LOCUS       CP057648                4723 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB19-C13 plasmid pRHB19-C13_4, complete
            sequence.
ACCESSION   CP057648
VERSION     CP057648.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148168
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4723)
  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 4723)
  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                     :: RH14 T2-C13
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 69.2083224355877x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 10:47:08
            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)                     :: 5,129
            CDSs (total)                      :: 5,008
            Genes (coding)                    :: 4,873
            CDSs (with protein)               :: 4,873
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 135
            CDSs (without protein)            :: 135
            Pseudo Genes (ambiguous residues) :: 0 of 135
            Pseudo Genes (frameshifted)       :: 56 of 135
            Pseudo Genes (incomplete)         :: 58 of 135
            Pseudo Genes (internal stop)      :: 37 of 135
            Pseudo Genes (multiple problems)  :: 15 of 135
            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..4723
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB19-C13"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB19-C13_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(4575..4723,1..55))
                     /locus_tag="HVX51_25610"
     CDS             complement(join(4575..4723,1..55))
                     /locus_tag="HVX51_25610"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041634.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="QML13159.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQTHFEAQYGIGVEQP"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1323..1571)
                     /locus_tag="HVX51_25615"
     CDS             complement(1323..1571)
                     /locus_tag="HVX51_25615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000312658.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QML13154.1"
                     /translation="MAWYIDSKNVKKNEVEAANARYEKIWKPGEKPSFAGIYRCQSCGY
                     EDLINRQCTKLPPCSNCEKKGHKNNTWKLLVRAVDAE"
                     /name="hypothetical protein"
     gene            1730..1954
                     /locus_tag="HVX51_25620"
     CDS             1730..1954
                     /locus_tag="HVX51_25620"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000879771.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TraY domain-containing protein"
                     /protein_id="QML13155.1"
                     /translation="MLAIRLSAEIESRLDSLAKQTGRTKTFYAREAILAHLEDLEDYYL
                     SAETAARVRRGDEPVHSSEDVRKSLGLDD"
                     /name="TraY domain-containing protein"
     gene            1938..2204
                     /locus_tag="HVX51_25625"
     CDS             1938..2204
                     /locus_tag="HVX51_25625"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000262326.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="QML13156.1"
                     /translation="MVWTINYSDRALKSLRKMDKQNARRIVDFMDLRIAVAADPRQSGK
                     PLKGELGEFWRYRVGDYRILCEIRDDELVILAATIGHRREVYD"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(2417..2959)
                     /locus_tag="HVX51_25630"
     CDS             complement(2417..2959)
                     /locus_tag="HVX51_25630"
