LOCUS       CP057910                5428 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB10-C12 plasmid pRHB10-C12_5, complete
            sequence.
ACCESSION   CP057910
VERSION     CP057910.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148060
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5428)
  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 5428)
  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                     :: RH15 T1-C12
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 77.1239327585484x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 13:20:51
            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)                     :: 5,540
            CDSs (total)                      :: 5,417
            Genes (coding)                    :: 5,302
            CDSs (with protein)               :: 5,302
            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)              :: 115
            CDSs (without protein)            :: 115
            Pseudo Genes (ambiguous residues) :: 0 of 115
            Pseudo Genes (frameshifted)       :: 44 of 115
            Pseudo Genes (incomplete)         :: 62 of 115
            Pseudo Genes (internal stop)      :: 31 of 115
            Pseudo Genes (multiple problems)  :: 20 of 115
            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..5428
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB10-C12"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB10-C12_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(5404..5428,1..146))
                     /locus_tag="HVW43_27670"
     CDS             complement(join(5404..5428,1..146))
                     /locus_tag="HVW43_27670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005074609.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMO44079.1"
                     /translation="MSKAPIGTTASTGQKCPESGVWKVVGTPSTTAPIAKGNVMPPYNG
                     KAVTWKLTQYA"
                     /name="hypothetical protein"
     gene            complement(340..759)
                     /gene="exc2"
                     /locus_tag="HVW43_27675"
     CDS             complement(340..759)
                     /gene="exc2"
                     /locus_tag="HVW43_27675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016247941.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="QMO44073.1"
                     /translation="MRRTGNKLCLIAMITATVALTACTPKGSVEQHTRHYVYASDDGFD
                     PNFSTQKADTTRMMVPFFRQFWDMGAKDKATGKSRSDVQQRIQHFHSQEFLNSLRGTTQ
                     FAGTDYRSKDLTPKKSRLLADTISAVYLDGYEGRQ"
                     /name="exc2"
     gene            complement(840..1277)
                     /locus_tag="HVW43_27680"
     CDS             complement(840..1277)
                     /locus_tag="HVW43_27680"
                     /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="QMO44074.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGFVSYRTSQDGRR
                     EFETSELIRAYGELKQNETPERHSAGQAENPHDQPTERILRELNELKQCLTLMLEDKQA
                     QDMDRKRQEAEREQLQNEIAQLRQALELEKKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     gene            1536..2699
                     /gene="cna"
                     /locus_tag="HVW43_27685"
     CDS             1536..2699
