LOCUS       CP057822                3838 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB14-C14 plasmid pRHB14-C14_5, complete
            sequence.
ACCESSION   CP057822
VERSION     CP057822.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148110
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3838)
  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 3838)
  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-C14
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 97.4237353799961x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 12:02:32
            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)                     :: 5,090
            CDSs (total)                      :: 4,973
            Genes (coding)                    :: 4,772
            CDSs (with protein)               :: 4,772
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 201
            CDSs (without protein)            :: 201
            Pseudo Genes (ambiguous residues) :: 0 of 201
            Pseudo Genes (frameshifted)       :: 80 of 201
            Pseudo Genes (incomplete)         :: 118 of 201
            Pseudo Genes (internal stop)      :: 36 of 201
            Pseudo Genes (multiple problems)  :: 31 of 201
            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..3838
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB14-C14"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB14-C14_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            1..915
                     /locus_tag="HVW93_25435"
     CDS             1..915
                     /locus_tag="HVW93_25435"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QMM92641.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASA
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPVFSQWLDAVIQRVEMYNASLPVPLSP
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPGIQAARGRKGGSKSKRGTVATSARSL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(1356..1550)
                     /locus_tag="HVW93_25440"
     CDS             complement(1356..1550)
                     /locus_tag="HVW93_25440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041629.1"
                     /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="QMM92642.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQITMCERLHELA
                     EELQNSIQTHFEAQYGTKP"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(2170..3288)
                     /locus_tag="HVW93_25445"
     CDS             complement(2170..3288)
                     /locus_tag="HVW93_25445"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000164328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MFS transporter"
                     /protein_id="QMM92643.1"
                     /translation="MTKLYLYLVLAASLSALSTDMIVPALPELQKIFNADYSLIQLSIS
                     GFLIVFAFSQLISGTIGDYFGKVRVMTICLTIFLIGSFVCFMANDLNILLLGRILQAIG
                     AGAGPVISKAIAKESFPPLKLKRALSDISSTSAIIPLIAPLAGALILDYYDWNVIFIVM
                     SAFSILTILLSPKVTNKQEEKTHQDNVKFVTKDFICGTILVSLMLSSLFCYISISPALF
                     MSDYGLNTFNYSVVFSLSVLFFIIGNQLSKIEKISNPWVLFPLNAISVTPFLILNDAFV
                     ICVIGAMIFNLTLGAYYPIANFISLQINGSRTGLAASITGFTQTVSAGTISFLSVKISD
                     NGVSLGTTLSISCLMLALLSIFVTIIIGNNKK"
                     /name="MFS transporter"
     Typing          2..777
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.396"
                     /coverage="83.0"
                     /evalue="0.0"
ORIGIN
        1 atgagcgccg cgcttcaata cttcgaagaa aatttacccc accgtcccta tcacacggat
       61 gatctcgctt tcggccttcg tatctccggc aaagggcgcg cgcttcttgc acggtatatc
      121 cagcagaacc agcctcatgc acagttctgg ctggtttttg acgttgaccg cgagggggct
      181 gctattgact ggagcgaccg gaacgctccc gcgccgaaca tcaccgttaa aaatcctgtg
      241 aacggacacg ctcacctgct ctacgcactc aacatcgccg tgagaaccgc gcctgatgcc
      301 tcggttaagg cgctgaaata tgccgcagcg gttgaacgtt cgctgtgtga gaaactttgt
      361 gcggatgtga actacagcgg cctgatttgc aaaaatccgt tccacctgga atggctggtg
      421 atggagtggc gcgaggaagc ctataccctc gatgaactgg ctgattatct cgatttgagc
      481 gcctcagcgc gtcgtagcat cgataaacat tacgggatgg ggcgaaactg ccacctgttc
