LOCUS       CP057049                4671 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB39-C21 plasmid pRHB39-C21_5, complete
            sequence.
ACCESSION   CP057049
VERSION     CP057049.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148404
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                     :: RH09 T3-C21
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 171.658932174394x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 05:17:06
            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)                     :: 5,048
            CDSs (total)                      :: 4,925
            Genes (coding)                    :: 4,762
            CDSs (with protein)               :: 4,762
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 163
            CDSs (without protein)            :: 163
            Pseudo Genes (ambiguous residues) :: 0 of 163
            Pseudo Genes (frameshifted)       :: 54 of 163
            Pseudo Genes (incomplete)         :: 104 of 163
            Pseudo Genes (internal stop)      :: 30 of 163
            Pseudo Genes (multiple problems)  :: 21 of 163
            ##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="RHB39-C21"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB39-C21_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(688..879)
                     /locus_tag="HVZ87_25215"
     CDS             complement(688..879)
                     /locus_tag="HVZ87_25215"
                     /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="QMC09353.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1710..2138)
                     /gene="exc2"
                     /locus_tag="HVZ87_25220"
     CDS             complement(1710..2138)
                     /gene="exc2"
                     /locus_tag="HVZ87_25220"
                     /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="QMC09354.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="exc2"
     gene            complement(2219..2656)
                     /locus_tag="HVZ87_25225"
     CDS             complement(2219..2656)
                     /locus_tag="HVZ87_25225"
                     /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="QMC09355.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     gene            2910..3668
                     /locus_tag="HVZ87_25230"
     CDS             2910..3668
                     /locus_tag="HVZ87_25230"
                     /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="QMC09356.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            3751..4230
                     /locus_tag="HVZ87_25235"
     CDS             3751..4230
                     /locus_tag="HVZ87_25235"
                     /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="QMC09357.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            4242..4373
                     /locus_tag="HVZ87_25240"
     CDS             4242..4373
                     /locus_tag="HVZ87_25240"
                     /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="QMC09358.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     Typing          complement(2..522)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.084"
                     /coverage="95.0"
                     /evalue="0.0"
ORIGIN
        1 taccggataa ggcgcagcgg tcgggctgaa cggggggttc gtgcacacag cccagcttgg
       61 agcgaacgac ctacaccaag ccgagatacc aacagcgtga gctatgagaa agcgccacgc
      121 ttcccgaagg gagaaaggcg gacaggtatc cggtaagtgg cagggtcgga acaggagagc
      181 gcacgaggga gcttccaggg ggaaacgcct ggtatcttta tagtcctgtc gggtttcgcc
      241 acctctgact tgagcgtcaa tttttgtgat gctcgtcagg ggggcggagc ctatggaaaa
      301 acgccagcgg cgcggccttt tgccctggtt ttgccttttt gctcacatgt tctttccggc
      361 attatcccct gattctgtgg ataactgtat tacagctttt gagtgagtag acaccgctcg
      421 ccgcagccga acgaccgagc gtagcgagtc agtgagcgag gaagcggaag agcgcctata
      481 ctggcatttt ctccttacgc atctgtgcgg catttcacac cggacatgcc gcatgattaa
      541 gccagtatac actccgctat cgctacgtga ctgggtcatg gctgcgcccc gacacccgct
      601 aaaacccgct gacgcgccct gacgggcttg tctgctcccg gcattcgctc acagacaagc
      661 tgtgaccgtc tccgggagct gcatatgtca gagggtttca ccgtcatccc cgaaacgtgc
      721 gaggcaactg cggtaaagct catcggcgtg gtcgtgaagc gattcacaga tgtctgcctg
      781 ttcatccgcg tccagttcgt tgagcttctc cagcagggtt aatgtctggc ttctgatgaa
      841 gcgggccatg ttcagggcgg ttttttcctg tttggtcact ggtctgatgt ctccgtgtaa
      901 gggaatttct gttcatggga gcatgataac tgtgacgcag gcgagagtga taaagctgag
      961 tgagcggtta gtcaggggcg caaacattcg aacgcggcca gtgcgatgca ggatagggaa
