LOCUS       NZ_CP051613             1808 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli O25b:H4-ST131 strain 2019_APHA plasmid
            pAPHA_2019_4, complete sequence.
ACCESSION   NZ_CP051613
VERSION     NZ_CP051613.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14594835
            Assembly: GCF_014217135.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli O25b:H4-ST131
  ORGANISM  Escherichia coli O25b:H4-ST131
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1808)
  AUTHORS   Duggett,N.A., Randall,L., Lemma,F., Teale,C. and Anjum,M.F.
  TITLE     First detection of the pandemic Escherichia coli ST131 blaCTX-M-27
            fimH30(R) human clone in pigs from United Kingdom
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1808)
  AUTHORS   Duggett,N.A., Randall,L., Lemma,F., Teale,C. and Anjum,M.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-APR-2020) Bacteriology, Animal and Plant Health
            Agency, Woodham Lane, New Haw, Addlestone, Surrey KT15 3NB, United
            Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50x
            Sequencing Technology             :: Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 05:46:59
            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)                     :: 5,088
            CDSs (total)                      :: 4,976
            Genes (coding)                    :: 4,749
            CDSs (with protein)               :: 4,749
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 227
            CDSs (without protein)            :: 227
            Pseudo Genes (ambiguous residues) :: 0 of 227
            Pseudo Genes (frameshifted)       :: 80 of 227
            Pseudo Genes (incomplete)         :: 169 of 227
            Pseudo Genes (internal stop)      :: 39 of 227
            Pseudo Genes (multiple problems)  :: 52 of 227
            Pseudo Genes (short protein)      :: 3 of 227
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP051613.1.
            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..1808
                     /organism="Escherichia coli O25b:H4-ST131"
                     /mol_type="genomic DNA"
                     /strain="2019_APHA"
                     /isolation_source="cecal sample"
                     /host="Pig"
                     /db_xref="taxon:941322"
                     /plasmid="pAPHA_2019_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2019"
                     /genotype="ST131"
     gene            256..>458
                     /locus_tag="HHM37_RS25130"
                     /old_locus_tag="HHM37_25145"
                     /pseudo=""
     CDS             256..>458
                     /locus_tag="HHM37_RS25130"
                     /old_locus_tag="HHM37_25145"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_076611435.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0004803 - transposase activity [Evidence IEA]"
                     /GO_process="GO:0006313 - DNA transposition [Evidence IEA]"
                     /note="frameshifted; internal stop; 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="transposase"
                     /name="transposase"
     gene            909..1625
                     /gene="kfiA"
                     /locus_tag="HHM37_RS25135"
                     /old_locus_tag="HHM37_25150"
     CDS             909..1625
                     /gene="kfiA"
                     /locus_tag="HHM37_RS25135"
                     /old_locus_tag="HHM37_25150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000634338.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="K5 polysaccharide biosynthesis alpha-UDP-GlcNAc
                     glycosyltransferase KfiA"
                     /protein_id="WP_000634338.1"
                     /translation="MIVANMSSYPPRKKELVHSIQSLHAQVDKINLCLNEFEEIPEELD
                     GFSKLNPVIPDKDYKDVGKFIFPCAKNDMIVLTDDDIIYPPDYVEKMLNFYNSFAIFNC
                     IVGIHGCIYIDAFDGDQSKRKVFSFTQGLLRPRVVNQLGTGTVFLKADQLPSLKYMDGS
                     QRFVDVRFSRYMLENEIGMICVPREKNWLREVSSGSMEGLWNTFTKKWPLDIIKETQAI
                     AGYSKLNLELVYNVEG"
                     /name="kfiA"
ORIGIN
        1 attaatatga caaatagcat atgtatctta tgaaattgaa acgataaact taatgacaca
       61 ggtagaatac aagtgacata agaaattatg ttgctgtggc tgatataagt tctttttgtt
      121 catttatttt tgtcgccaag catcatgaat agaaatccag atctcctaaa atcataacaa
      181 aattgttaag ataccgttct ctgaataact agactagctc cctgaatctc taggcaatca
      241 atatcattta aataactgat agtagtgata ctagtctttt agactagtag ttggagaata
      301 gataattggt gtcttagaag cagagaaacg cagacagcgt gccacacagg aaaatcgcta
      361 tttttcagca gagccttgaa ccgaaaatgg cggtcttcct cgttgccaga caacatggtg
      421 tggcaggctg ccagttattc tttcagcgta agcaatacta agagggaggc ctgattactg
      481 ttgcactaac agtgtcattg ccggagattg taatcacact ctatataatt atataaactc
      541 tattgtattt agtgtatgag gaggatggac agtatacttt gaactaggca attatgaatt
      601 tgatcgtgat ctcgtaatac gttgctgtta ttctttaatt aattatctgc caatttattt
      661 ttagatagtt acaggaaatg tttatgcaaa gagtggtttg atatggtaag agtaataatt
      721 tagatgaaga taaatatatc aaacgtacac cctagtagtt atttttaatt aaacatatcg
      781 tccatgaggt gcggagtcat tctaatcaac ttaatgtgtt ctgtttatta agcatttcct
      841 ataaataaac gactatcaat acgttgatag ttttcattaa catgcaatat taattaaaat
      901 attaccccat gattgttgca aatatgtcat catacccacc tcgaaaaaaa gagttggtgc
      961 attctataca aagtttacat gctcaagtag ataaaattaa tctttgcctg aatgagtttg
     1021 aagaaattcc tgaggaatta gatggttttt caaaattaaa tccagttatt ccagataaag
     1081 attataagga tgtgggcaaa tttatatttc cttgcgctaa aaatgatatg atcgtactta
     1141 cagatgatga tattatttac cctcccgatt atgtagaaaa aatgctcaat ttttataatt
     1201 cctttgcaat attcaattgc attgttggga ttcatggctg tatatacata gatgcatttg
     1261 atggagatca gtctaaaaga aaagtatttt catttactca agggctattg cgaccgagag
     1321 ttgtaaatca attaggtaca gggactgttt ttcttaaggc agatcaatta ccatctttaa
     1381 aatatatgga tggttctcaa cgattcgtcg atgttagatt ttctcgctat atgttagaga
     1441 atgaaattgg tatgatatgt gttcccagag aaaaaaactg gctaagagag gtctcatcag
     1501 gttcaatgga aggactttgg aacacattta caaaaaaatg gcctttagac atcataaaag
     1561 aaacacaagc aatcgcagga tattcaaaac ttaacctcga attagtgtat aatgtggaag
     1621 ggtaaaaact tactttttta ttcacattcc tgtattttgt gttggtttct gaagtttata
     1681 gtataaatac ttgttttaaa tagttgtacg ttgatatttt gttatatact tatttaaacc
     1741 atttgtttta tgattttgaa aaatatcagc gttagtttgg tagagtttat aattaagatt
     1801 tttgtcta
//
