LOCUS       CP057801                3916 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB14-C22 plasmid pRHB14-C22_6, complete
            sequence.
ACCESSION   CP057801
VERSION     CP057801.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148115
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3916)
  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 3916)
  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                     :: RH04 T1-C22
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 79.6140439888826x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 11:34:42
            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)                     :: 5,264
            CDSs (total)                      :: 5,140
            Genes (coding)                    :: 4,910
            CDSs (with protein)               :: 4,910
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 230
            CDSs (without protein)            :: 230
            Pseudo Genes (ambiguous residues) :: 0 of 230
            Pseudo Genes (frameshifted)       :: 97 of 230
            Pseudo Genes (incomplete)         :: 129 of 230
            Pseudo Genes (internal stop)      :: 47 of 230
            Pseudo Genes (multiple problems)  :: 37 of 230
            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..3916
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB14-C22"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB14-C22_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(3868..3916,1..146)
                     /locus_tag="HVW98_26305"
     CDS             join(3868..3916,1..146)
                     /locus_tag="HVW98_26305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /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="QMM69896.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(946..1563)
                     /locus_tag="HVW98_26310"
     CDS             complement(946..1563)
                     /locus_tag="HVW98_26310"
                     /inference="COORDINATES: protein motif:HMM:NF025084.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="RloB domain-containing protein"
                     /protein_id="QMM69897.1"
                     /translation="MTKRKGGRNVPRVMYIYCEGEKTEPLYLESYISENSRRTLSVFKI
                     PKTRKNTPEQLVDEAIKKKNSSSTADGDEFWVVYDQEHLTTQSVLCHQRAWNKANRHGI
                     NIAISCVCFELWLLLHFGYTTRSFSSYENLMSDSPFKGLLPNYNKGSSSTYDVLKNRIG
                     KARKNAAQLEIFAKSDNENIHEPYKFPCYTSFHKLLDAIDNF"
                     /name="RloB domain-containing protein"
     gene            complement(1556..2911)
                     /locus_tag="HVW98_26315"
     CDS             complement(1556..2911)
                     /locus_tag="HVW98_26315"
                     /inference="COORDINATES: protein motif:HMM:NF024573.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="AAA family ATPase"
                     /protein_id="QMM69898.1"
                     /translation="MFVRLTIENFRSVKENFTLDLSASGSNSHLVNHIYKNAEMSVGTL
                     MSAGIYGANASGKSNVLMAFEAIKYIATDSGDLKEGTRIPCYEPYALSLATNESPVRFV
                     ADFYSVEGNRFNYEVKYIKDRIIFESLDYYPSRVKANLFTRDEGDTWETIKFGGHYRGG
                     VKKIPFFPNNSYLAKAGNNAASPDIIKEAYDFFRKGIRHIGLNEKIRISSFGKREEVVS
                     ETAEVLCMVDTGVAGISVREVESDLPIRMDDDIPPEIKEMIEEDYKYRYLFSHATEEGG
                     SVSFPMSRESEGTQKLFEIIPLIRSAFNNSMVVIIDELDNSLHPHIADLIVKLFNDPDV
                     NKKGSQLIFSTHNMQLMTPEKMRRDQIWFCEKNKGASALYSLDDFDKKKVKTTTPYASW
                     YDEGRFGGVPDINYLKVAKFLSGNAMTAIHDIDVDALAGDFFEEFNEDLSND"
                     /name="AAA family ATPase"
     gene            complement(3259..3582)
                     /locus_tag="HVW98_26320"
     CDS             complement(3259..3582)
                     /locus_tag="HVW98_26320"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nikA protein"
                     /protein_id="QMM69899.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="nikA protein"
     Typing          complement(3592..3833)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.9300000000000005e-124"
     Typing          176..705
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.413"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(3263..3582)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="3.2999999999999996e-62"
ORIGIN
        1 gccagagcct gacactgctc gaaaagctgg acgcactcga tgccgacgaa caggccgcca
       61 tgtgtgagaa gctgcacgaa ctcgcggaag aactccagaa cagcatacag acacgctttg
      121 aagtagaaaa tagcacagag atataacgct cagggcagga tgccgaacgg cacaacagag
      181 cgtaaggaga aaatgtcaca taaggcgctc ttccgcttcc tcgctcactg actcgctacg
