LOCUS       CP056979                4072 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB41-C14 plasmid pRHB41-C14_6, complete
            sequence.
ACCESSION   CP056979
VERSION     CP056979.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148426
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4072)
  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 4072)
  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..4072
                     /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_6"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(2993..4072,1..1068))
                     /locus_tag="HV009_25675"
     CDS             complement(join(2993..4072,1..1068))
                     /locus_tag="HV009_25675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /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="QMB17730.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALVNAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRENRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="MobA/MobL family protein"
     gene            1247..1501
                     /locus_tag="HV009_25680"
     CDS             1247..1501
                     /locus_tag="HV009_25680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091744.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="mobilization protein"
                     /protein_id="QMB17731.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobilization protein"
     gene            2034..2735
                     /locus_tag="HV009_25685"
     CDS             2034..2735
                     /locus_tag="HV009_25685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QMB17732.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(711..1069)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.722"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1070..1246
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2035..2735
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.715"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2997..4072)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.939"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ctggctcaga gactggattt ttccctgctc actacggtat tccggtgccg cccattgcat
       61 caggggaata cgggaaaaac cggacgaaaa cggcgatgat tttttcaggc tggcagcatg
      121 gctcatcgct tcctttcgtt cggtgttcag ctcttcccag cgtctgcgcg tcgcctgcat
      181 atctgccatc atcgacatgg cattactggt gagtttccat gccgagttac tgtccttcgg
      241 caacgcttcg ataatgtcac gtagtgtgta cgaagttgcg ttgtcaggaa gcccgatatt
      301 cagaaggtca gccacacggc gggcaggctc tgtcagccct ccgttcctga gttcggtgcg
      361 ggaaatctgt atttccaggt taagcctgtt aatcagacga ttctgttcgc cgcgttctgt
      421 ttcgataccg cgtgtttcca tcgcacaggc agactttccg aggtgaatac caggcgtttt
      481 ctcaagcccc tgtcgctcgt atgaacgatg gtctatctct tcctgataac cggcgttcac
      541 cagtgccctg tttgcatggt cagcccatga tgcccgccac gtctcggcat gtgtccggtc
      601 gttccagtcc ctgacctttc cgctgaaccc agcaggtccg atagccctcg tggtcagcat
      661 gatgtgcgca tggggatttg ttttatccat gtgatggaac gccacatcag caatcatgcc
      721 ctgactgaca aagttttctc tgacaaaggc gagaacggtt tcccgggcgg catcctgcgg
      781 cagttcgtgg gggatggcga gttcaatttc ccgcgcaagt tgtgagttct tccggcgttc
      841 ggccttctca acggcattcc agagttcggc acggttcgta caccaggcag gggcggtggc
      901 gggggtcaga atcacagcct cagccacacc gcttttgcgg gtgtagtcgt gagtcagtcc
      961 ggtacgctca tcaagcatca gtgaaccgga acgataggca gcggaagcta cggcgctgta
     1021 gccgctgctt ctggagataa ttttcatgct gagatgataa atcgccattt ctgccgtaat
     1081 gcctttttgt agttttcttt cagccccgca gggcgcacac aatcgaaacg gagtggagat
     1141 tgtataagtg cgcacttcgt gatttgccgt gcattatgcc agctcagttt ttaaactacc