                     /gene="cna"
                     /locus_tag="HVW43_27685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_032488335.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin colicin N"
                     /protein_id="QMO44075.1"
                     /translation="MGSNGADNAHNNAFGGGKNPGIGNTSGAGSNGSASSNRGNSNGWS
                     WSNKPHKNDGFHSDGSYHITFHGDNNSKPKPGGNSGNRGNNGDGASAKVGEITITPDNS
                     KPGRYISSNPEYSLLAKLIDAESIKGTEVYTFHTRKGQYVKVTVPDSNIDKMRVDYVNW
                     KGPKYNNKLVKRFVSQFLLFRKEEKEKNEKEALLKASELVSGMGDKLGEYLGVKYKNVA
                     KEVANDIKNFHGRNIRSYNEAMASLNKVLANPKMKVNKSDKDAIVNAWKQVNAKDMANK
                     IGNLGKAFKVADLAIKVEKIREKSIEGYNTGNWGPLLLEVESWIIGGVVAGVAISLFGA
                     VLSFLPISGLAVTALGVIGIMTISYLSSFIDANRVSNINNIISSVIR"
                     /name="cna"
     gene            complement(2708..3232)
                     /gene="cni"
                     /locus_tag="HVW43_27690"
     CDS             complement(2708..3232)
                     /gene="cni"
                     /locus_tag="HVW43_27690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_061352107.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin N immunity protein"
                     /protein_id="QMO44076.1"
                     /translation="MDIKDRNKISKKISFSLLLLLSPFALIFFSYNNAPIPLLEKIIAY
                     LSLPGFHSLNNPPLSEAFNLYVHTAPLAAISLFIFTHKELELKPKSSPLRALKILTPFT
                     ILYISMIYCFLLTDTELTLSSKTFVLMSKNDLFLSFFYITLYIGIYIFTYLYFWFLIGT
                     YKLFTRGGILP"
                     /name="cni"
     gene            3260..3397
                     /locus_tag="HVW43_27695"
     CDS             3260..3397
                     /locus_tag="HVW43_27695"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001329514.1"
                     /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="QMO44077.1"
                     /translation="MCGKILLILFFIMTLSACQVNHIRDVKGGTVAPSSSSRLTGVEIK
                     "
                     /name="colicin release lysis protein"
     gene            complement(4402..4596)
                     /locus_tag="HVW43_27700"
     CDS             complement(4402..4596)
                     /locus_tag="HVW43_27700"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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="QMO44078.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          4245..4329
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.837"
                     /coverage="100.0"
                     /evalue="1.41e-35"
     Typing          4633..4731
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.22e-45"
     Typing          4856..5111
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.512"
                     /coverage="89.0"
                     /evalue="1.21e-116"
     Typing          complement(3676..4221)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.526"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gttacggctt ttccgttata cggaggcatt acattgcctt tggcaattgg tgctgtagtt
       61 gaaggcgttc ctaccacttt ccaaacaccg ctttcagggc atttttgtcc ggttgaagct
      121 gttgtaccaa ttggggcttt agacatattg attcctcttg tatgttttat ccgtatgctt
      181 gtgtagcaat acttatttct ggtttagaaa tcagctttca agcgggctta aaggtcgttt