      541 gaaatgacgc gcaaatgggc ttacagggcg attcgtcagg gctggccggt attctcacag
      601 tggcttgatg ctgtgattca gcgtgtcgaa atgtacaacg catcgcttcc cgttccgctt
      661 tcaccggctg aatgtcgggc tattggcaag agcattgcga aatacacgca caggaacttc
      721 acgccggaaa ctttcgcaca gtatgtggct gatacgcaca cgccaggaat tcaagccgca
      781 cgcggtcgca agggcggttc taagtctaag cgcggcactg tggctacatc agcacgctcg
      841 ctgaaaccgt gggaggcatt agggatcagc cgcgcctggt attaccaact gaaaaaacgc
      901 ggtctcgtag agtagaccaa ataagcctat atcagataac agcgcttttt tggcgacctt
      961 ttgagcactt ggttttctgg ttgtttttcc tcttccgccc tttaatggcg cgcttttccg
     1021 catgattgtg gtggtagtgc tcgccgcagt ctcatgaccg agcgtagcga gcgaatgagc
     1081 gaggaagcgc aaaggctcct gtgtggcatg ttgctcttac gcattgttgg ttttgttttg
     1141 ctctggtttt cttacttatg tgacttttcc ccggcgtaga acccttttcc cattacttac
     1201 atccgatgca gtaagccagt atacactccg ctatcgctat gtgactgggt catggctgcg
     1261 ccccgacacc cgcaaaaacc gctgacgcgc cctggcgggc ttgtctgctg gcgaaaacgc
     1321 tcacggacaa accgcgaccg ctttcgccag cccctttatg gtttcgtgcc gtactgtgct
     1381 tcaaagtgcg tctgtatgct gttctgaagt tcttccgcca gttcgtgcag ccgttcgcac
     1441 atggtgatct gttcgtcggc atccagtgca tccagttttt cgagcaacgt caggctctgg
     1501 cttttgataa atcgcgccat gttgagcgcg gtctgctgct gtttgttcac gttctcccgt
     1561 ctccgttact ggttttacgt ccggctgtgc gtcactttgt caaaacgtca aagtgacgca
     1621 cgggaggtgc ttgcgcaacc ccgcgaataa cggcgtttac cgcgtgattt tttaacatct
     1681 gacaaagtga cccggcgtga tggccagttc tggccagaga tgtgcgaacg gcgaacgcaa
     1741 aggcggacag ggtagggaaa ggcgcgcagg aggaagtggg ctgaatccgc ccttacacac
     1801 acaaatctcc cggattacac aggggcacac agaaatacac atgtttccac ctgtccggtg
     1861 gttcaattct ccgccataaa caccgctgaa cgccaaattt gggggcgcag aaattcccac
     1921 ggacccccta tacgccataa atagaaggcc tctatataaa gaggccatga tatttactaa
     1981 cccagttcgt taatacattc tataaagttt ttatgtaggc tatctatatt ttctcgggta
     2041 tgaatagctg atattgcaca acgtagaatc gcctttccct cttccactgt aggatacata
     2101 gcaacggttg tagcaaaacc acgatcatgc atttttttgc atatcgttat agctttttct
     2161 tttgccaatt cattttttat tattccctat aataatagtc acgaatattg acaataatgc
     2221 aagcataaga cagctaatac ttaaagtggt tcccaaagaa actccattat cgcttatttt
     2281 tactgaaaga aaactgattg tccctgcgct tactgtttga gtaaaaccag taattgatgc
     2341 tgctaagcca gttcgtgaac cgtttatctg caatgagatg aaattggcta ttggatagta
     2401 tgctccaaga gttaaattga aaatcattgc tccaataaca catattacaa aagcatcatt
     2461 taatataaga aaaggtgtga ccgatattgc atttaggggg aataaaaccc atgggtttga
     2521 tattttttcg atttttgata attggtttcc aatgatgaaa aacaaaactg acagggaaaa
     2581 aacaacagag tagttaaatg tatttaatcc ataatcactc ataaatagtg caggtgatat
     2641 tgatatgtag caaaatagtg agcttagcat tagtgaaacg agtattgtcc cgcagatgaa
     2701 atctttagtc acaaatttta cattgtcttg atgtgttttt tcctcttgtt tattggtcac
     2761 tttaggtgac aggagtatgg ttagaatgct aaatgcactc attacaataa atattacatt
     2821 ccagtcataa taatcaagta ttaatgctcc ggccagaggc gctattaatg gtattatcgc
     2881 acttgtcgat gatatgtcag aaagtgctct ttttagcttt agaggtggaa aagactcttt
     2941 agcaattgct tttgatatta caggtccagc acctgcacct attgcctgta gaattctacc
     3001 caaaagaagt atatttaaat cattggccat aaagcataca aaactaccaa taagaaatat
     3061 agttaaacat atagtcatca cgcgtacttt tccaaaataa tcacctatgg ttcctgatat
     3121 cagttgacta aatgcaaata caataagaaa tccactaatg cttagttgaa ttaatgagta
     3181 gtcagcatta aatattttct gtagttctgg taacgctggc acaatcatgt cagttgataa
     3241 tgccgataat gatgcagcaa gaacaaggta aagatatagt tttgtcataa ttaatccctg
     3301 ataaaaatat tcttgtttat catatttaaa atgcttacac cattggaatg ttttatattt
     3361 tgagatagca ctgcgatagt atttgagcag aactaatggt actcccggat gcatattcag
     3421 gttgatggaa ggggataaaa aatccccgcg cagaaccttc ttccatctgg agggagaaaa
     3481 cttgtcattt taacctgttc gtccttcgga acagtcgaaa tcgatcgcgc atcgctttcg
     3541 tgcatagtta tgcaggccac taaaagcgat tctgacgcat tttttcggtc tggcctggtg
     3601 tttccttatc tttttgcgtt ttttgcgtca gaacgcgtct gagagcgttt taaggggtac
     3661 gtacaacggg agttatggta aatggatcga ttttgcggga aggctcgaca ggttttgtcg
     3721 ttgggggtag tgtaagcgac tgaaaaacaa acgcccctga aattcgtgtc tctccgccaa
     3781 gattgtcacg agaatacagg ggcgaggtcg gtcgataacc tggaaggaat cgtaacac
//
