LOCUS       CP056926                2063 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB42-C22 plasmid pRHB42-C22_6, complete
            sequence.
ACCESSION   CP056926
VERSION     CP056926.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148440
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2063)
  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 2063)
  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                     :: RH12 T3-C22
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 144.484403346878x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 04:59:14
            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)                     :: 4,864
            CDSs (total)                      :: 4,750
            Genes (coding)                    :: 4,646
            CDSs (with protein)               :: 4,646
            Genes (RNA)                       :: 114
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 104
            CDSs (without protein)            :: 104
            Pseudo Genes (ambiguous residues) :: 0 of 104
            Pseudo Genes (frameshifted)       :: 45 of 104
            Pseudo Genes (incomplete)         :: 58 of 104
            Pseudo Genes (internal stop)      :: 21 of 104
            Pseudo Genes (multiple problems)  :: 17 of 104
            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..2063
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB42-C22"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB42-C22_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(1986..2063,1..912)
                     /locus_tag="HV023_24305"
     CDS             join(1986..2063,1..912)
                     /locus_tag="HV023_24305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020240588.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="QMA68003.1"
                     /translation="MQNPKLQYLTDYSPSDAPWDAHRSVSDDVGGIYLLAAEYEHYGAR
                     MASCGGLLRFGWSTLKETGETRLRLREAHFCRVRHCPVCQWRRSLMWQARFYQSLPRIV
                     ADYPDARWMFLTLTVRNCAIGELGEMLNRMNAAFQRMKVRKEFLPVQGWIRTTEVTRGS
                     DGSAHPHFHTLMMAPPGMLNGKSYVRHERWVELWRECLRVDYDPNVDVRAVKPRKPKDG
                     ESLACATAELVRGAVAETLKYSTKPADMVADPEWFLELTRQTHKRRFVATGGALKDVLK
                     LDQETDADMVIGDDISEGDDDGSRIAFEWKTEVRKYRRSPTKDKTESD"
                     /name="protein rep"
     gene            193..912
                     /locus_tag="HV023_24310"
     CDS             193..912
                     /locus_tag="HV023_24310"
                     /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="protein rep"
                     /protein_id="QMA68002.1"
                     /translation="MWQARFYQSLPRIVADYPDARWMFLTLTVRNCAIGELGEMLNRMN
                     AAFQRMKVRKEFLPVQGWIRTTEVTRGSDGSAHPHFHTLMMAPPGMLNGKSYVRHERWV
                     ELWRECLRVDYDPNVDVRAVKPRKPKDGESLACATAELVRGAVAETLKYSTKPADMVAD
                     PEWFLELTRQTHKRRFVATGGALKDVLKLDQETDADMVIGDDISEGDDDGSRIAFEWKT
                     EVRKYRRSPTKDKTESD"
                     /name="protein rep"
     Typing          916..1002
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.182"
                     /coverage="96.0"
                     /evalue="9.44e-28"
     Typing          complement(1333..1414)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.976"
                     /coverage="96.0"
                     /evalue="3.4000000000000004e-27"
     Typing          complement(639..830)
                     /name="ColpVC"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.446"
                     /coverage="100.0"
                     /evalue="2.86e-91"
ORIGIN
        1 gacgacgtgg gagggattta cctgcttgcg gccgaatatg agcactacgg ggctcgtatg
       61 gcttcctgtg gcggtttact gcgtttcggg tggtctaccc tcaaggaaac cggagaaacg
      121 cgtctgaggc tgcgtgaggc acatttctgc cgtgtccggc actgtcctgt ctgccagtgg
      181 aggcgctccc tgatgtggca agcccgtttc taccagtccc tgccgcgtat cgtggcggat
      241 tatcccgatg cccgctggat gttcctgacc ctgaccgtgc gcaactgtgc gattggggaa
      301 ctgggcgaga tgctgaaccg gatgaatgca gcttttcagc gtatgaaggt tcgcaaggag
      361 ttcctgcctg ttcagggctg gatccgcaca acggaagtta cccgcggcag cgacggcagc
      421 gcacacccgc acttccatac cttgatgatg gctcctcctg gcatgctaaa tgggaaaagt
      481 tacgtcaggc atgaacgctg ggttgagcta tggcgggagt gcctgcgggt tgattatgac
      541 ccgaatgttg atgtccgggc agtgaaaccc cgcaagccga aggatggcga gtccttagcc
      601 tgcgcgaccg ctgaactggt gcgcggcgca gtggccgaaa ccctgaaata ttccacgaag
      661 ccggctgaca tggtggccga tcctgaatgg ttcctcgaac tgactcgcca gacgcacaag
      721 cgccgctttg tggcgaccgg cggcgcactc aaagatgtgc tgaaactcga tcaggaaacc
      781 gacgccgaca tggtgatcgg agatgatatt tccgagggcg acgatgacgg ttcacgcatc
      841 gcgttcgaat ggaaaaccga ggtcagaaag taccgccgct caccgacgaa agataaaact
      901 gaatcagact agcagggtgt cggggcgcag ccctgaccag gtggtaattg tgatagcgtc
      961 gcgtgtgacg gtattacaat tacacatcct gtcccgattt tttcgccaga acgctggcag
     1021 agcatcggca gttctgcgcc gttaacccct ccgcaggagc gcacagtttc ccgacgaagg
     1081 agagaaacta ctaagtgcgc atccacactt aacgcgcgga tgatttttgg caccgcagcc
     1141 accacagcta cgcaaaaatt tcggcgaacg gacagcaaat cattttgccg tttttgtgcc
     1201 gcagccgttc cgcgcgatcg acaaactggc agtcggggaa tctcacgaag tgcgcactta
     1261 tacaaacttc acttcgtttc gtttgtcgtg cggtctgcga cgctcaaaaa ccgagaaacg
     1321 gcgggaattt tcgggacagg atgtgtaatt gtaataccgt cacacgcgac gctatcacaa
     1381 ttaccacctg gtcagggctg cgccccgaca ccccgccaac gcctcacggc ccgcgaaaaa
     1441 attccgcgta ccgctcaccg ttcccgaact cgtcaaacag aaaatcgcgg ggccccgcgc
     1501 ctctggcgtg ggttccgatt ttgtgattga cgacggcacg gggaaaacac tggggatggt
     1561 ggttggtgtc acggagtgag gccaaccacc tgcaagacgg ttttttgttg ttcacaaaat
     1621 cggggtgaaa gtctgtggat gagatgggtg taagtgggtg gggttgggag gtttttggtt
     1681 actgaaaatc cagctcaaaa ttcaagcaaa tctcgcgcgt gatccttgta tttatactta
     1741 agggataact ctaggattca aattcgcctc cagcccttgt gccgcaaggc ctgagggggg
     1801 atttgtcgga aaatggtttt ggagttattc tgtcgggagt ggttgcgtta aaagtgaccc
     1861 ccgcaacgac gggcatcgtt cgggggtgtg accacctgca gaaactggat tcatgatgag
     1921 agcaacaggt gatatggcaa tgataacacg tcaatcgagc catcgcccag tatggggcgg
     1981 tgtgcatgca aaaccctaaa ctccagtacc tcactgatta ttccccctct gatgcgccct
     2041 gggacgcaca cagaagcgtt tct
//
