LOCUS       CP057837                4959 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB13-C13 plasmid pRHB13-C13_5, complete
            sequence.
ACCESSION   CP057837
VERSION     CP057837.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148097
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4959)
  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 4959)
  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                     :: RH03 T1-C13
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 103.298558814832x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 12:06:58
            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)                     :: 4,946
            CDSs (total)                      :: 4,821
            Genes (coding)                    :: 4,713
            CDSs (with protein)               :: 4,713
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 108
            CDSs (without protein)            :: 108
            Pseudo Genes (ambiguous residues) :: 0 of 108
            Pseudo Genes (frameshifted)       :: 44 of 108
            Pseudo Genes (incomplete)         :: 51 of 108
            Pseudo Genes (internal stop)      :: 26 of 108
            Pseudo Genes (multiple problems)  :: 11 of 108
            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..4959
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB13-C13"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB13-C13_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(4100..4959,1..235)
                     /locus_tag="HVW80_24710"
     CDS             join(4100..4959,1..235)
                     /locus_tag="HVW80_24710"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016230929.1"
                     /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="QMN15542.1"
                     /translation="MASYHCTVKTGAKGVALKHADYISRSGEYKNYKSREDLEFSSSGN
                     MPSWAKKNPAELWKAADEFERKNGTAYREIEIALPRELTREQRIELVEDFVQKELGDRH
                     AYQYAIHNPPGAIDGKEQPHAHIMFCERINDGIERDPQQFFKRANSKSPERGGAKKARF
                     GETQQERKSALVALRSHWADVQNEHLARHGHQSRVDHRSLKEQGIKRTPEVHLGPVRVA
                     VMNADQVCAILAWRNAEREKLEAEKERDSIIDLKTTLKEALAERDNMPPTLDELGAELK
                     AFVESSFDELNEVMQLNSLIDGALDTMMKQFQVEEERKLQQERLIQAARDEAEKQRELE
                     RERVRRRAYSSPAPSRSRDYGMSR"
                     /name="MobA/MobL family protein"
     gene            257..973
                     /locus_tag="HVW80_24715"
     CDS             257..973
                     /locus_tag="HVW80_24715"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016235968.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QMN15543.1"
                     /translation="MQLDEHSRKIAALVAYNEKQIKEINRIITLLNERVNDLNTFTDTL
                     EREGKVVSGISYSLRDSVSHVDFYLNKGMEEVSCKLQKSVSDTLTSLLREKLSFTLNDV
                     RQEWTDFEEQTSKEIKESLKQTTRDAEVATGIIRKTMEKYTVTRIVEKVLVLLVLFLLL
                     MIAPSFYAEYLKMNIGSLMEEQKKHESMLKEWKEKAPLAEFSKCGEYRDVCVLVDDKSG
                     YYSNEQTPNKKYAILK"
                     /name="hypothetical protein"
     gene            complement(1031..1603)
                     /locus_tag="HVW80_24720"
     CDS             complement(1031..1603)
                     /locus_tag="HVW80_24720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001681717.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="LysE family translocator"
                     /protein_id="QMN15544.1"
                     /translation="MEYSTLFSFAIVTLSQTISIGPGVALVINNAFSQGLKSSIKTSIY
                     IRAGEAIVMVISLFTLSSTSSIEQHFYIIKILGGSYLIYIGVMGLINKKNKKSKVQKPL
                     LIPLLNPKAYLFFAALIPAFIDDNTNIALNFFILGVLFIFISFLTDIIYIAISLTIRDK
                     LTPSFSRYISICSSIFILGTGIYFILT"
                     /name="LysE family translocator"
     gene            2202..3221
                     /locus_tag="HVW80_24725"