      241 ctcggtcgtt cgactgcggc gagcggtgtc agctcactca aaggcggtaa tacggttatc
      301 cacagaatca ggggataaag ccggaaagaa catgtgagca aaaagcaaag caccggaaga
      361 agccagcacc gcaggcgttt ttccataggc tccgcccccc tgacgagcat cacaaaaatc
      421 gacgctcaag tcagaggtgg cgaaacccga caggactata aagataccag gcgtttcccc
      481 ctggaagctc cctcgtgcgc tctcctgttc cgaccctgcc gcttaccgga tacctgtccg
      541 cctttctccc ttcgggaagc gtggcgcttt ctcatagctc acgctgtagg tatctcggcc
      601 cggtgtaggt cgttcgctcc aagctgggct gtgtgcacga accccccgtt cagcccgacc
      661 gctgcgtctt atccggtaac tatcgtcttg agtccaaccc ggtaagacac gacttaacgc
      721 cactggcagc agccactggt aaccgattta gaggagttag tcttgaagtc atgcgccagt
      781 taaggctaaa ctaaaaggac aagttttggt gactgcgctc ctctaagcca gttacccggt
      841 acataagttg gtagctcatg taccttctaa aaaccaccgt tggtagcggt ggtttttatt
      901 ttctatagat tacaaccagc aataagccat ggtcaatgga ttaattcaaa agttatcaat
      961 cgcatcaagt aacttatgaa atgatgtata acatggaaat ttatatggct catgtatatt
     1021 ttcgttatct gatttagcga aaatctctag ttgcgccgca ttttttctcg ccttcccaat
     1081 cctattcttc aaaacatcat atgttgaact actaccttta ttataatttg gcaacagacc
     1141 cttaaacgga gagtcagaca ttaaattttc ataagatgaa aaagatcttg ttgtataacc
     1201 aaagtgcaac aacaaccaca gttcaaaaca aacacaagat atagctatat ttataccgtg
     1261 tctattagct ttgttccacg ccctttgatg gcacaaaaca gactgcgtag tcaaatgctc
     1321 ttgatcataa acgacccaaa actcatcacc atccgcagtg gatgatgaat tctttttctt
     1381 tatcgcctca tctactagct gctctggtgt atttttcctt gttttaggta ttttaaacac
     1441 actcaacgtt cttcttgaat tttcagatat ataagattca agatacaacg gctccgtctt
     1501 ctccccttca caatatatat acatcactcg aggaacattt ctccctccct tccttttagt
     1561 cattagaaag atcctcgtta aactcttcga aaaaatcacc agcaagagca tcaacatcaa
     1621 tatcatgaat agcagtcata gcatttcctg ataggaattt agctactttc aaataattaa
     1681 tatcaggaac gccgccaaac cggccctcat cataccaact agcataaggt gttgttgttt
     1741 ttactttttt cttatcaaaa tcatctaaac tgtataatgc cgaagcacct ttgttttttt
     1801 cgcaaaacca tatctgatcc cttctcattt tttcaggagt catcaactgc atattatgcg
     1861 tagagaatat tagctgagat ccctttttgt taacatcagg atcattaaat agcttaacaa
     1921 ttagatctgc aatatgtgga tgcaaactat tatctagttc atcgataatc acaaccatgc
     1981 tgttattaaa tgcacttcta attaaaggta ttatttcaaa taacttctga gtgccttcag
     2041 actctctgga cataggaaaa gaaacactcc cgccctcctc agttgcatga gaaaacaaat
     2101 atcgatactt ataatcctcc tctatcattt cttttatttc tggaggaata tcatcatcca
     2161 ttcttattgg taaatcagat tctacttctc gcacggatat tccagcaaca cctgtatcaa
     2221 ccatgcacag aacctcagcg gtttcactta ctacttcctc tcttttacca aaagatgaga
     2281 ttcttatttt ttcattaaga cctatatgcc ttatcccttt cctaaaaaag tcataagctt
     2341 ctttaattat atctggagat gccgcattat taccggcctt ggccaaatat gagttattag
     2401 ggaagaatgg tatttttttc accccacctc tataatgacc accaaactta attgtttccc
     2461 atgtatcgcc ttcatcccta gtaaacaaat tagcctttac cctagacgga tagtaatcca
     2521 atgactcgaa tataattcga tctttaatat atttaacctc ataattaaaa cgattcccct
     2581 caacagagta aaaatcagcc acaaaccgaa ctggtgactc attcgtagcc aacgagaggg
     2641 catacggttc gtagcatgga attcgagttc cttccttcag atccccgcta tctgtagcaa
     2701 tatatttaat agcctcaaaa gccatgagaa cgttggactt acctgacgca ttcgccccat
     2761 aaatcccagc actcataagt gttccaacag acatctcggc gtttttataa atatgattaa
     2821 ctaaatggct atttgagcca gacgcactta aatcaagcgt aaagttttcc tttacggatc
     2881 taaaattttc aatagtcaaa cgaacaaaca taggcaactc ctaaatgagt tttttcgcca
     2941 aaaaagcgaa aaaaaagcaa taaacaagat acagcacatg ctttaaattt gaaacaacat
     3001 catcataaag aatcttgtac gaccattcac cacacaacat ttaacataac ctataaattg
     3061 tacgcaccac tgaaacgcgc tgaacgcgat tctgacgcag acaccgcaaa aagagatgtt
     3121 ttaccccggg aaaacaggaa ggatgcgtca ggatcgtttt cagctcgctg catagctatg
     3181 catgaaagcg aatggtgatc actttgggag cttacggtgt tcataccgtc tgttttcgac
     3241 agttttctct ccgggaagct aatctgccat aagcctggat aacagggcac ggtgatactc
     3301 cgtaatagcg atcagcacct ccgcatactc cctgtccccg acacgcttgc cgtcgataaa
     3361 gagttttttc tgtaacgccc ccagtctcat aacttctttc agtacccgat catcagtcag
     3421 tgagttaact ttcttaccga gagctgccgc ccgtaaaaaa ccggaaacgg tcttgccgca
     3481 ttcagcagcc ctttttctga tttcctggtc ttcttctgcc gtcagacgaa cagggcgact
     3541 gatagcccgc ctgcgcgtat tacttccact tcgttttgtc ataaaacatg gctccgtatc
     3601 tgacatgggg tgtcggggcg aagccctgac cagggtaatt gtaatagcgt gcatgtatgc
     3661 gcggtataac aattacacat cctgtcctgt cagcaagttc gaattaccga caaaggcacg
     3721 gcagtttttt tggcagtgac agtattgtca ggcagaaatg cccgtcaaag agtcagacgg
     3781 cagaataccg gcggcaaaac tgtcgaaaag tggtacgcga tataatcaca taacgcagat
     3841 gacagacaga acggagaaaa cagaaagatg aacaagcagc agcaaactgt actcaacatg
     3901 gcgggcttca taaaaa
//
