LOCUS       CP057001                2460 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB41-C05 plasmid pRHB41-C05_5, complete
            sequence.
ACCESSION   CP057001
VERSION     CP057001.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148422
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 T3-C05
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 139.34638485268x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 03:15:02
            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)                     :: 4,441
            CDSs (total)                      :: 4,322
            Genes (coding)                    :: 4,056
            CDSs (with protein)               :: 4,056
            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)              :: 266
            CDSs (without protein)            :: 266
            Pseudo Genes (ambiguous residues) :: 0 of 266
            Pseudo Genes (frameshifted)       :: 119 of 266
            Pseudo Genes (incomplete)         :: 125 of 266
            Pseudo Genes (internal stop)      :: 46 of 266
            Pseudo Genes (multiple problems)  :: 22 of 266
            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="RHB41-C05"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB41-C05_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(2218..2460,1..261))
                     /locus_tag="HV005_22195"
     CDS             complement(join(2218..2460,1..261))
                     /locus_tag="HV005_22195"
                     /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="QMB30738.1"
                     /translation="MAKRGAGVNTKKISRLERHTYMDENGEVKQDSKIETFSIPAEPPY
                     VKLYIADIAMIHGLSKSQNDVLLQLAMLIGWDGFVSVSKTRFEKTIQPRVHIEYQTFKN
                     IIAALVDKQIFFRAGRGELEANPFLFARGDWPSIYERRKKIELKISYDTNGRTVQTKVM
                     DDEC"
                     /name="hypothetical protein"
     gene            886..1902
                     /locus_tag="HV005_22200"
     CDS             886..1902
                     /locus_tag="HV005_22200"
                     /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="QMB30736.1"
                     /translation="MRSPDWLDVRQNEGVSMANYAIMRCKKLTGMGSVASALQHCYRER
                     ETPNADAERTPENYCSVSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWNEAT
                     PRQQAEFFARSEQWLEKKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGG
                     RSKMREDQSTYAESVKKLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPR
                     VLRKGIFTKDVEDQAAIAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKR
                     LQSVTEPFKGLSREQMTEILMMAQRFKQKNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="plasmid recombination protein"
     gene            complement(2001..2228)
                     /locus_tag="HV005_22205"
     CDS             complement(2001..2228)
                     /locus_tag="HV005_22205"
                     /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="QMB30737.1"
                     /translation="MNAEDKLFKNVDRLMLHDSLKKNEVLTVWERTFLSSVYSIYRRTS
                     GNKYSTKGLSPKQKNAAFSILKKYNYHLMD"
                     /name="hypothetical protein"
     Typing          887..1899
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.041"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aaatctagtt tttgatacag acacaaaccc atcccatcca atcagcattg ccaattgtaa
       61 aagcacatca ttttgagatt ttgataaacc atgaatcatc gcaatgtctg caatgtatag
      121 cttgacgtag ggaggttcgg ctgggatgga aaaggtctcg atcttagagt cttgttttac
      181 ctcaccgttt tcatccatgt atgtatgccg ttcaagccta gaaatctttt tcgtattcac
      241 tccagcccca cgtttcgcca tgatttagta ctcgcattta agtactaaag agacatacag
      301 tcaagtcctt tgcatcaagt acgattagta cttgaggtga gtacgattag tccttgaggt
      361 gagtacgatt agtacttgag gtgagtacga ttagtccttg aggtgagtac gattcttcgc
      421 tctagccctt ggtacaagcg ggttcccata tctatatcta tatattaaga gggaaaataa
      481 aggctgaaaa acgccatttt taaacatcga aaaacgagct tttttgagtc tggagcgtac
      541 ggatttctat gtccggggag tggaaattcc gcttcctcga acggacagac tcgcggcgat
      601 gccgctccct aatccgttct tgcggcgagc ggttcctgct ctttcaaaaa cgatattcat
      661 tgcctgattt cgtcaggggc gagcgaagcg agtgccattt acccttgacg actcaccgga
      721 taaaacaggc ttggcagtgg tggggggtgg cgcggagcga cgccttccac ctgccagact
      781 gccgttgatt ttgaccttct ggcagcttgc tgcccgaacg attttgcgta gcaaagtcta
      841 gtgagtacac tatcatcctg atagtggccc gccggaggca tcgcaatgcg atcccccgac
      901 tggctggatg tacgccagaa cgagggggta agcatggcga attacgcgat aatgcgctgc
      961 aaaaagctga cgggaatggg cagtgtggcc agcgctttgc agcactgcta cagggagcgt
     1021 gagacgccga atgctgacgc tgaacggaca ccagaaaact actgctctgt gtctcagtcg
     1081 gcagatgagg cgatgggaaa gctgcgggag ctgttgccgg aaaaacgccg taaagatgcg
     1141 gtactggctg ttgaatacgt tatgacggca agccctgagt ggtggaacga ggccacaccg
     1201 cggcagcagg cggagttttt cgcccgctct gagcaatggc tggagaagaa atacgggaag
     1261 gatcgtgttg tggcggcggt ggttcaccgg gacgaggcca ccccgcacct gtctgcgttc
     1321 gtggtgccat tgacgcagga tggacggctg tccgcgaaag agtttattgg cgggcggtca
     1381 aagatgcgtg aagatcagag cacctacgct gaatcagtaa aaaaactggg tcttgagcgc
     1441 ggcatcgagg gaagccgcgc cacgcatcag acagttcagc actactacga atcgataaac
     1501 cgtggcaccc gtagccaggt atcgatctcg ccggaggcgc tggagccgcg tgtattgcgg
     1561 aagggcattt tcaccaaaga cgtggaagat caggcagcca tagccaaacg tctaagccac
     1621 gcagtgaacg atggctttgc aggaaccatc gctatggcct ctcagagcgc ccagaacgca
     1681 aaaagagcgc gtgagctaca gaagactatg gatgcgcagc agaaacgcct acagagcgtt
     1741 acagagcctt ttaaggggct ttccagagag cagatgaccg aaatcctgat gatggctcag
     1801 cggtttaagc agaaaaacca ggaaaaggaa aaacagcagc gtattgaacg tgaaaaacag
     1861 cgacagacgc gatcgcgtgg catgggtggt atggagcgtt agttttgatg cgatgcagga
     1921 tagggctaac gccgcaaagt gacgtcattt gcggcattcc agagatcagg ttctgccgcc
     1981 ctgtataacg ctgaggccag ctaatccatc agatggtaat tgtatttttt caaaatagaa
     2041 aaagctgcgt ttttctgctt tggtgacaaa cccttagttg agtatttatt accgctagtt
     2101 ctacgatata tgctgtaaac actgcttaaa aaagtacgct cccaaacagt cagaacctca
     2161 ttctttttta gtgaatcatg cagcattagc ctgtctacat ttttaaaaag tttatcttca
     2221 gcattcatca tccattacct tcgtctgcac cgttcttcca ttggtgtcat aactgatctt
     2281 taactcaatt ttctttcttc tttcgtaaat tgatggccag tctccccgtg caaaaagaaa
     2341 ggggttagct tcaagttccc cacgccctgc ccggaagaat atttgtttat ctacaagagc
     2401 cgcaattatg tttttaaagg tctgatattc aatatgaacc ctgggctgta tggttttttc
//
