LOCUS       CP056988                3305 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB41-C11 plasmid pRHB41-C11_4, complete
            sequence.
ACCESSION   CP056988
VERSION     CP056988.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148424
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3305)
  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 3305)
  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-C11
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 134.704823216905x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 04:10:52
            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)                     :: 5,228
            CDSs (total)                      :: 5,103
            Genes (coding)                    :: 4,846
            CDSs (with protein)               :: 4,846
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 257
            CDSs (without protein)            :: 257
            Pseudo Genes (ambiguous residues) :: 0 of 257
            Pseudo Genes (frameshifted)       :: 95 of 257
            Pseudo Genes (incomplete)         :: 143 of 257
            Pseudo Genes (internal stop)      :: 48 of 257
            Pseudo Genes (multiple problems)  :: 24 of 257
            CRISPR Arrays                     :: 1
            ##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..3305
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB41-C11"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB41-C11_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            282..704
                     /locus_tag="HV007_26100"
     CDS             282..704
                     /locus_tag="HV007_26100"
                     /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="QMB22600.1"
                     /translation="MKLKFIPIFLFIVTLQAAHSSGIGSTPPPQGKVIYTMNCTFVDDT
                     GKAIGKSQKYILRKGGDGREQMEITSQENAHVPPPIYIQKTSGAYTNGGFKTFYWNNTV
                     RMTVIRGDKTTVEIEFINSPAISIAKATCDNPVYLP"
                     /name="hypothetical protein"
     gene            complement(971..1501)
                     /locus_tag="HV007_26105"
     CDS             complement(971..1501)
                     /locus_tag="HV007_26105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000168766.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMB22601.1"
                     /translation="MASTEEKLLTLLLSAEHLKEAAKEQQKAVADSLAVARETLKGYRE
                     ISDSVAQQVRDEVRQEVQKMDVAGLIGERISADFQRLEKSVGNMKINADALDKEISIIR
                     SNIIAEYNTLRGYSWKWFAGVAVAFVVLIFATSWFVKTELQDNYNASAAVYQKVADLEK
                     LLTTEQKPEKKKN"
                     /name="hypothetical protein"
     gene            complement(1504..2439)
                     /locus_tag="HV007_26110"
     CDS             complement(1504..2439)
                     /locus_tag="HV007_26110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="QMB22602.1"
                     /translation="MATYHLSVKFGGKGKALAHASYITREDKFSQRQDLEHTEHGNMPE
                     WARDEPAHFWQAADAFERANGSTYREIEIALPRELNEAQRLALVRDFVKQETGDKHAWT
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERSPEQYFRRYNAKFPARGGARKDSGHNL
                     TPTEQKQALKALRERWERTHNAHMKRYGFEQGFIDSRSLKAQGIDRKPEQHLGFEAAGR
                     LDDSQRQDIKDSRTFSVVDVPEQAKHIDHSDRSWMNASGIEVNRKELVRSLTHDISQQY
                     GREMAARVTKQGNVEIERVKSLSRGFSISR"
                     /name="MobA/MobL family protein"
     gene            2606..2992
                     /locus_tag="HV007_26115"
     CDS             2606..2992
                     /locus_tag="HV007_26115"
                     /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="QMB22603.1"
                     /translation="MRISNVEWLKKRIAFIRKLGEKTARQRQIIDLLDDEASLSETDRQ
                     LLHVLATAEKNALQERDAAQKKAVQARISGQKNRRERNHKLFLAAGLMIDAGLVDTKTG
                     ELNFDHEKLLTALKRVRYDLETSA"
                     /name="hypothetical protein"
     Typing          complement(1508..2439)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.498"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gcaggataaa caggcaaacg gtggaaacgt aacttaaccg cgaaagagtt aagctctacc
