LOCUS       CP055630                1348 bp    DNA     linear   BCT 16-MAY-2022
DEFINITION  Escherichia coli strain RHB38-C13 plasmid unnamed.
ACCESSION   CP055630
VERSION     CP055630.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148388
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1348)
  AUTHORS   AbuOun,M., Jones,H., Stubberfield,E., Gilson,D., Shaw,L.P.,
            Hubbard,A.T.M., Chau,K.K., Sebra,R., Peto,T.E.A., Crook,D.W.,
            Read,D.S., Gweon,H.S., Walker,A.S., Stoesser,N., Smith,R.P.,
            Anjum,M.F. and On Behalf Of The Rehab,Consortium.
  TITLE     A genomic epidemiological study shows that prevalence of
            antimicrobial resistance in Enterobacterales is associated with the
            livestock host, as well as antimicrobial usage
  JOURNAL   Microb Genom 7 (10) (2021)
   PUBMED   34609275
REFERENCE   2  (bases 1 to 1348)
  AUTHORS   Shaw,L.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-JUN-2020) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: RH04 T3-C13
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 141.823032401795x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/18/2020 17:21:02
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.11
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,514
            CDSs (total)                      :: 5,380
            Genes (coding)                    :: 5,207
            CDSs (with protein)               :: 5,207
            Genes (RNA)                       :: 134
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 104
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 173
            CDSs (without protein)            :: 173
            Pseudo Genes (ambiguous residues) :: 0 of 173
            Pseudo Genes (frameshifted)       :: 54 of 173
            Pseudo Genes (incomplete)         :: 109 of 173
            Pseudo Genes (internal stop)      :: 37 of 173
            Pseudo Genes (multiple problems)  :: 21 of 173
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..1348
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB38-C13"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(<1..332)
                     /locus_tag="HVZ71_27565"
     CDS             complement(<1..332)
                     /locus_tag="HVZ71_27565"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001761879.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="tail fiber assembly protein"
                     /protein_id="QLN31218.1"
                     /translation="MMHLKNIKAGNAKTLEQYELTKKHGVIWLYSEDEKNWYEEVKNFQ
                     PDTIKIVYDANNIIVAITKDASTLNPEGFSVVEVPDITANRRADDSGKWMFKDGAVVKR
                     IYTADE"
                     /name="tail fiber assembly protein"
     gene            complement(334..1296)
                     /locus_tag="HVZ71_27570"
     CDS             complement(334..1296)
                     /locus_tag="HVZ71_27570"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001435977.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="phage tail protein"
                     /protein_id="QLN31219.1"
                     /translation="MSGGLTFENDSILAWIRNTDWAKIGFKNDADSDTDSYMWFETGDN
                     GNEYFKWRSKQSTTTKDLMNLKWDALSVLVKALFSSEVKISTVNALRIFNSSFGAIFRR
                     SEECLHIIPTRENEGENGDIGPLRPFTLNLRTGRISMGHGLDVTGDIFANRFAINSSTG
                     MWIHMRDQNVILGRNAVSTDGAQALLRQDHADRKFMIGGLGNKQFGIYMINNSRTANGT
                     DGQAYMDNNGNWLCGSQVIPGNYGNFDSRYVKDVRLGSQQYYGVNNWQTWNFQCPSGHV
                     LSGINVQDTGSNSADNIAGVYYRPVQKYINGTWYNIASV"
                     /name="phage tail protein"
ORIGIN
        1 tgttcgtctg ccgtataaat ccgtttaact acagctccat ccttaaacat ccactttcct
       61 gaatcatcag cgcggcggtt ggctgtaata tctggaacct caacgacgct aaaaccttca
      121 gggttaagcg tggaggcatc tttagtgatg gcgacaataa tattatttgc atcgtaaaca
      181 atctttatgg tgtctggctg aaagtttttc acttcctcat accagttttt ttcgtcctca
      241 gagtaaagcc agatgactcc gtgcttcttt gttaactcat actgttccag tgttttagca
      301 ttacccgctt ttatgttctt taagtgcatc atattaaacg ctcgctatat tataccaggt
      361 gccatttata tacttttgaa cgggtctgta ataaacgccc gctatattat cggcagagtt
      421 ggaccctgta tcctgaacat taataccaga caatacatga cctgacgggc actggaaatt
      481 ccatgtttgc cagttgttca ctccataata ttgctgtgaa ccaagtcgaa catctttcac
      541 atatctggaa tcaaaattgc catagttgcc gggaataact tgcgaaccgc aaagccagtt
      601 cccgttatta tccatgtacg cctgaccatc ggtgccatta gctgtccttg agttattaat
      661 catgtagatg ccaaattgct tatttcccag cccaccaatc ataaatttgc gatcagcatg
      721 gtcctgacga agtaatgcct gtgcaccatc ggtggatacc gcattgcgtc ccaaaataac
      781 attctggtca cgcatatgaa tccacatgcc ggtactactg ttaattgcaa aacggtttgc
      841 aaatatatcc cctgtaacat caagaccatg ccccatgctt atccgaccag ttctgagatt
      901 aagcgtaaag gggcgtagtg gccctatatc accattttct ccctcattct ctcgtgtcgg
      961 gatgatatgc aggcattctt cagaacggcg aaaaatagca ccaaaagatg aattaaatat
     1021 cctcagtgca ttgactgtcg atatttttac ttcactgctg aaaagggctt taacaagaac
     1081 agacaaagca tcccatttaa gattcatcag gtcttttgtt gtggtgcttt gtttgcttct
     1141 ccatttgaaa tattcattgc cgttgtcgcc tgtttcaaac cacatgtatg aatcagtatc
     1201 gctgtcggca tcatttttaa aaccaatctt tgcccagtca gtattccgaa tccaggcaag
     1261 gattgagtcg ttttcaaaag taagcccacc ggacaagata tcgcctgtct tttggacggc
     1321 gttaccagcc ttgtttaccg tttcctgt
//