                     /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="QML13157.1"
                     /translation="MFFLGTQKAELIFKSANNLMNSTLLVDWLNLQKDAINNGLKFRRP
                     IRNNDLYIMALVYPVFLAVSKNHCGYRVFNTLSKLMTNEADFVDHTKTLSFIINYSTKN
                     ILSDPNSRDGHLCFTYTQSIVYSFVFATFDWPEDHIESIDDRQRYRKMVELFYSNTVNL
                     FHSAIMGNQHIFKLKTD"
                     /name="hypothetical protein"
     gene            complement(3214..3513)
                     /locus_tag="HVX51_25635"
     CDS             complement(3214..3513)
                     /locus_tag="HVX51_25635"
                     /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="QML13158.1"
                     /translation="MLDVDLKNILRQIATKSQVSISDLINQRLSSSIQDDDIFGVPPKH
                     LPPISAWDTSWEIPYPEELNEYYNQLDKLNLTINNLLLLKKYFLEQISETSKKI"
                     /name="hypothetical protein"
     Typing          183..263
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.024"
                     /coverage="89.0"
                     /evalue="5.72e-20"
     Typing          complement(3954..4444)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.048"
                     /coverage="90.0"
                     /evalue="4.9100000000000006e-163"
ORIGIN
        1 tctggctttt gatgaatcgc gccatgttaa gtgcggtttg ctgctgtttg ttcaccttct
       61 gtcgttctcc gttctgtctc tgtattcagc gtcatgtgat tatgccgtgt tccgttcttt
      121 gcctggacag tacgcgtttt tccggttgtt ttatgttcat ccgttccgtt catcacatcg
      181 tgggtgtcgg ggtaaagccc tgaccaggtt gttatcggat gaacgtgcgt gcgcggttat
      241 acgattacac atcctgtcca gttccgggga gggggtgtgt taccggcaga tgtacggccg
      301 ttttctgttg ttgcggttcc atcatccgac aacgttgtac agagcctctt ttgctccccc
      361 actgtgccat gtggggtttt ttattgcctg atgtcaggcc gttatccggc agttgttgcg
      421 gcggtgccgt ggcagatgtc gtttgtggag atggcggggt acagttgtac cccctgccgg
      481 actgttgcca ctaggacgac cgtatccggc tgcctgacac aggacaggat gtgtaattgt
      541 aataccgtca cacgtgacgc tattacaatt actccctgct cagggtttca ccccgatacc
      601 ccggcgtaac gccatgacgg ccagcgcaaa tttattcgct ttttctgaga gtcctgtagc
      661 ccgaaccagg accggatccg cgcctgaaat tcccctctcc tctgacctgc atttaccaca
      721 cctgtcgcaa aactgcgttt tgcatgattt atctttagaa tcagtgcatt aaaattattt
      781 caggtagcaa aatttacgtt tttccgccat acgcagcacc gcaacggtgc cggattgtgg
      841 ctggattggt gctgctttgt ggctggttac agtgctaatc cttattaatc atggacttaa
      901 taaacaacag gcaccgttac ggtgcctgtt gtggtgctgg attgtggctg gattttccct
      961 ttacggtgcc gcttacagtg cctgatttta tgggaggagt gctgcttacg gtgctgcggt
     1021 gctggatcca gcactgtgag gcaggcaccg ttagggtgct gcttctggtc accaggagga
     1081 accagaaaaa cgatgccggc ggaagaaaac tgccgaaaat aagcctcagg gacagcggac
     1141 gcgcccaaac cgatcgccat tcactttcat gcatagtcat gcaacgcgct gaaaacgatt
     1201 ctgacgcatt tttccggttt accccgggga aaacatccct ttttgcggtt tttgcgtcag
     1261 aatcgctctg agcgcgtttt agcggtgcgt acaataaggg attatgttca atccggcttt
     1321 tactattccg catcaaccgc tctcaccagc agtttccatg tgttgttttt atgccctttt
     1381 ttctcgcaat tgctacatgg tgggagcttg gtgcactggc ggttgattaa atcttcatac
     1441 ccacatgact gacagcgata gatacctgca aaagatggtt tttctcctgg tttccagatt
     1501 ttttcatatc ttgcatttgc ggcttcaact tcgttttttt tgacgttttt gctatcgata
     1561 taccatgcca ttatgtcgtt tccgtaaaag gctgcaggat gtttactcac tgaataactg
     1621 aggccttatg gcgctttttt caattctgtg cagattattt ttttgccttt cgatttaact
     1681 gttttatact tgctatacat gtatagcact ttgagatcag gaggtctgca tgttggctat
     1741 caggctgtct gctgaaattg agtcccgtct tgattcactg gcgaaacaaa ccggcagaac
     1801 aaagacgttc tatgcgcggg aagcgatact ggcacacctg gaagacctag aagattacta