       61 ccgtctcgca gtacgataac tggcacctga taaaatgagc gaacaaggca gcggtaagcg
      121 gtgaagtgtg attgctaagg tctgacactt cacccacaca atcaagcccc ttgcagggtg
      181 agagacacaa gaaacgagct ggacgaaggt cgctctgctc cccgtgattt ttatataccc
      241 accacggggg cattaggctt tttttgcaac ggagacacta cgtgaagcta aaattcatac
      301 ctattttttt atttatcgtt acgttacaag ccgctcattc cagtggaatt ggtagcacgc
      361 ccccccctca agggaaggtg atatacacaa tgaattgcac ttttgtcgat gataccggta
      421 aggctattgg taagtcgcaa aaatacatcc tgcgaaaggg gggggatggt cgtgagcaaa
      481 tggagataac ttcacaagaa aacgcacatg tccccccccc catatacata caaaaaacaa
      541 gtggtgctta caccaatggt gggttcaaaa ccttctactg gaacaataca gtacggatga
      601 ccgtgatcag gggcgataaa accactgtgg aaatagagtt tattaattcc cctgcgattt
      661 cgatagcgaa agccacatgc gacaatcctg tttatttacc ataacgcgtc attacgcgca
      721 ccgctgaaac gcgctcaggg cggttttacg tcctgagcca taaaaacccc cgtcttctca
      781 ccgaaaaccg ctcagaatcg cataccgtga ttttcagccc catgcataac catgcacctg
      841 actgactggc gagaacttcc ggcctgaatt caggccggaa gtctcaaaag acgccccaaa
      901 cccggctgaa aacggtgaac gggtgcgcaa tttattgtgc gaacgtgagg cgttggacaa
      961 gcgcagcgcg tcagttcttt ttcttttccg gtttctgttc cgttgtcagc agcttttcaa
     1021 ggtctgccac tttctgatag acggcagcag acgcgttgta attgtcctgt agttccgttt
     1081 tcacaaacca gcttgtggca aatatcagta cgacaaaggc aaccgcaacc cctgcaaacc
     1141 acttccagct gtaaccccgc agcgtgttgt actccgcgat gatattgctg cggataatgg
     1201 aaatttcctt gtccagcgcg tccgcattga ttttcatgtt cccgacggat ttttccagac
     1261 gctgaaaatc agcgctgata cgctcgccaa tcagccccgc aacatccatt ttctgcactt
     1321 cctgccggac ttcatcccgt acctgctgtg ccacactgtc tgatatttcc cggtagcctt
     1381 tcagggtttc ccttgccacc gccagcgaat ccgccacggc tttctgctgc tcttttgcgg
     1441 cctctttcag atgctccgcc gacagcagga gtgtgagaag tttttcttcg gtgctcgcca
     1501 tagttacctg cttatggaaa atccgcgtga cagggatttc acgcgctcta tttcaacatt
     1561 tccctgtttt gtgacccgtg cagccatctc ccgcccgtac tgctgcgaga tatcatgcgt
     1621 cagagatctg accagttcct tccggtttac ctcgataccg ctggcattca tccagctacg
     1681 gtcgctgtgg tcgatatgct tcgcctgttc aggcacatcc acgactgaaa acgtccggct
     1741 gtctttaata tcctgcctct ggctgtcgtc cagtcgtccg gctgcttcaa aaccgagatg
     1801 ctgttccggt ttccggtcga taccctgtgc tttcagtgac cggctatcaa taaaaccctg
     1861 ctcaaagcca tatcgtttca tatgcgcgtt gtgcgtacgc tcccagcgct cccgcagggc
     1921 tttcagtgcc tgtttttgtt ctgtaggggt taaattatgc cctgagtcct tgcgcgcgcc
     1981 gccacgcgcc ggaaatttgg cgttatagcg cctgaaatac tgttcgggac tgcgctcaat
     2041 accgtcattg acgcgctggc tcatcatgat atgggcgtgc ggctgttcgc cgccgtcaat
     2101 gctggctttc ggattgtgga tcgcaaacgt ccatgcatgt ttgtcgcccg tttcctgctt
     2161 cacaaaatcc cggacaagcg ccagccgctg cgcttcattc agctcgcggg ggagggcgat
     2221 ctcaatttcc ctgtacgttg aaccgttggc acgttcgaac gcatccgcag cctgccagaa
     2281 atgggcgggt tcatctctcg cccattccgg catgttgccg tgttcggtgt gctcgagatc
     2341 ctggcgctgg ctgaacttat cttcccgcgt gatgtaactg gcatgagcaa gggctttacc
     2401 cttgccgcca aatttcacgc tgagatgata cgttgccatg ttgtgtcagc ccccggcagg
     2461 gcgcactgtt tctgcccgca gggagaaaca tataagtgcg ctttactcta atttaaagaa
     2521 ttatgagtaa agctaagtca tgcgacttct aaccgcaagt tatatacttt ccccgtcgga
     2581 aatatcggga tggggaagtt aaacgatgcg gatcagtaac gtcgaatggc ttaaaaagcg
     2641 catagccttc atcagaaagc tgggagaaaa aacggcacgg caacggcaga ttatcgatct
     2701 gctggatgat gaagcttcgc tcagtgaaac tgacagacaa ctgctccacg ttctggcaac
     2761 cgctgaaaaa aacgcgttgc aggaacggga tgccgcacag aaaaaggcgg ttcaggcgcg
     2821 gatttcaggg cagaaaaacc gcagggaacg caatcacaaa ctatttctgg cggctggtct
     2881 gatgattgac gcgggactgg ttgatacaaa aacgggtgag ttgaattttg accacgaaaa
     2941 attactgact gcgctgaaac gggtacgcta cgatctggaa acatcggcgt gaacgtgcat
     3001 tctgcaaggg cggagaaatg ccgcttcctc gctcactgac tcgctacgct cggtcgttcg
     3061 gctgcggcga gcggtaggga ttttcggata ggagcatgaa ttttcttgct ccagatgtac
     3121 aaaagccccg tgacagaatc acagggcttc ggtactctaa ttcttcgcag atacctgcca
     3181 ggatcagacg tagcaatcca atcctagcag ggctggctag ccttgtcact accagcttaa
     3241 taccattcaa cgacattaaa ctcatatctg caccttagac gctcaggtct acgccccgga
     3301 ctccg
//
