LOCUS       CP056981                3751 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB41-C14 plasmid pRHB41-C14_8, complete
            sequence.
ACCESSION   CP056981
VERSION     CP056981.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148426
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3751)
  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 3751)
  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                     :: RH01 T3-C14
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 173.996160485263x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 03:28:15
            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)                     :: 5,152
            CDSs (total)                      :: 5,031
            Genes (coding)                    :: 4,749
            CDSs (with protein)               :: 4,749
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 282
            CDSs (without protein)            :: 282
            Pseudo Genes (ambiguous residues) :: 0 of 282
            Pseudo Genes (frameshifted)       :: 99 of 282
            Pseudo Genes (incomplete)         :: 175 of 282
            Pseudo Genes (internal stop)      :: 42 of 282
            Pseudo Genes (multiple problems)  :: 32 of 282
            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..3751
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB41-C14"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB41-C14_8"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3650..3751,1..825))
                     /locus_tag="HV009_25720"
     CDS             complement(join(3650..3751,1..825))
                     /locus_tag="HV009_25720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="QMB17741.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGYDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            1002..1400
                     /locus_tag="HV009_25725"
     CDS             1002..1400
                     /locus_tag="HV009_25725"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMB17738.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            complement(1661..2680)
                     /locus_tag="HV009_25730"
     CDS             complement(1661..2680)
                     /locus_tag="HV009_25730"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221104.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QMB17739.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREDAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAVAVGVSSRTIRRWMDNSGEWLTKKQIIKC"
                     /name="replication initiation protein"
     gene            complement(3114..3647)
                     /locus_tag="HV009_25735"
     CDS             complement(3114..3647)
                     /locus_tag="HV009_25735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMB17740.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVVNMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVTLED
                     KLAEKPVTGKSRKN"
                     /name="hypothetical protein"
     Typing          complement(1906..2680)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.907"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          complement(2..825)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.818"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cgcaacatca tgttgcagcc ttctgaccag ttcatgttgc ttaaccggag tgtccagcca
       61 ttccctgatg tcatacccga ccgttcgcgc ctgttcaaga tggcgggaat agtccggttc
      121 agaccgtttt tgcatgatgt catgacgctg ggcatcatca agccgtccgg cagcttcaaa
      181 acccagatgc acttcgggac gtcgttcaat gccctgttct ttcagcgtcc ggcagtcaat
      241 gaagcccctt tcaaagccat gctttctcat atgttcgttg tgcttcacct cccagcgttt
      301 tcgcaattcc cgcaactgct ctttttgctg agtgagagtc aggcttccgg aatccttttt
      361 cgcacctccc cgctcgggat acctggcgtt atagcgccgg aaatactgtt ccggtgtacg
      421 ttcaatgcca tcattcacac gctggctcat catgatatgc gcatgaggct gttcgccgcc
      481 gtcaatgctc gctttcggat tgtgaatggc aaaactccag gcgtgccgtt cgccagcttc