     CDS             2202..3221
                     /locus_tag="HVW80_24725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001271372.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QMN15545.1"
                     /translation="MSAALQYFEENLPHRPYHSDDLSFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDSSVKA
                     LKYAAAIERSLCEKLCADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     PECRAIGRSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGKANSSENQSDKGKKS
                     AAVRWTANDDKRRRALDMYILGASTEDIAEAVGVSRWTVRRWMDSSVEWLLSKQIIKI"
                     /name="replication initiation protein"
     gene            complement(3482..3928)
                     /locus_tag="HVW80_24730"
     CDS             complement(3482..3928)
                     /locus_tag="HVW80_24730"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000184721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="QMN15546.1"
                     /translation="MTNREDWLSAKIAYINGLKSPSEQQRLLVLLAEKKNRTTTDEKTL
                     SALIRAEKTAEKAAAAKARVTAIIAAERKAAARVERKARDHELYKAAGLMIVARLVDSK
                     TGKPKFSAAELVGALAGIAELPRNHPKWQEWEKRGKELLTKDSA"
                     /name="conjugal transfer protein TraD"
     Typing          2203..2977
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.911"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          4101..4957
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.252"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gtttgatgaa ctcaatgagg taatgcagct taattcattg attgacggtg cgctggacac
       61 aatgatgaag caattccagg tggaagagga gcggaagttg caacaggaac gactaattca
      121 ggctgcgcga gatgaagccg aaaagcaaag agagctggag agggaaagag tgcgccggcg
      181 tgcgtattct tcaccagcac catcacgttc acgcgattat ggtatgagcc gttaagcact
      241 ggaggttttt tattttatgc aattggatga acattcaaga aaaattgctg cccttgttgc
      301 gtataatgaa aagcaaataa aagaaataaa caggataatt actctgctta atgaaagagt
      361 gaatgactta aataccttta cagatactct tgaacgtgaa ggtaaagttg tatctggaat
      421 ttcttattcc ttgagggata gtgtgtctca tgttgatttt tatcttaata aaggaatgga
      481 agaagtatcc tgtaaattac agaaatctgt ctcagacaca ctaacatcat tactccgtga
      541 aaaattatct ttcacactta atgatgtaag gcaagagtgg actgattttg aagagcaaac
      601 aagtaaagag ataaaggaat cattaaagca gacgaccaga gatgctgaag ttgcgacagg
      661 tataattaga aaaacaatgg agaagtatac agtaacaagg atagtcgaaa aggtacttgt
      721 gttgcttgta ttatttttat tgttaatgat tgctcctagt ttttatgctg aatatctcaa
      781 aatgaatatc ggttctctaa tggaagaaca gaaaaaacat gaatctatgt taaaagagtg
      841 gaaggaaaaa gcaccattgg cagagttctc taagtgtgga gagtataggg acgtatgcgt
      901 gttagttgat gataaaagcg gatattattc caatgaacaa accccaaata aaaaatatgc
      961 catactgaaa tagtgttaag taactcatgc cgtcttatga ctaaggctgc atgagtataa
     1021 aaacggcgtt tcacgtcaag ataaaataaa tacctgtacc taatataaaa atggagctac
     1081 atatacttat gtaccttgag aatgacggag ttaatttatc ccttatcgtc aagctaatag
     1141 ctatgtaaat aatatctgtc aggaatgata taaatataaa caaaacaccc aatataaaga
     1201 aatttaatgc gatatttgta ttatcatcta taaatgctgg tattaatgcc gcaaagaata
     1261 aatacgcctt tgggtttaat aatggtataa gtaaaggttt ttgtactttg ctttttttgt
     1321 tttttttatt aattaaaccc attaccccta tgtatattaa atagcttcca cctaagatct
     1381 ttataatgta aaagtgttgt tctatgctgg atgttgaaga taacgtgaaa agagatatta
     1441 ccatgacgat tgcttcgcca gctcttatgt atatacttgt ttttattgat gatttaagtc
     1501 cttgtgaaaa ggcgttgttt ataaccaatg caacaccagg tcctattgat atagtttgag
     1561 ataaagttac gatagcaaat gaaaataatg ttgaatattc catatttact taccatgata
     1621 tatttcgtgg gagcttttca tatacatatt ccataggaat tgcggctttc ggtaataaat
     1681 ttataaatgt ggatatgtgc tttagtgaat tgctggcggc gattgagtaa aaatttccgc
     1741 tattccaata tattgtcgat atttcgttgt ccagactgta tatgtttgga aatttgtttg
     1801 catacgggtt cgttccgttt agctggcttt ttggatgaga aagtttgctg ttttgacccg
