LOCUS       CP058050                2460 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB03-C05 plasmid pRHB03-C05_5, complete
            sequence.
ACCESSION   CP058050
VERSION     CP058050.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15147975
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 T1-C05
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 91.7572418351549x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 13:16:36
            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)                     :: 4,439
            CDSs (total)                      :: 4,320
            Genes (coding)                    :: 4,058
            CDSs (with protein)               :: 4,058
            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)              :: 262
            CDSs (without protein)            :: 262
            Pseudo Genes (ambiguous residues) :: 0 of 262
            Pseudo Genes (frameshifted)       :: 119 of 262
            Pseudo Genes (incomplete)         :: 121 of 262
            Pseudo Genes (internal stop)      :: 46 of 262
            Pseudo Genes (multiple problems)  :: 22 of 262
            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="RHB03-C05"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB03-C05_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(2440..2460,1..996))
                     /locus_tag="HVV58_22180"
     CDS             complement(join(2440..2460,1..996))
                     /locus_tag="HVV58_22180"
                     /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="QMQ64610.1"
                     /translation="MRSPDWLDVRQNEGVSMANYAIMRCKKLTGMGSVASALQHCYRER
                     ETPNADAERTPENYCSVSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWNEAT
                     PRQQAEFFARSEQWLEKKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGG
                     RSKMREDQSTYAESVKKLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPR
                     VLRKGIFTKDVEDQAAIAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKR
                     LQSVTEPFKGLSREQMTEILMMAQRFKQKNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="plasmid recombination protein"
     gene            1621..2124
                     /locus_tag="HVV58_22185"
     CDS             1621..2124
                     /locus_tag="HVV58_22185"
                     /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="QMQ64608.1"
                     /translation="MAKRGAGVNTKKISRLERHTYMDENGEVKQDSKIETFSIPAEPPY
                     VKLYIADIAMIHGLSKSQNDVLLQLAMLIGWDGFVSVSKTRFEKTIQPRVHIEYQTFKN
                     IIAALVDKQIFFRAGRGELEANPFLFARGDWPSIYERRKKIELKISYDTNGRTVQTKVM
                     DDEC"
                     /name="hypothetical protein"
     gene            2111..2341
                     /locus_tag="HVV58_22190"
     CDS             2111..2341
                     /locus_tag="HVV58_22190"
                     /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="QMQ64609.1"
                     /translation="MMNAEDKLFKNVDRLMLHDSLKKNEVLTVWERTFLSSVYSIYRRT
                     SGNKYSTKGLSPKQKNAAFSILKKYNYHLMD"
                     /name="hypothetical protein"
     Typing          complement(2..996)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.289"
                     /coverage="98.0"
                     /evalue="0.0"
ORIGIN
        1 gccacgcgat cgcgtctgtc gctgtttttc acgttcaata cgctgctgtt tttccttttc
       61 ctggtttttc tgcttaaacc gctgagccat catcaggatt tcggtcatct gctctctgga
      121 aagcccctta aaaggctctg taacgctctg taggcgtttc tgctgcgcat ccatagtctt
      181 ctgtagctca cgcgctcttt ttgcgttctg ggcgctctga gaggccatag cgatggttcc
      241 tgcaaagcca tcgttcactg cgtggcttag acgtttggct atggctgcct gatcttccac
      301 gtctttggtg aaaatgccct tccgcaatac acgcggctcc agcgcctccg gcgagatcga
      361 tacctggcta cgggtgccac ggtttatcga ttcgtagtag tgctgaactg tctgatgcgt
      421 ggcgcggctt ccctcgatgc cgcgctcaag acccagtttt tttactgatt cagcgtaggt
      481 gctctgatct tcacgcatct ttgaccgccc gccaataaac tctttcgcgg acagccgtcc
      541 atcctgcgtc aatggcacca cgaacgcaga caggtgcggg gtggcctcgt cccggtgaac
      601 caccgccgcc acaacacgat ccttcccgta tttcttctcc agccattgct cagagcgggc
      661 gaaaaactcc gcctgctgcc gcggtgtggc ctcgttccac cactcagggc ttgccgtcat
      721 aacgtattca acagccagta ccgcatcttt acggcgtttt tccggcaaca gctcccgcag
      781 ctttcccatc gcctcatctg ccgactgaga cacagagcag tagttttctg gtgtccgttc
      841 agcgtcagca ttcggcgtct cacgctccct gtagcagtgc tgcaaagcgc tggccacact
      901 gcccattccc gtcagctttt tgcagcgcat tatcgcgtaa ttcgccatgc ttaccccctc
      961 gttctggcgt acatccagcc agtcggggga tcgcattgcg atgcctccgg cgggccacta
     1021 tcaggatgat agtgtactca ctagactttg ctacgcaaaa tcgttcgggc agcaagctgc
     1081 cagaaggtca aaatcaacgg cagtctggca ggtggaaggc gtcgctccgc gccacccccc
     1141 accactgcca agcctgtttt atccggtgag tcgtcaaggg taaatggcac tcgcttcgct
     1201 cgcccctgac gaaatcaggc aatgaatatc gtttttgaaa gagcaggaac cgctcgccgc
     1261 aagaacggat tagggagcgg catcgccgcg agtctgtccg ttcgaggaag cggaatttcc
     1321 actccccgga catagaaatc cgtacgctcc agactcaaaa aagctcgttt ttcgatgttt
     1381 aaaaatggcg tttttcagcc tttattttcc ctcttaatat atagatatag atatgggaac
     1441 ccgcttgtac caagggctag agcgaagaat cgtactcacc tcaaggacta atcgtactca
     1501 cctcaagtac taatcgtact cacctcaagg actaatcgta ctcacctcaa gtactaatcg
     1561 tacttgatgc aaaggacttg actgtatgtc tctttagtac ttaaatgcga gtactaaatc
     1621 atggcgaaac gtggggctgg agtgaatacg aaaaagattt ctaggcttga acggcataca
     1681 tacatggatg aaaacggtga ggtaaaacaa gactctaaga tcgagacctt ttccatccca
     1741 gccgaacctc cctacgtcaa gctatacatt gcagacattg cgatgattca tggtttatca
     1801 aaatctcaaa atgatgtgct tttacaattg gcaatgctga ttggatggga tgggtttgtg
     1861 tctgtatcaa aaactagatt tgaaaaaacc atacagccca gggttcatat tgaatatcag
     1921 acctttaaaa acataattgc ggctcttgta gataaacaaa tattcttccg ggcagggcgt
     1981 ggggaacttg aagctaaccc ctttcttttt gcacggggag actggccatc aatttacgaa
     2041 agaagaaaga aaattgagtt aaagatcagt tatgacacca atggaagaac ggtgcagacg
     2101 aaggtaatgg atgatgaatg ctgaagataa actttttaaa aatgtagaca ggctaatgct
     2161 gcatgattca ctaaaaaaga atgaggttct gactgtttgg gagcgtactt ttttaagcag
     2221 tgtttacagc atatatcgta gaactagcgg taataaatac tcaactaagg gtttgtcacc
     2281 aaagcagaaa aacgcagctt tttctatttt gaaaaaatac aattaccatc tgatggatta
     2341 gctggcctca gcgttataca gggcggcaga acctgatctc tggaatgccg caaatgacgt
     2401 cactttgcgg cgttagccct atcctgcatc gcatcaaaac taacgctcca taccacccat
//