      541 ctgacgtaca aaatcctgca ccagttcaag gcgctgttcc gctgtcagtt cacggggtaa
      601 tgcaatttca agttcccgat aggtcgaacc gttcgcacgt tcaaactggt cagcagcctg
      661 ccagaaatgt gagggattat ctcgcgccca ttccggcatg tttccgtgtg cggaatattc
      721 caaatcctga cggtcgcggt atttctcttt gcgctcgatg taatcggcgt ggtttgcagc
      781 ctgccccttg ccaccaaatt taacgctgag gtgataggtt gccacggttt cagccctccg
      841 caggagcgca ctgtttctcg acgaaggaga gaaacatata agtgcgcttc cttctaattt
      901 tacgaattag cacggaagat accccctgca cccgccgacc gcaagcgata tactgcacga
      961 ccacaacaca ccgcaaaaaa acaccaggga gcaccacgaa catgcgcatc agcaacatcg
     1021 aatggctgaa gaaacggatc ggattcatca ggaagctcgg agaacagacc gcacgacaga
     1081 gacagattat tgacctgctc gacaacgaag caggactcac agaacaggaa cgcaaactcc
     1141 tccacgtact ggcaacagcg gaaaaaaacg acttacaggc acaggagagc gaacgaaaac
     1201 aggcggtcca aaaacgaatc gagggaaaaa aacaacgacg agaacgcaat caccgactct
     1261 ttctcgcggc tgggctactg atcgaagcag gactggtaga cacaaaaaca ggcgagctat
     1321 gctataaaaa agacaggata ttacaggcac ttaaggaaat taagtacgat ctggagacat
     1381 ccccaaaccc agacgcgtaa gtgcctccat ccgtgttccg gttccctggt gcttcctcgc
     1441 tcattcgctc gctacgctcg gtcatgagac tgcggcgagc acgaccacct caatcatgcg
     1501 gtaagccgca ccattgctgg gctgagagga gaaaaccgcc ggaaagcccg ctgctcaaaa
     1561 agacgccgaa aggcgctgtt atctgatata ggcttgttca tgtccgcgaa tttaaccacc
     1621 cattaacaaa aaacgggggg tagtgttact tctttgttaa ctaacattta attatttgtt
     1681 tcttggttag ccattctcca gaattatcca tccagcgtcg aatagtccgg ctgctaacac
     1741 caaccgccac tgcaatatct tccgttgacg ctcccaagat atacatatca agcgccctac
     1801 gacgtttgtc gtcgttagca gtccaccgaa cagcggcgct ttttttccct ttgtccgact
     1861 gattttctga cgaattggcc ttcccgccct tgcgaccgcg tgctgcctga atttctggcg
     1921 tgtgcgtatc agccacatac tgtgcgaaag tttccggcgt gaagttcctg tgcgtgtatt
     1981 tcgcaatgct cttgccaata gcccgacatt cagccagtga aagcggaacg ggaagcgatg
     2041 cattgtacat ttcgacacgc tggatcaccg cttcaagcca ctgtgagaac gctggccagc
     2101 cctgacgaat cgccctgtaa gcccatttgc gcgtcatttc gaacaggtgg cagtttcgcc
     2161 ccatcccgta atgtttatcg atgctacgac gctctgaggc gctcaaatcg agataatctg
     2221 ccagttcatc gagggtatag gcgtcctcgc gccactccat cacctgccat tccaggtgga
     2281 acggattttt gcaaatcagg ccgctgtagt tcacatcagc acaaagtttc tcacacagcg
     2341 aacgttcaac cgctgcggca tatttcagcg ccttaaccga ggcatcaggc gcggttctca
     2401 cggcgatgtt gagtgcgtag agcaggtgag cgtgtccgtt cacaggattt ttaacggtga
     2461 tgttcggcgc gggggcgttc cggtcgctcc agtcaatcgc agccccctcg cggtcaacgt
     2521 caaaaaccag ccagaactgc gcatgaggct ggttctgctg gatgtaccgc gcaagaagcg
     2581 cacgcccttt gccggagatg cgaaggccga aagcgagatc atccgtgtga taggggcggt
     2641 ggggtaaatt ttcttcgaag tattgaagcg cggcgctcat gtgttacgat tccttccagg
     2701 ttatcgaccg acctcgcccc tgtattctcg tgacaatctt ggcggagaga cacgaatttc
     2761 aggggcgttt gtttttcagt cgcttacact acccccaaca acaaaacctg tcgagccttc
     2821 ccgcaaaacc gatccattta ccataactcc cgttgtacgc cccccttaaa acgccctcag
     2881 tcgctctctg gcgcaaaaaa cgcaaaaaga caaggaaaca ccaggctaaa ccagaaaaat
     2941 gcgtcagaat cgtttttagc gcgttgcata actatgcacg aaagcgatgc gcgatctgtt
     3001 tcgagcgttc agaagggcga acgggtcaaa acagcaaact ttctcatcag aaaacggtga
     3061 acgggacgcg gaattttttc gcgggtcgtg aggcgttgga caagcgaagc gcgtcagttt
     3121 ttccggctct tgcccgtgac aggtttctcc gccagtttat cttccagtgt cacaactttc
     3181 tgatacaccg ccgctgtggc gttgtagttc ctgtcgagca ttgttttcat tccccatcca
     3241 agcacacaga acataaccag aaaagccact gacaccccac ccagccattt ccagctatac
     3301 cctttaaggg tgttgtattc ctgcacgata ttgctgtgaa ttgtcgcaat atccctgttc
     3361 agggcatccg cgtttgcctt catgtttacg actgactctt ccagccgctg aaaatcctgg
     3421 ctgatgcgct cacctatcag ccctgcaaca tccagcttct gcacctcgtt tctgacttca
     3481 tccctgacct gttttgccac accgtcagaa atatcccgat atccgcgaag tgtttccctt
     3541 gccacagcca gagaatcagc aacagctttc tgttgctcca ttgcggtatg ttgcagatgc
     3601 tccaccgata acaggagcgt gagtaatttt tcttctgtgc tggccatgtt cagaatccca
     3661 tagaaaatcc acgtgacggt gatttaaccc gttcaggttc agttcggttc tgtctgctca
     3721 ctctgtctct catgtcaaag ccatgctccc g
//
