LOCUS       CP057573                4671 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB22-C23 plasmid pRHB22-C23_4, complete
            sequence.
ACCESSION   CP057573
VERSION     CP057573.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148207
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4671)
  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 4671)
  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                     :: RH07 T2-C23
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 149.37371415267x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 10:09:06
            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)                     :: 4,960
            CDSs (total)                      :: 4,837
            Genes (coding)                    :: 4,696
            CDSs (with protein)               :: 4,696
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 141
            CDSs (without protein)            :: 141
            Pseudo Genes (ambiguous residues) :: 0 of 141
            Pseudo Genes (frameshifted)       :: 50 of 141
            Pseudo Genes (incomplete)         :: 81 of 141
            Pseudo Genes (internal stop)      :: 36 of 141
            Pseudo Genes (multiple problems)  :: 23 of 141
            ##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..4671
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB22-C23"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB22-C23_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(4522..4671,1..279))
                     /gene="exc2"
                     /locus_tag="HVX90_24775"
     CDS             complement(join(4522..4671,1..279))
                     /gene="exc2"
                     /locus_tag="HVX90_24775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000830439.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="QMJ81671.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="exc2"
     gene            complement(360..797)
                     /locus_tag="HVX90_24780"
     CDS             complement(360..797)
                     /locus_tag="HVX90_24780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001405929.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="entry exclusion protein 1"
                     /protein_id="QMJ81666.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     gene            1051..1809
                     /locus_tag="HVX90_24785"
     CDS             1051..1809
                     /locus_tag="HVX90_24785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001555316.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMJ81667.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            1892..2371
                     /locus_tag="HVX90_24790"
     CDS             1892..2371
                     /locus_tag="HVX90_24790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001485345.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMJ81668.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            2383..2514
                     /locus_tag="HVX90_24795"
     CDS             2383..2514
                     /locus_tag="HVX90_24795"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001368419.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="QMJ81669.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(3500..3691)
                     /locus_tag="HVX90_24800"
     CDS             complement(3500..3691)
                     /locus_tag="HVX90_24800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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="QMJ81670.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2787..3334)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gtggaattct tttatgcgtt gctgtgccgt ttctgctgat actccggctg ctttgtcttt
       61 cacccccatc tccctgaact gctgaaagaa cggaatcatc atccgtgtgg tgtcagcttt
      121 cttggtgtag aagttaggat cgaacccatc atctgaagca taaacataat gccgggtatg
      181 ttgttccagg ctggtttttg gggtacaggc tgtgagggct gctgacacag ttatcagggc
      241 gctaagatac atatagcgtg tgccgccaga acgtttcatg cgagtctcct taccttaatg
      301 tatttatttt cggtgagtta ttatcagaag actatcttat catcagtctc tgacagcgtt
      361 cagcgaccaa acaaccggga ccagaatccc cgtttccttt cctgctccag cgcctgcctg
      421 agctgggcta tctcattctg tagttgttcc cgttctgctt cctggcgccg gcgctccgta
      481 tcctgggctt gtttatcctc aagcatcagc gtcaggcatt gtttcagctc gttcagctcc
      541 cggagaatgc gttctgtctg ctgatcatga ggtttttctg cctgtcccgc tgtgtgcctt
      601 tctggtgtct cattccgctt taattcgccg tatgcccgga tcagttcact agtttcaaac
      661 tcccgtcgtc cgtcctggct tgtacggtaa ctgacaaggc ctgcgcgcat atcacggtaa
      721 aactgtgaac gcgatctgcc cgtcattttc agtgcgtccc ggagtgtgtg ccatgccata
      781 aagtgacagt gtcccatagg tgtctcatct catggtctca gtaaaacata ctgaggccgg
      841 agaacggtaa tgtttgtgct ggtttttgtg gcatctggcg gggatggcac atggtgtgag