      241 tttcacagat gtgattgtgg tcatattttt aacaaagttg tatatgattt tggcgttgta
      301 agttttggtt ttgttataaa ggacttatgg aaaatcaact tactgcctgc cctcgtagcc
      361 atcgagataa acagccgaaa tggtgtcagc cagcagcctg gattttttcg gggtgaggtc
      421 tttgctgcgg taatcggtac ccgcaaattg tgttgtgcct cggagtgagt ttaaaaattc
      481 ctgactgtga aagtgctgaa tgcgttgctg cacatcactc cgtgattttc ctgtcgcttt
      541 atctttagct cccatatccc agaactgccg aaaaaaaggc accatcattc gtgttgtgtc
      601 ggccttctgg gtggaaaagt taggatcaaa accgtcatca gaagcatata cgtaatgccg
      661 ggtatgttgt tccacgctgc cctttggggt acaggctgtg agagctactg ttgctgttat
      721 catggcgata agacacagtt tgtttccggt acgtctcatg agtgtctccc taccttcaag
      781 tgtttattct cggtgagtta ttatccgaag actattttat catcagtctc tgacagcgtt
      841 cagcgaccga acagcctgga ccagaatccc cgtttctttt ccagttccag tgcctgcctg
      901 agctgggcta tctcattctg cagctgttcc cgttctgctt cctggcgttt gcgatccata
      961 tcctgtgcct gtttgtcctc aagcatcagc gtcaggcatt gtttcagctc attcagctcc
     1021 cggagaatgc gttctgtcgg ctgatcatgt ggattttctg cctgtcccgc actgtgcctt
     1081 tctggtgtct cattctgctt taattcgccg tatgcccgga tcagttcact ggtttcaaac
     1141 tcccgtcgtc cgtcttgact ggtacggtaa ctgacaaagc ctgcgcgcat atcacggtaa
     1201 aactgtgagc gcgatctgcc tgtcattttc agtgcgtcac ggagtgtgtg ccatgccata
     1261 aagtgacagt gtcccatagg tgtctcatct catggtttca gtaaaacata atgaggtctg
     1321 agaacggtaa tgtttgtgct ggtttttgtg gtatccggcg ggaatagcac gtggtgtggg
     1381 tggctgtttt tttgatcgtt ttcacaaaaa cgaaaattcc cagggttgac aggaaaaacg
     1441 cagcggcgta attttaaact gtatataaaa ccagtggtta tgtgtacagt gtttattttt
     1501 aacggtttgt tttaaaagtc aaagagggat ttattatggg tagtaatggc gcagataatg
     1561 cacataacaa tgcttttggt ggagggaaaa atccgggcat tggtaatacc agtggcgcag
     1621 gaagtaatgg tagtgcatca agtaaccgag gaaattccaa tggatggtca tggagtaata
     1681 agcctcataa aaatgatggc ttccacagtg atggttctta ccatattaca tttcatgggg
     1741 acaataattc aaagcctaaa cctggaggga atagtggaaa tcgaggtaat aacggtgatg
     1801 gagcgagtgc taaggttgga gagataacaa tcacacctga caactcgaaa ccaggtcgtt
     1861 atatttcgtc aaatcctgaa tattcattgt tggcaaaatt aattgatgcg gaatcaatta
     1921 aaggtacaga ggtatatact tttcacacca gaaaaggtca gtatgttaag gttactgttc
     1981 cagatagtaa tattgataaa atgagagttg attatgtgaa ctggaaggga ccgaaatata
     2041 acaataaact tgtgaagagg tttgtgagcc agtttttatt atttaggaag gaagaaaaag
     2101 aaaaaaatga aaaagaagcc ttgctaaagg ctagtgaact tgtgtctggt atgggggata
     2161 agcttggcga gtatcttgga gtaaaatata aaaatgtagc taaggaagtt gccaatgata
     2221 ttaaaaactt ccatggtcgt aatattcgta gctataatga agcaatggct tcacttaata
     2281 aagtgttagc aaatccaaag atgaaagtaa acaaatctga taaggatgcc attgtgaatg
     2341 cctggaaaca ggttaatgct aaggacatgg ctaataagat tggtaatctt ggcaaggcat
     2401 ttaaggttgc tgatttagct ataaaggttg agaaaattag ggaaaaaagc attgagggat
     2461 acaatactgg caactgggga cctctcctgt tggaggttga atcatggatc attggtggcg
     2521 ttgttgctgg agttgctatt agtttattcg gggctgtgtt gagttttctc ccaatctctg
     2581 gacttgcagt tactgcgttg ggggtaatag gaataatgac gattagttac ttgtcatctt
     2641 tcatagatgc aaatcgagtt tcgaatataa ataacattat atctagtgtt attcgatgat
     2701 attagtgtca ggggagtatt cctcccctgg taaatagctt atatgttcct ataaggaacc
     2761 aaaagtacaa atatgtgaat atatatatcc caatatatag tgttatatag aaaaaagaca