     1021 aacgccgtaa aacgacgtcc ctttcggcaa tagcaatatc atggcacagc atatcaactg
     1081 ataaataatc cctgtgcagt acagccgctg ttgcataaaa tcgcgctctg cggcgagtgt
     1141 tttttaatca gatattccgc tgatactccg gaaaaacgcg agtctgttct catgtctgaa
     1201 atgtccacac cccacgcaaa accaactttt tgctgatttt ctttttaaat catgttgtta
     1261 tggttttaaa aatgtatttt cttattcaga tttatacaaa agcacgtcgt cgacgaccct
     1321 atggcgacgc tatgacgacc ctgcttaggg tcagtactga ctatctgtag aaaaaacagt
     1381 taattaatgt aggggcgccc ctaggggcgc gtcgcctttt tttacataac acccctgggg
     1441 gcgctgccag gggtgtctgc ccggatatgt agcaatgagc cagggattca cgaactgaaa
     1501 atgtccgaaa atgtgcctca tgggcaccgt atgcgcccaa acagatcgct attcagtttc
     1561 gtgcatagtc atgcaacgcc ctgaaaacga tcctgacgca tttttccggt tttcctgggg
     1621 gtaaacattt ctttttgctg tgcctgcgtc agaatcgcgc tcaacgcgtt ttaatggtgc
     1681 gtacaattaa gggattatgg taaatccact tactgtcttc cctcgtagcc atcgagataa
     1741 atcgcagaaa tcgtgtcagc cagcagcttc attttttccg gtgatggcat atcactgttc
     1801 gtgtattttc tgcccgcaaa ggtggttgtg gttctcagtg actgaaggaa ttcttcagag
     1861 tggaattctt ttatgcgttg ctgtgccgtt tctgctgata ctccggctgc tttgtctttc
     1921 acccccatct ccctgaactg ctgaaagaac ggaatcatca tccgtgtggt gtcagctttc
     1981 ttggtgtaga agttaggatc gaacccatca tctgaagcat aaacataatg ccgggtatgt
     2041 tgttccaggc tggtttttgg ggtacaggct gtgagggctg ctgacacagt tatcagggcg
     2101 ctaagataca tatagcgtgt gccgccagaa cgtttcatgc gagtctcctt accttaatgt
     2161 atttattttc ggtgagttat tatcagaaga ctatcttatc atcagtctct gacagcgttc
     2221 agcgaccaaa caaccgggac cagaatcccc gtttcctttc ctgctccagc gcctgcctga
     2281 gctgggctat ctcattctgt agttgttccc gttctgcttc ctggcgccgg cgctccgtat
     2341 cctgggcttg tttatcctca agcatcagcg tcaggcattg tttcagctcg ttcagctccc
     2401 ggagaatgcg ttctgtctgc tgatcatgag gtttttctgc ctgtcccgct gtgtgccttt
     2461 ctggtgtctc attccgcttt aattcgccgt atgcccggat cagttcacta gtttcaaact
     2521 cccgtcgtcc gtcctggctt gtacggtaac tgacaaggcc tgcgcgcata tcacggtaaa
     2581 actgtgaacg cgatctgccc gtcattttca gtgcgtcccg gagtgtgtgc catgccataa
     2641 agtgacagtg tcccataggt gtctcatctc atggtctcag taaaacatac tgaggccgga
     2701 gaacggtaat gtttgtgctg gtttttgtgg catctggcgg ggatggcaca tggtgtgagt
     2761 ggctgttttt ttgaccgttt tcacaaaaat gaaaatccac agggttgaca gggaaaacgc
     2821 agcggcgtaa ttttaaactg tatataaaac cagtggttat atatacagtt gtattgatcg
     2881 ttgttttaaa tgtcaaagag gaaattaaga tgagtggtat tgaaaattct aatcaaggtc
     2941 cggggtggca tgatcacaat actccctatg gaacaattca tagttatgat ggggacagcc
     3001 atagcggtta tggtgctcat tctggtggta atgggggaaa tcgccatgaa ggtatttctg
     3061 ataagacaca tattagtata ccatctacca gaaactataa tggctactat atgagcatgt
     3121 gtgttaataa tttaaaagcc catgaggggt tcaaaaacac catgtataag gatagcgaag
     3181 gtaatattac tgttggtatt ggtcatttgc tatctacgcc agatatggcg gcatctctcc
     3241 cttttacaag aactcataca tggcatggtc atggtgatga tatggaaaaa gaagttgcag
     3301 catcaaaaaa agaaataacc gatgctttta ataactttaa aaaagactct agacaagtac
     3361 caatgaactt gcatttatca aatgatgctg ttattggatt atgtatttcc gatgttcaga
     3421 ctacagagaa aggcttgcgt tctttatatt ctggttatga tggtttttct aactctagaa
     3481 aaactgcctt agtggatatg ggatttaact taggaattcc taagctatcg agaaactttc
     3541 cgaactttaa tgctgctgtg aaccgtgggg attgggagtc tgcagcacgt gaaagccatc
     3601 gaaatcttca tcaacgaggc gatcagagaa acaaggatac agcagatcag ttgcgggata
     3661 aacattaata gaccataaca tatagatatg agatgtattt catcttatat taaagatgaa
     3721 atacatcaac ctataatggg aatggattat atgatcaagc ggttattatt cttatatgtt
     3781 gctttattgt tcttatcaga aggtgcttat gcatctgtaa cagtattcat tgctccaagt
     3841 tgggaaagga atacagattc agttaatgag atatataaat atattgatga tataaatagt
     3901 aataaccatg tcatcgatca agcatatgta gaacctatta ggaaggagtt aggggtatat
     3961 cgagattata tccagaaaaa actaattaac tttaatggga agggagtttg taaattatcg
     4021 ataacaacag gaagtacagg tgttaaagat attgagcctc cagatgttgt tttgttaaac
     4081 tcattggcgg aaaactcatc attagactgt aaaaaactgt atagagaaat acaaagtatt
     4141 gttgataacg atccgtcact tttatttcct gagaaaataa agtcaaatgg tttgttatca
     4201 attgatatga tcattgttat ggggagataa aatacaattc tatgcgtggt ttggtttttt
     4261 gtgcgctaat tttaatattg cccggctgtc aggcaaatta tatcagggat gttcaaggag
     4321 ggactgttgc gccatcttct agctcagcag ctactggaat cgaaattagg taaaaagatt
     4381 aaaggatctt cttgagatcc tttttttcta cgcgtaatct gctgcctgta aacgaaaaaa
     4441 cccacgttct caggcgtggg ttctttcgaa ggttagaagt ttctcaggct ttctaacccg
     4501 aggtaacagg gtgtacaaga ccgctgccac caaatctgtc ctttcagtgt agccgcagtc
     4561 ggtccttcac ttcaagaact acgtatcagc aatttcttgt acatcctcta ccagtggctg
     4621 ctgccagtgg cgttaagtcg tgtcttaccg ggttggactc aagacgatag t
//