      901 tggctgtttt tttgaccgtt ttcacaaaaa tgaaaatcca cagggttgac agggaaaacg
      961 cagcggcgta attttaaact gtatataaaa ccagtggtta tatatacagt tgtattgatc
     1021 gttgttttaa atgtcaaaga ggaaattaag atgagtggta ttgaaaattc taatcaaggt
     1081 ccggggtggc atgatcacaa tactccctat ggaacaattc atagttatga tggggacagc
     1141 catagcggtt atggtgctca ttctggtggt aatgggggaa atcgccatga aggtatttct
     1201 gataagacac atattagtat accatctacc agaaactata atggctacta tatgagcatg
     1261 tgtgttaata atttaaaagc ccatgagggg ttcaaaaaca ccatgtataa ggatagcgaa
     1321 ggtaatatta ctgttggtat tggtcatttg ctatctacgc cagatatggc ggcatctctc
     1381 ccttttacaa gaactcatac atggcatggt catggtgatg atatggaaaa agaagttgca
     1441 gcatcaaaaa aagaaataac cgatgctttt aataacttta aaaaagactc tagacaagta
     1501 ccaatgaact tgcatttatc aaatgatgct gttattggat tatgtatttc cgatgttcag
     1561 actacagaga aaggcttgcg ttctttatat tctggttatg atggtttttc taactctaga
     1621 aaaactgcct tagtggatat gggatttaac ttaggaattc ctaagctatc gagaaacttt
     1681 ccgaacttta atgctgctgt gaaccgtggg gattgggagt ctgcagcacg tgaaagccat
     1741 cgaaatcttc atcaacgagg cgatcagaga aacaaggata cagcagatca gttgcgggat
     1801 aaacattaat agaccataac atatagatat gagatgtatt tcatcttata ttaaagatga
     1861 aatacatcaa cctataatgg gaatggatta tatgatcaag cggttattat tcttatatgt
     1921 tgctttattg ttcttatcag aaggtgctta tgcatctgta acagtattca ttgctccaag
     1981 ttgggaaagg aatacagatt cagttaatga gatatataaa tatattgatg atataaatag
     2041 taataaccat gtcatcgatc aagcatatgt agaacctatt aggaaggagt taggggtata
     2101 tcgagattat atccagaaaa aactaattaa ctttaatggg aagggagttt gtaaattatc
     2161 gataacaaca ggaagtacag gtgttaaaga tattgagcct ccagatgttg ttttgttaaa
     2221 ctcattggcg gaaaactcat cattagactg taaaaaactg tatagagaaa tacaaagtat
     2281 tgttgataac gatccgtcac ttttatttcc tgagaaaata aagtcaaatg gtttgttatc
     2341 aattgatatg atcattgtta tggggagata aaatacaatt ctatgcgtgg tttggttttt
     2401 tgtgcgctaa ttttaatatt gcccggctgt caggcaaatt atatcaggga tgttcaagga
     2461 gggactgttg cgccatcttc tagctcagca gctactggaa tcgaaattag gtaaaaagat
     2521 taaaggatct tcttgagatc ctttttttct acgcgtaatc tgctgcctgt aaacgaaaaa
     2581 acccacgttc tcaggcgtgg gttctttcga aggttagaag tttctcaggc tttctaaccc
     2641 gaggtaacag ggtgtacaag accgctgcca ccaaatctgt cctttcagtg tagccgcagt
     2701 cggtccttca cttcaagaac tacgtatcag caatttcttg tacatcctct accagtggct
     2761 gctgccagtg gcgttaagtc gtgtcttacc gggttggact caagacgata gttaccggat
     2821 aaggcgcagc ggtcgggctg aacggggggt tcgtgcacac agcccagctt ggagcgaacg
     2881 acctacacca agccgagata ccaacagcgt gagctatgag aaagcgccac gcttcccgaa
     2941 gggagaaagg cggacaggta tccggtaagt ggcagggtcg gaacaggaga gcgcacgagg
     3001 gagcttccag ggggaaacgc ctggtatctt tatagtcctg tcgggtttcg ccacctctga
     3061 cttgagcgtc aatttttgtg atgctcgtca ggggggcgga gcctatggaa aaacgccagc
     3121 ggcgcggcct ttttccctgg ttttgccttt ttgctcacat gttctttccg gcattatccc
     3181 ctgattctgt ggataactgt attacagctt ttgagtgagt agacaccgct cgccgcagcc
     3241 gaacgaccga gcgtagcgag tcagtgagcg aggaagcgga agagcgccta tactggcatt
     3301 ttctccttac gcatctgtgc ggcatttcac accggacatg ccgcatgatt aagccagtat
     3361 acactccgct atcgctacgt gactgggtca tggctgcgcc ccgacacccg ctaaaacccg
     3421 ctgacgcgcc ctgacgggct tgtctgctcc cggcattcgc tcacagacaa gctgtgaccg
     3481 tctccgggag ctgcatatgt cagagggttt caccgtcatc cccgaaacgt gcgaggcaac
     3541 tgcggtaaag ctcatcggcg tggtcgtgaa gcgattcaca gatgtctgcc tgttcatccg
     3601 cgtccagttc gttgagcttc tccagcaggg ttaatgtctg gcttctgatg aagcgggcca
     3661 tgttcagggc ggttttttcc tgtttggtca ctggtctgat gtctccgtgt aagggaattt
     3721 ctgttcatgg gagcatgata actgtgacgc aggcgagagt gataaagctg agtgagcggt
     3781 tagtcagggg cgcaaacatt cgaacgcggc cagtgcgatg caggataggg aaaacgccgt
     3841 aaaacgacgt ccctttcggc aatagcaata tcatggcaca gcatatcaac tgataaataa
     3901 tccctgtgca gtacagccgc tgttgcataa aatcgcgctc tgcggcgagt gttttttaat
     3961 cagatattcc gctgatactc cggaaaaacg cgagtctgtt ctcatgtctg aaatgtccac
     4021 accccacgca aaaccaactt tttgctgatt tgctttttaa atcatgttgt tatggtttta
     4081 aaaatgtatt ttcttattca gatttataca aaagcacgtc gtcgacgacc ctatggcgac
     4141 gctatgacga ccctgcttag ggtcagtact gactatctgt agaaaaaaca gttaattaat
     4201 gtaggggcgc ccctaggggc gcgtcgcctt tttttacata acacccctgg gggcgctgcc
     4261 aggggtgtct gcccggatat gtagcaatga gccagggatt cacgaactga aaatgtccga
     4321 aaatgtgcct catgggcacc gtatgcgccc aaacagatcg ctattcagtt tcgtgcatag
     4381 tcatgcaacg ccctgaaaac gatcctgacg catttttccg gttttcctgg gggtaaacat
     4441 ttctttttgc tgtgcctgcg tcagaatcgc gctcaacgcg ttttaatggt gcgtacaatt
     4501 aagggattat ggtaaatcca cttactgtct tccctcgtag ccatcgagat aaatcgcaga
     4561 aatcgtgtca gccagcagct tcattttttc cggtgatggc atatcactgt tcgtgtattt
     4621 tctgcccgca aaggtggttg tggttctcag tgactgaagg aattcttcag a
//
