LOCUS       CP056996                2460 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB41-C07 plasmid pRHB41-C07_6, complete
            sequence.
ACCESSION   CP056996
VERSION     CP056996.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148423
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-C07
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 172.215747785786x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 03:31:04
            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)       :: 119 of 264
            Pseudo Genes (incomplete)         :: 123 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="RHB41-C07"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB41-C07_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(2072..2460,1..628)
                     /locus_tag="HV006_22215"
     CDS             join(2072..2460,1..628)
                     /locus_tag="HV006_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="QMB26680.1"
                     /translation="MRSPDWLDVRQNEGVSMANYAIMRCKKLTGMGSVASALQHCYRER
                     ETPNADAERTPENYCSVSQSADEAMGKLRELLPEKRRKDAVLAVEYVMTASPEWWNEAT
                     PRQQAEFFARSEQWLEKKYGKDRVVAAVVHRDEATPHLSAFVVPLTQDGRLSAKEFIGG
                     RSKMREDQSTYAESVKKLGLERGIEGSRATHQTVQHYYESINRGTRSQVSISPEALEPR
                     VLRKGIFTKDVEDQAAIAKRLSHAVNDGFAGTIAMASQSAQNAKRARELQKTMDAQQKR
                     LQSVTEPFKGLSREQMTEILMMAQRFKQKNQEKEKQQRIEREKQRQTRSRGMGGMER"
                     /name="plasmid recombination protein"
     gene            complement(727..957)
                     /locus_tag="HV006_22220"
     CDS             complement(727..957)
                     /locus_tag="HV006_22220"
                     /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="QMB26681.1"
                     /translation="MMNAEDKLFKNVDRLMLHDSLKKNEVLTVWERTFLSSVYSIYRRT
                     SGNKYSTKGLSPKQKNAAFSILKKYNYHLMD"
                     /name="hypothetical protein"
     gene            complement(944..1447)
                     /locus_tag="HV006_22225"
     CDS             complement(944..1447)
                     /locus_tag="HV006_22225"
                     /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="QMB26682.1"
                     /translation="MAKRGAGVNTKKISRLERHTYMDENGEVKQDSKIETFSIPAEPPY
                     VKLYIADIAMIHGLSKSQNDVLLQLAMLIGWDGFVSVSKTRFEKTIQPRVHIEYQTFKN
                     IIAALVDKQIFFRAGRGELEANPFLFARGDWPSIYERRKKIELKISYDTNGRTVQTKVM
                     DDEC"
                     /name="hypothetical protein"
     Typing          3..625
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.154"
                     /coverage="99.0"
                     /evalue="2.14e-117"
     Typing          2073..2458
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.45"
                     /coverage="99.0"
                     /evalue="9.25e-83"
ORIGIN
        1 ggcggtggtt caccgggacg aggccacccc gcacctgtct gcgttcgtgg tgccattgac
       61 gcaggatgga cggctgtccg cgaaagagtt tattggcggg cggtcaaaga tgcgtgaaga
      121 tcagagcacc tacgctgaat cagtaaaaaa actgggtctt gagcgcggca tcgagggaag
      181 ccgcgccacg catcagacag ttcagcacta ctacgaatcg ataaaccgtg gcacccgtag
      241 ccaggtatcg atctcgccgg aggcgctgga gccgcgtgta ttgcggaagg gcattttcac
      301 caaagacgtg gaagatcagg cagccatagc caaacgtcta agccacgcag tgaacgatgg
      361 ctttgcagga accatcgcta tggcctctca gagcgcccag aacgcaaaaa gagcgcgtga
      421 gctacagaag actatggatg cgcagcagaa acgcctacag agcgttacag agccttttaa
      481 ggggctttcc agagagcaga tgaccgaaat cctgatgatg gctcagcggt ttaagcagaa
      541 aaaccaggaa aaggaaaaac agcagcgtat tgaacgtgaa aaacagcgac agacgcgatc
      601 gcgtggcatg ggtggtatgg agcgttagtt ttgatgcgat gcaggatagg gctaacgccg
      661 caaagtgacg tcatttgcgg cattccagag atcaggttct gccgccctgt ataacgctga
      721 ggccagctaa tccatcagat ggtaattgta ttttttcaaa atagaaaaag ctgcgttttt
      781 ctgctttggt gacaaaccct tagttgagta tttattaccg ctagttctac gatatatgct
      841 gtaaacactg cttaaaaaag tacgctccca aacagtcaga acctcattct tttttagtga
      901 atcatgcagc attagcctgt ctacattttt aaaaagttta tcttcagcat tcatcatcca
      961 ttaccttcgt ctgcaccgtt cttccattgg tgtcataact gatctttaac tcaattttct
     1021 ttcttctttc gtaaattgat ggccagtctc cccgtgcaaa aagaaagggg ttagcttcaa
     1081 gttccccacg ccctgcccgg aagaatattt gtttatctac aagagccgca attatgtttt
     1141 taaaggtctg atattcaata tgaaccctgg gctgtatggt tttttcaaat ctagtttttg
     1201 atacagacac aaacccatcc catccaatca gcattgccaa ttgtaaaagc acatcatttt
     1261 gagattttga taaaccatga atcatcgcaa tgtctgcaat gtatagcttg acgtagggag
     1321 gttcggctgg gatggaaaag gtctcgatct tagagtcttg ttttacctca ccgttttcat
     1381 ccatgtatgt atgccgttca agcctagaaa tctttttcgt attcactcca gccccacgtt
     1441 tcgccatgat ttagtactcg catttaagta ctaaagagac atacagtcaa gtcctttgca
     1501 tcaagtacga ttagtacttg aggtgagtac gattagtcct tgaggtgagt acgattagta
     1561 cttgaggtga gtacgattag tccttgaggt gagtacgatt cttcgctcta gcccttggta
     1621 caagcgggtt cccatatcta tatctatata ttaagaggga aaataaaggc tgaaaaacgc
     1681 catttttaaa catcgaaaaa cgagcttttt tgagtctgga gcgtacggat ttctatgtcc
     1741 ggggagtgga aattccgctt cctcgaacgg acagactcgc ggcgatgccg ctccctaatc
     1801 cgttcttgcg gcgagcggtt cctgctcttt caaaaacgat attcattgcc tgatttcgtc
     1861 aggggcgagc gaagcgagtg ccatttaccc ttgacgactc accggataaa acaggcttgg
     1921 cagtggtggg gggtggcgcg gagcgacgcc ttccacctgc cagactgccg ttgattttga
     1981 ccttctggca gcttgctgcc cgaacgattt tgcgtagcaa agtctagtga gtacactatc
     2041 atcctgatag tggcccgccg gaggcatcgc aatgcgatcc cccgactggc tggatgtacg
     2101 ccagaacgag ggggtaagca tggcgaatta cgcgataatg cgctgcaaaa agctgacggg
     2161 aatgggcagt gtggccagcg ctttgcagca ctgctacagg gagcgtgaga cgccgaatgc
     2221 tgacgctgaa cggacaccag aaaactactg ctctgtgtct cagtcggcag atgaggcgat
     2281 gggaaagctg cgggagctgt tgccggaaaa acgccgtaaa gatgcggtac tggctgttga
     2341 atacgttatg acggcaagcc ctgagtggtg gaacgaggcc acaccgcggc agcaggcgga
     2401 gtttttcgcc cgctctgagc aatggctgga gaagaaatac gggaaggatc gtgttgtggc
//