     1861 tctttcagca gaaactgcgg cacgcgttcg ccgtggcgat gaacctgtgc attcgtctga
     1921 agatgtgagg aagtcacttg gtctggacga ttaactattc cgaccgggcg ctcaaatcgt
     1981 tacgtaagat ggacaagcag aacgcgcgtc ggattgtgga ctttatggat ttacgtattg
     2041 ctgttgccgc cgatcctcgt cagtcaggga agccgctcaa aggtgagctg ggggagttct
     2101 ggcgctatcg tgtgggggat tatcgcattc tgtgtgagat ccgggatgac gagctggtta
     2161 tccttgcggc caccataggc catcgccgtg aagtctacga ctgaagcccg ccatgcgggc
     2221 ttttcatgtg gttcgtacaa tactgatgtt atgtttaatg ctcgtgtctg caggaataaa
     2281 aaatccctac ctaccaattt ttgttattag tgtatacgtt gcagtgcgta taaagggctc
     2341 attttcccaa gcagagccct ttatagataa gattcttaag gtggagatga aagaattttt
     2401 gaatgtggta gttagattaa tctgttttta atttgaaaat atgttgattt cccatgattg
     2461 ctgagtgaaa taagtttact gtgttagaat aaaataactc gaccattttt cgataacgtt
     2521 gtcggtcatc aattgattca atatggtctt caggccaatc aaaagtagca aatacaaaac
     2581 tatatacaat agattgggtg taagtaaaac acaaatgacc atctcttgag tttggatcgg
     2641 aaagtatatt ttttgttgag taattaatga taaacgacaa tgtttttgtg tggtcaacaa
     2701 aatcagcttc atttgtcatc aatttgctta gtgtattaaa taccctatat ccacaatgat
     2761 tttttgatac agctaagaaa actggataaa caagagccat aatgtataaa tcgttatttc
     2821 ttatggggcg cctaaacttt aaaccgttat taatggcatc tttttgcaga ttaagccaat
     2881 ccactaagag tgttgagttc attaggttgt ttgctgattt aaaaatcagt tcggcttttt
     2941 gtgtacccaa aaaaaacatg taaacctcaa gttatatgtc ttgtgagttt ttgttgttaa
     3001 acattatttt ttgtatcttc tcatctattc ttattgcgaa tatatacgca ataagaataa
     3061 atacagtttt taaccatgta aaaatatcat ttgaaatatc tactattcca gatagcgatt
     3121 caatcataac tactagcacc cagaaagaaa ctgtagtcag aggtttatgc cagttgtcga
     3181 taatttcttc aaagagactt tgtttatcca tgattatatt ttttttgacg tttcactaat
     3241 ttgttctaag aagtatttct ttaatagcaa taagttattg atagttagat tcagtttatc
     3301 cagttgattg taatattcgt ttaattcttc tgggtaaggt atttcccaag aagtatccca
     3361 tgctgaaatg gggggtaagt gttttggtgg aacgccaaaa atatcatcgt cttgaattga
     3421 tgatgatagt ctttgattga ttaaatcgct tatactaact tgagattttg tggctatttg
     3481 tcgcaatatg ttttttagat caacatctaa cataatattc gttcgttctc tcatcttttt
     3541 actccaaact ctatattttg tttgaaagca ttatattgtg cgcatatcaa aacgcaatac
     3601 ctggatatga aaaaatgaca gcaggattgt tttttgtact atgttaggtg tcgtttagaa
     3661 ggagcccctt cggtgaaaaa gatcaaagga tcctcttgtg atcctttttt tctacgcgta
     3721 atctgctgcc tgtaaacgaa aaaaccgcct ggggaggcgg tttatcgaag gttaagtcag
     3781 ttggggactg cttaaccggg taactggctt cagcagagca cagataccaa atactgtcct
     3841 tctagtgtag ccagaatcag gctgatactt caagaactct gttaccaact gtgtaaacta
     3901 gctctgctaa tccggttacc aatggctgct gccagtggtg cttttgcatg tcttaccggg
     3961 ttggactcaa gatgatagtt accggataag gcgcagcggt cgggctgaac ggggggttcg
     4021 tgcacacagc ccagcttgga gcgaacgacc tacaccgggc cgagatacca acagcgtgag
     4081 ctatgagaaa gcgccacgct tcccgaaggg agaaaggcgg acaggtatcc ggtaagcggc
     4141 agggtcggaa caggagagcg cacgagggag cgattcactg gaaacggtga tgatctttaa
     4201 gtcctgtcgg gtttcgcctc cccctgattt gagcgtctgt ttttgtgatg ctcgtcaggg
     4261 gggcggagcc tatggaaaaa cggctttgcc gcggcctttt tcgtatgtgc tcttttgctc
     4321 acatgttctg tcttggttat cccccgattc tgtggataac ccgtctgcag ttatgagaga
     4381 gccgccaccg ctcgccgcag ccccagcgac cgaacgtagt gagcgagtgg gcgaggaagc
     4441 ggaatttctc cgcctgtctg ctttgagcac ttacgcgccc gtgtctttct caggtcatgg
     4501 cctgacgcgc cctgcgggct tgtctgctgg cgaaaacgct cacggacaag ccgcgaccgc
     4561 tttcgccagc gtctttatgg ttgttcaact ccaatgccgt actgcgcttc aaagtgcgtc
     4621 tgtatgctgt tctgcagttc ttccgccagt tcgtgcagcc gttcgcacat ggctgcctgt
     4681 tcgtcggcat cgagggcatc cagcttttca agcagtgtca gac
//
