LOCUS       CP057395                2460 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB28-C04 plasmid pRHB28-C04_6, complete
            sequence.
ACCESSION   CP057395
VERSION     CP057395.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148266
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2460)
  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 2460)
  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                     :: RH01 T2-C04
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 157.864143540528x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 07:46:57
            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)                     :: 4,445
            CDSs (total)                      :: 4,326
            Genes (coding)                    :: 4,062
            CDSs (with protein)               :: 4,062
            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)              :: 264
            CDSs (without protein)            :: 264
            Pseudo Genes (ambiguous residues) :: 0 of 264
            Pseudo Genes (frameshifted)       :: 120 of 264
            Pseudo Genes (incomplete)         :: 122 of 264
            Pseudo Genes (internal stop)      :: 46 of 264
            Pseudo Genes (multiple problems)  :: 22 of 264
            CRISPR Arrays                     :: 3
            ##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..2460
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB28-C04"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB28-C04_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(2425..2460,1..981))
                     /locus_tag="HVY49_22215"
     CDS             complement(join(2425..2460,1..981))
                     /locus_tag="HVY49_22215"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001707479.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid recombination protein"
                     /protein_id="QMG82584.1"
                     /translation="MRSPDWLDVRQNEGVSMANYAIMRCKKLTGMGSVASALQHCYRER
                     ETPNADAERTPENYCSVSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWNEAT
                     PRQQAEFFARSEQWLEKKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGG
                     RSKMREDQSTYAESVKKLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPR
                     VLRKGIFTKDVEDQAAIAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKR
                     LQSVTEPFKGLSREQMTEILMMAQRFKQKNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="plasmid recombination protein"
     gene            1606..2109
                     /locus_tag="HVY49_22220"
     CDS             1606..2109
                     /locus_tag="HVY49_22220"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001565850.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMG82582.1"
                     /translation="MAKRGAGVNTKKISRLERHTYMDENGEVKQDSKIETFSIPAEPPY
                     VKLYIADIAMIHGLSKSQNDVLLQLAMLIGWDGFVSVSKTRFEKTIQPRVHIEYQTFKN
                     IIAALVDKQIFFRAGRGELEANPFLFARGDWPSIYERRKKIELKISYDTNGRTVQTKVM
                     DDEC"
                     /name="hypothetical protein"
     gene            2096..2326
                     /locus_tag="HVY49_22225"
     CDS             2096..2326
                     /locus_tag="HVY49_22225"
                     /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="QMG82583.1"
                     /translation="MMNAEDKLFKNVDRLMLHDSLKKNEVLTVWERTFLSSVYSIYRRT
                     SGNKYSTKGLSPKQKNAAFSILKKYNYHLMD"
                     /name="hypothetical protein"
     Typing          complement(71..981)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.368"
                     /coverage="90.0"
                     /evalue="0.0"
ORIGIN
        1 ctgtcgctgt ttttcacgtt caatacgctg ctgtttttcc ttttcctggt ttttctgctt
       61 aaaccgctga gccatcatca ggatttcggt catctgctct ctggaaagcc ccttaaaagg
      121 ctctgtaacg ctctgtaggc gtttctgctg cgcatccata gtcttctgta gctcacgcgc
      181 tctttttgcg ttctgggcgc tctgagaggc catagcgatg gttcctgcaa agccatcgtt
      241 cactgcgtgg cttagacgtt tggctatggc tgcctgatct tccacgtctt tggtgaaaat
      301 gcccttccgc aatacacgcg gctccagcgc ctccggcgag atcgatacct ggctacgggt
      361 gccacggttt atcgattcgt agtagtgctg aactgtctga tgcgtggcgc ggcttccctc
      421 gatgccgcgc tcaagaccca gtttttttac tgattcagcg taggtgctct gatcttcacg
      481 catctttgac cgcccgccaa taaactcttt cgcggacagc cgtccatcct gcgtcaatgg
      541 caccacgaac gcagacaggt gcggggtggc ctcgtcccgg tgaaccaccg ccgccacaac
      601 acgatccttc ccgtatttct tctccagcca ttgctcagag cgggcgaaaa actccgcctg
      661 ctgccgcggt gtggcctcgt tccaccactc agggcttgcc gtcataacgt attcaacagc
      721 cagtaccgca tctttacggc gtttttccgg caacagctcc cgcagctttc ccatcgcctc
      781 atctgccgac tgagacacag agcagtagtt ttctggtgtc cgttcagcgt cagcattcgg
      841 cgtctcacgc tccctgtagc agtgctgcaa agcgctggcc acactgccca ttcccgtcag
      901 ctttttgcag cgcattatcg cgtaattcgc catgcttacc ccctcgttct ggcgtacatc
      961 cagccagtcg ggggatcgca ttgcgatgcc tccggcgggc cactatcagg atgatagtgt
     1021 actcactaga ctttgctacg caaaatcgtt cgggcagcaa gctgccagaa ggtcaaaatc
     1081 aacggcagtc tggcaggtgg aaggcgtcgc tccgcgccac cccccaccac tgccaagcct
     1141 gttttatccg gtgagtcgtc aagggtaaat ggcactcgct tcgctcgccc ctgacgaaat
     1201 caggcaatga atatcgtttt tgaaagagca ggaaccgctc gccgcaagaa cggattaggg
     1261 agcggcatcg ccgcgagtct gtccgttcga ggaagcggaa tttccactcc ccggacatag
     1321 aaatccgtac gctccagact caaaaaagct cgtttttcga tgtttaaaaa tggcgttttt
     1381 cagcctttat tttccctctt aatatataga tatagatatg ggaacccgct tgtaccaagg
     1441 gctagagcga agaatcgtac tcacctcaag gactaatcgt actcacctca agtactaatc
     1501 gtactcacct caaggactaa tcgtactcac ctcaagtact aatcgtactt gatgcaaagg
     1561 acttgactgt atgtctcttt agtacttaaa tgcgagtact aaatcatggc gaaacgtggg
     1621 gctggagtga atacgaaaaa gatttctagg cttgaacggc atacatacat ggatgaaaac
     1681 ggtgaggtaa aacaagactc taagatcgag accttttcca tcccagccga acctccctac
     1741 gtcaagctat acattgcaga cattgcgatg attcatggtt tatcaaaatc tcaaaatgat
     1801 gtgcttttac aattggcaat gctgattgga tgggatgggt ttgtgtctgt atcaaaaact
     1861 agatttgaaa aaaccataca gcccagggtt catattgaat atcagacctt taaaaacata
     1921 attgcggctc ttgtagataa acaaatattc ttccgggcag ggcgtgggga acttgaagct
     1981 aacccctttc tttttgcacg gggagactgg ccatcaattt acgaaagaag aaagaaaatt
     2041 gagttaaaga tcagttatga caccaatgga agaacggtgc agacgaaggt aatggatgat
     2101 gaatgctgaa gataaacttt ttaaaaatgt agacaggcta atgctgcatg attcactaaa
     2161 aaagaatgag gttctgactg tttgggagcg tactttttta agcagtgttt acagcatata
     2221 tcgtagaact agcggtaata aatactcaac taagggtttg tcaccaaagc agaaaaacgc
     2281 agctttttct attttgaaaa aatacaatta ccatctgatg gattagctgg cctcagcgtt
     2341 atacagggcg gcagaacctg atctctggaa tgccgcaaat gacgtcactt tgcggcgtta
     2401 gccctatcct gcatcgcatc aaaactaacg ctccatacca cccatgccac gcgatcgcgt
//
