagg acgtcattca gcagaaactg
     3061 gacgctctgc agcagactgt taccctaatg cttgaagaca agatggcgcg ggaagcagaa
     3121 aaccgcctgc gaaatgagga gagggaacaa ctacaggccg aaattagccg tctggctgac
     3181 gcgctggcac aggaaaaaaa gcggggattc tggtcgcggc tgtttcgctc cggttcagag
     3241 taacagtgca ggtgactctg atttaccata acatctgtta tcagcaccgc ctgagaggcc
     3301 ctcagggcgt ttctgacggg aaaccggtaa aacaggcaac aaaccacccg aaaacccgcc
     3361 agaaacgcgc aggctctgtt tttacggcat gcatgagtat gcgcacaagt gcatagcgcg
     3421 gaaattcaca ccattcagcc ggggtaagtc ctgtttccgg cgttcttccc atccgaaaac
     3481 ggtgaacggg gacgcaattt attgcgtggc cgtgaagcgt tgccggcgca gccggaaaac
     3541 ccgctgtcag cacgttcagg aagggggtga tgtacaaatg gcacagagga tgaaagtgac
     3601 gtatgagctg aaggaatgat gtaaaagtga tgtaaaagtg atgtataagt gatgtaaaag
     3661 tgatgtatga actgaaggag cgatgtaatt ctgtagtcag gaagaataac ccgttcatgc
     3721 aggcatgaac gatacagtga ggaacgcttt ttttgtcacg atctcccctt aacctgcgta
     3781 aatcacccgc catggttgat tatttttcaa cctcaaaatg gtcatacacc taacgcagcc
     3841 gcgattttca tcgcaactgc atgaattaaa agaaaaaaaa ggaatatttc gttttcacga
     3901 gtaatacccg ggtattaaaa atccactgta attacatgaa aataaagaaa taaaaggtaa
     3961 taccggagta ttaccacgta cgcgggcaag cgaaaaagct ataacgcttc ccggccgaca
     4021 ggcgacccaa aatccacagg ggcatgcagg ttctcttcag taacctgcgc cattaaatca
     4081 aaaaggtcat attcgccggg aagctgcgta tcagtcgaat ccagttgttc atcatattca
     4141 gatggcatgg ggtgatatcc agtagctgag aggttgttag cgggtttcgg ggcgcagccc
     4201 tgaaccagtc atgtagcgct agcggagtgt atactggctt actatgttgc cacgattgcg
     4261 aaaatcagtg aagtgcttca tgtggcagga gaaaaaaggc agcaccggcg cgtcagcaga
     4321 atatgcgata caggagatat tccgcttcct cgctcactga ctcgctacgc tcggtcgttc
     4381 ggctgcggcg agcggtaccg gcttacggac ggggacggaa atttcctgga agataccagg
     4441 aagacactta gcaaagaaga gataaggcca cggcgaagcc gtttttccat aggctccgcc
     4501 cccctgacaa gcatcgcaaa atctgacgct caaatcagtg gtggcgaaac ccgacaggac
     4561 tataaagatc ccaggcgttt ccccctggta gctccctcgt gcgctctcct gttcctgcct
     4621 ttcggtttac cggtgtcatt ccgctgttat ggccgcggtt tctcattcca cgcctgacac
     4681 tcagttccgt gaaggcagtt cgctccaagc tggactgtat gcacgaaccc cccgttcagt
     4741 ccgaccgctg cgccttgtcc ggtaactatc aacttgagtc caacccggaa agacacgaca
     4801 aaacgccact ggcagcagcc attagtaaca ggagtgcacg agaagataga ttaagaggtc
     4861 ttgaagtaga ggcctgactg cggctacact gaaagaacag ttttggtaat ggcggtctcg
     4921 tgaaccctgt taccgggtta agcagttccc caactgactt aaccttcgaa caaaccgcct
     4981 ccccaggcgg ttttttcgtt tacagagcaa gagattacga ttcattgaaa aggatctcaa
     5041 gaagatcctt tgtagattac tatcaattaa tcttccgaac atgacaccag tcactgttga
     5101 ttacggttaa accgctccgt aacaggtttc cctcgtattg gtgacttgca gcaccaaaga
     5161 agcaaaaaag ataaatatat ctacttattg agagatgata tatttatttc caaaatgcta
     5221 cagatacatc atcatgaaac ggatcaccgc aaacaggtta ctcgcctggg gattcccttt
     5281 cgacccgagc atccgtatga gactcatgct cgattattat tattatagaa gcccccatga
     5341 ataaatcgct catcattttc ggcatcgtca acataacctc ggacagtttc tccgatggag
     5401 gccggtatct ggcgccagac gcagccattg cgcaggcgcg taagctgatg gccgaggggg
     5461 cagatgtgat cgacctcggt ccggcatcca gcaatcccga cgccgcgcct gtttcgtccg
     5521 acacagaaat cgcgcgtatc gcgccggtgc tggacgcgct caaggcagat ggcattcccg
     5581 tctcgctcga cagttatcaa cccgcgacgc aagcctatgc cttgtcgcgt ggtgtggcct
     5641 atctcaatga tattcgcggt tttccagacg ctgcgttcta tccgcaattg gcgaaatcat
     5701 ctgccaaact cgtcgttatg cattcggtgc aagacgggca ggcagatcgg cgcgaggcac
     5761 ccgctggcga catcatggat cacattgcgg cgttctttga cgcgcgcatc gcggcgctga
     5821 cgggtgccgg tatcaaacgc aaccgccttg tccttgatcc cggcatgggg ttttttctgg
     5881 gggctgctcc cgaaacctcg ctctcggtgc tggcgcggtt cgatgaattg cggctgcgct
     5941 tcgatttgcc ggtgcttctg tctgtttcgc gcaaatcctt tctgcgcgcg ctcacaggcc
     6001 gtggtccggg ggatgtcggg gccgcgacac tcgctgcaga gcttgccgcc gccgcaggtg
     6061 gagctgactt catccgcaca cacgagccgc gccccttgcg cgacgggctg gcggtattgg
     6121 cggcgctgaa agaaaccgca agaattcgtt aactgcacat tcgggatatt tctctatatt
     6181 cgcgcttcat cagaaaactg aaggaacctc cat
//