     1861 ttcgcgcttc tgaagggggg aaaccgatca tgaatcgctt ttgtgcatag ttatgcaggc
     1921 ccataaaaac gattctgacg cgtttttatg gtttacccta gtgttttctt gtctttttga
     1981 gttttttgcg tcagaaagcg attgagagcg ttttagaggg tacgtacaac aggagttatg
     2041 gtaaatggat cgggtttgcg ggaagactcg acaggttttg tcgttggggg tagtgtaagc
     2101 gactgaaaaa caaacgcccc tgaaattcgt gcctctccgc caagattgtc acgagaatac
     2161 aggggcgtgt gggtcgtaac acacggaggg aatcctaaca catgagcgcc gcgcttcaat
     2221 acttcgaaga aaatttaccc caccgtccct atcactcgga tgatctctct ttcggccttc
     2281 gcatctccgg caaagggcgt gcgcttcttg cgcggtacat ccagcagaac cagcctcatg
     2341 cgcagttctg gctggttttt gacgttgacc gcgagggggc agcgattgac tggagcgacc
     2401 ggaacgctcc cgcgccgaac atcaccgtaa aaaatcctgt gaacggtcat gctcacctgc
     2461 tctacgcact caatatcgcc gtgagaaccg cgccggacag ctcggttaag gcgctgaaat
     2521 atgccgccgc gattgaacgt tcgctgtgtg agaaactttg tgctgatgtg aactacagcg
     2581 gactgatttg caaaaatccg ttccacctgg aatggcaggt gatggagtgg cgcgaggaag
     2641 cctataccct cgatgaactg gcagattatc tcgatttgag cgcctcagag cgtcgtagca
     2701 tcgataaaca ttacgggatg gggcgaaact gccacctgtt tgaaatgacg cgcaaatggg
     2761 cttacagggc gattcgtcag ggctggccag cattctcaca gtggcttgat gccgtgattc
     2821 agcgtgtcga aatgtacaac gcatcgcttc ccgttccgct ttctccgcct gaatgtcggg
     2881 ctattggcag gagcattgcg aaatacacgc acaggaactt cacgccggaa actttcgcac
     2941 agtatgtggc tgatacgcac acgccagaaa ttcaggcagc acgcggtcgc aagggcggga
     3001 aggccaattc gtcagaaaat cagtcggaca aagggaaaaa aagcgccgct gttcggtgga
     3061 ctgctaacga tgacaagcgt cgtagggcgc ttgatatgta catcttggga gcctcaacag
     3121 aagatattgc agaggcggtt ggtgttagcc gttggactgt tcgacgctgg atggatagct
     3181 ctgtagaatg gctactgagt aaacaaataa ttaaaattta attaacaaaa agggcacata
     3241 ccccccccta ttttgttaaa attctgttaa ttttgggtgc atgaacaagc ctatatcaga
     3301 taacagcgcc tttcggcgtc tttttgagca gcgggctttc cggcggtttt cttctttcag
     3361 cccagcaatg gtgcggctta cggtatgatt gaggtggtcg tgctcgccgc agtctcatga
     3421 ccgagcgtag cgagcgaatg agcgaggaag caccagggaa ccggaacgtg aacggaggct
     3481 cttacgcact gtctttggtg agtagctctt tcccgcgttt ttcccattcc tgccattttg
     3541 gatggttgcg cggtagctct gcgattcctg cgagtgcgcc taccagttcg gcagcactaa
     3601 actttggttt tccggttttg ctgtccacca gtcgtgccac aatcatgagg cctgcggcct
     3661 tgtagagttc atgatctcgt gcctttcgtt ccacccttgc ggctgccttc cgttctgccg
     3721 ctatgattgc cgttactctg gcttttgctg cggctgcttt ctctgcggtt ttttctgccc
     3781 gtatcagtgc ggacaacgtt ttttcatccg tcgttgttcg gttttttttc tctgccagta
     3841 acacaagtaa tctctgctgc tctgacggtg atttcagtcc gttgatgtag gcaatttttg
     3901 cacttaacca gtcttcacga tttgtcatcc ttacctctgc acttttgccg ttaatgtgag
     3961 ttgttattgt gcataatatc accttgtctg cctgcgtgtg agaccgtaaa atcatccctg
     4021 attaattcag ggatgcgcac ttagacgttt ctctcctttg tcgagaaaca gtgcgctcct
     4081 gcggagggct taacggcaga tggcaagcta ccattgcaca gttaaaactg gagcaaaagg
     4141 cgtagcctta aaacatgctg attacatttc cagatccggc gaatataaaa actataaatc
     4201 gcgggaggat ctggaatttt cttcatccgg taacatgcca tcatgggcga agaaaaatcc
     4261 cgcagaactg tggaaagctg ctgatgaatt tgaacgaaaa aacgggacgg cataccgtga
     4321 aattgagatc gcattaccgc gagaactgac acgtgaacaa cggatagagc ttgttgaaga
     4381 tttcgtgcaa aaggaacttg gtgatcgcca tgcctatcag tacgcgatcc acaatccacc
     4441 aggtgcaatt gacgggaagg aacagccaca cgcgcatatc atgttttgcg aacggattaa
     4501 tgatggtatt gaacgcgatc cgcagcagtt ttttaaacgt gccaacagca aatcaccaga
     4561 gcgggggggc gcaaaaaaag cacgctttgg cgagacacaa caagagcgaa aatcagccct
     4621 ggttgcgcta cgctctcact gggctgatgt gcagaatgaa caccttgcgc gacacggcca
     4681 ccagtcgcgc gttgatcatc gttcgctgaa agaacagggt atcaagcgta cgccggaggt
     4741 gcatcttggt cccgttcgtg ttgctgttat gaacgctgat caggtttgtg caattctggc
     4801 atggagaaat gcggaacggg agaagctgga ggccgagaag gaacgggaca gcatcattga
     4861 ccttaaaacg accttgaagg aagcgttagc tgaacgggat aacatgccac caaccctgga
     4921 tgagcttggg gcagaattga aagcgtttgt tgaaagctc
//