     1201 agtgacgcgc taaaatgcga tttttcatcg cgcacggagt tacatcatga gcagaacgct
     1261 cgaacagaag attgctgatg ctgaggcgag attacagcgc ctgaaggcga agagccggag
     1321 cctggacaca gcgcagaagg ttgttgtggg tgctgcattg ctggcaaagg tcagaaagcc
     1381 ggaggaggtg cagttgcgtg cctggttact ccagttcctg aaggcagagg tgacacgaca
     1441 ggctgatgtg acgcgcatac tgccgctgat taacgagctg gaggcgctgc cagaacagtg
     1501 attgtatcgt ccgctcgccg cagccccagc gaccgagcgt tagcgagcga gtgggcgagg
     1561 aagcggaagt gaatcagtcg ccaggttgag cacatacgca cggtttttcg gcaggtgata
     1621 tgcgctgaac ccgcatgaat actgggtttc cacagggttg gagggggtgt attcgaaact
     1681 tgcaattctg ctttattgca acgcattgtt tttattggtt ttttgttttc agcaccccaa
     1741 gttatccaca ggctcgccgt taagttttta agatcttatt tttagatctt ttttttaaaa
     1801 cctttttagg tcttgtaaca ccatgatttt aaagatgttc tggcaagata agtggagctt
     1861 ttgggggtga aaggtggagc ttttgggggt gaaaggtgga gcttttgggg gtgaaaggtg
     1921 gagcttttgg gggtgtaatc cacagaaaaa gggggttgca aaaaaaaaac ttccacccat
     1981 atgataagtg gcgtacagta aaaaaacgcc accaatagca acgagcaagc gaaatgtcag
     2041 atctgatagc ttacaaatca aacgccctta tcgaggcaag ctacaagctc actttgcagg
     2101 aacagcgctt cctgctggtc tgtatcagcc gcctgaaatc cggagaagat tccccttcgc
     2161 cggatgaaca aaaaaccatg accatcacgg ctgcagagtt tcatgatgcc tttcctgaca
     2221 tgggacggca gcacgctgaa gctaggctca aggaagcgat agatcgcctc tgggacaggt
     2281 cagtaatcat caagaacgag gaaaaacgag aagagttccg ctgggtgcag taccgggcgc
     2341 agtatttcaa aggtgaggcg aaagtagata tcaccttctc cgatgccatc atgccgtatc
     2401 tgacacagct caaggggcag tttacgcggg tagtcgtgaa gaacgtctcc agcctttcca
     2461 gcacctacag catccgcatt tacgagctgc tccagcagtt ccgcagcacc ggtgacagaa
     2521 cgatagctat cgatgatttc cgaaccatgc ttgctgttga agataaatat caacaattca
     2581 aagacttgaa taagatgata atcaagccag ccatcgccga actgaacgaa aaaagcgatc
     2641 tggttgtaac tgttgagacg atcaaaaagg ggcgcacggt tgtagccctg cattttcgct
     2701 tcaaggaaga caaacagatc aagatgacga tctaaaatcg attttaaggc acctaaaacg
     2761 ctccctgctg cgtttttttt gtgttagtag tgcgaaggta ctattgaagt gaaaaattgc
     2821 gtcaaaaacg ctctgatgca gcgaaaaaag accccccaat ttttgggggc ggaaaaacaa
     2881 aactatgctt gcgttatgtg agtgtgcttc ttgcattcat ccctgtcgat gaacatcgaa
     2941 gaacatcgac gaacataaca cgatgttaaa caaaacaaaa tattgttcac attcactgtg
     3001 accaaccgcg atcatgtctc ctctcggtgg tgtgtgttcg tgcatcttcc tcgcgctgcc
     3061 attcctccca ggtacgatta aaacccagcg agcggaacag atgatccggc tgtttttctg
     3121 gtgtgttgac ggcagcaaaa agcggtgcct cacgggtttt cagatgaaac tgcatcagtt
     3181 ctggtgcagg tgatatgtgg ctgtctgcat cgtgatttac ggcaacacca taccctgcat
     3241 accgtaaccc cttatcggtc agcgcactga tgaccagatg cctgttatcg gctgagggaa
     3301 cggcaaacgc gggatacagc gtaccattaa gccggataac accgcccaga gagtcatcca
     3361 cgcccatgac cagcaaaagc tgaagctgac ggttttcccg gtcgacagaa ctcatgaccg
     3421 gcatcagcgt cggtggcaga cgtccctgca taaaatccac cttccttgcc gctggtgatg
     3481 gcatggctgg ctggcggtct tctccaagac agaaagactc cggccatgtc ttcggctggc
     3541 ggagattgcg ggtatgttgc ggccatgtct ggcaaacctg cgtcagcagt tgctcaaagg
     3601 ttgcagagga ataaacacgt tgcagtggcg gacgttggcc gatttcgctt cggtcacaga
     3661 tataaccact cctgtcacgc attaaatcaa cactctcaaa gattctggtg cggtatttct
     3721 ccagctcgtt cccccagagc gtatattctc cgttccggtt gtgaagcaga aggtaacagg
     3781 tcatttcccc gttaccaggc atgggagcct cgccataccc cgtaacgact gctctcagca
     3841 cccctgaatc cataacggca ttgtcatttt tcctgagctg ctccgcgcga ctacgttcag
     3901 tatcttcctg ttccttccgg cgcaattcct cttcacgttt aagcaactgg gctctgagag
     3961 ctgcaaggcc ggattccccc cactgctgcc actgtttttc aaatgccatc tgactcgcgg
     4021 gaatgtcctg tttctccacc ttccggtaat gctgtcgtaa tttttccatt tg
//