     2821 aaaacagatc gttttttgac attaatacaa atgtttttga tgacaaggtt agttctgtgt
     2881 cagttagcaa gaaacagtat atcatggata tataaagaat agtgaaagga gttaatatct
     2941 ttagtgcccg cagaggtgac gactttggtt ttaactctaa ttctttgtgt gtgaatatga
     3001 ataagctgat tgcagctaaa ggggctgtat gaacatagag attgaatgct tcgcttaggg
     3061 gcgggttgtt taatgaatga aatcctggta gggataggta tgcgatgatt ttttcgagga
     3121 gtggtattgg tgcattatta taactgaaaa atattaatgc gaatggggaa agtaagagca
     3181 gaagactgaa tgatattttt tttgatatct tatttctgtc ttttatatcc atgttgcttt
     3241 ctttggatgg ttgaaaatta tgtgtgggaa aattttatta atcttgtttt ttatcatgac
     3301 acttagtgca tgtcaggtca atcacatccg tgatgtgaaa ggagggactg ttgctccatc
     3361 atcatcatcc agactaacag gggttgaaat taagtaaaag atcaaaggat cctcttgaga
     3421 tccttttttt ctacgcgtaa tctgctgcct gtaaacgaaa aaaccgcctg gggaggcggt
     3481 ttagtcgaag gttaagtcag ttggggactg cttaaccgag gtaactggct tcagcagagc
     3541 gcagatacca aatactgtcc tttcagtgta gccgcagttg ggccatcact tcaagaactc
     3601 tgtaagcatc tggataaatc tcgctctgct aatccggtta ccagtggctg ctgccagtgg
     3661 cgttaaggcg tgtcttaccg ggttggactc aagacgatag ttaccggata aggcgcagcg
     3721 gtcgggctga acggggggtt cgtgcacaca gcccagcttg gagcgaacga cctacaccaa
     3781 gccgagatac caacagcgtg agctatgaga aagcgccacg cttcccgaag ggagaaaggc
     3841 ggacaggtat ccggtaagcg gcagggtcgg aacaggagag cgcacgaggg agcttccagg
     3901 gggaaacgcc tggtatcttt atagtcctgt cgggtttcgc cacctctgac ttgagtgtcg
     3961 gtttttgtga tgctcgtcag gggggcggag cctatggaaa aacgccatcg gcgcggcctt
     4021 tttccggttc ctggtttttt gctcacatgt tctttccggc cttatcccct gattctgtgg
     4081 ataaccgtat taccgtcttt gagtgagctg ataccgctcg ccgcagccga acgaccgagc
     4141 gcagcgagtc agtgagcgag gaagcggaag agcgcctgat gcggtatgtt ctccttacgc
     4201 atctgtgcgg catttcacac ccggcatggc gtgcttttca tacaatccgc actgatgccg
     4261 catagttaag ccagtataca ctccgctatc gctacgtgac tgggtcaggg cttcgccccg
     4321 acacccgctg acgcgccctg gcgggcttgt ctgctgccga aaacgctcgc ggacaagccg
     4381 tgagcgcctc cgtcagcttc gttatgttcc tgtttcactt tcggtctcaa agcgaacctg
     4441 gatgctgttc tggagttctt ccgcgagttc gtgcagtcgt tcgcacatgg ccgcctgttc
     4501 gtcggcatcc agagcatcca gtttttcaag cagtgtcagg ctctggcttt tgataaatcg
     4561 cgccatattc agcgcagttt gttgctgttt gttcaccttc cgttgttctc cgtcagtacc
     4621 gggtgtcggg tggaccctga ccaggtggta attgtaagac gttgcgggcg acggtattac
     4681 aattgcacat cctgtcctgt ttttttagga cgtatcatgg cacagcatat caactgataa
     4741 ataatccctg tgcagtgcag ccgctgttgc ataaaatttc gctctgcgtc gagtgtttct
     4801 taatcaataa ttccgctgat actccggaaa aacgcgagtc tgttctcatg cctgaaatgc
     4861 ccacacccca cgcaaaaaca attttttgct gatttttctt tataaataga gagttatgac
     4921 aaattagttc ttcttgctct ctttgtgata tttaaaaaag cggtgtcggc gcggtgttgt
     4981 agctgcgcca acaccgcttt ttaggggtgg tactgactat tttcataaaa aacatcattt
     5041 tatattaggg gtgctgctag cggcgcggtg tgttttttta caggacgccc ctgggggcgc
     5101 tgctaggggt gtctgttcag atatgtagca atgagtcagg gattcacgaa ctgaaaatgt
     5161 ccgaaaatgt gtctcatggg caccgtatgc gcccaaaccg atcgccattc actttcatgc
     5221 atagctatgc agtgagctga aagcgatcct gacgcatttt tccggttttc gcttggtaaa
     5281 acatctcttt ttgcggtgtt cgcggcagaa tcgcgttcag cgcgttttag cggtgcgtac
     5341 aattaaggga ttatggtaaa tccaagaata acgaaaaagc ccccggtggg ggcttttgag
     5401 atatcaagcg tattgggtta atttccaa
//
