LOCUS       CP056995                3374 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB41-C07 plasmid pRHB41-C07_5, complete
            sequence.
ACCESSION   CP056995
VERSION     CP056995.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148423
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3374)
  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 3374)
  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-C07
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 172.215747785786x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 03:31:04
            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)                     :: 4,445
            CDSs (total)                      :: 4,326
            Genes (coding)                    :: 4,062
            CDSs (with protein)               :: 4,062
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 264
            CDSs (without protein)            :: 264
            Pseudo Genes (ambiguous residues) :: 0 of 264
            Pseudo Genes (frameshifted)       :: 119 of 264
            Pseudo Genes (incomplete)         :: 123 of 264
            Pseudo Genes (internal stop)      :: 46 of 264
            Pseudo Genes (multiple problems)  :: 22 of 264
            CRISPR Arrays                     :: 3
            ##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..3374
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB41-C07"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB41-C07_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(6..239)
                     /gene="mbeD"
                     /locus_tag="HV006_22190"
     CDS             complement(6..239)
                     /gene="mbeD"
                     /locus_tag="HV006_22190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="QMB26676.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="mbeD"
     gene            complement(246..806)
                     /locus_tag="HV006_22195"
     CDS             complement(246..806)
                     /locus_tag="HV006_22195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="QMB26677.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISGHTTSVKQQLDTLSATVSTQFSTTEAELSRQQKKLLWQVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            complement(775..1326)
                     /locus_tag="HV006_22200"
                     /pseudo=""
     CDS             complement(775..1326)
                     /locus_tag="HV006_22200"
                     /inference="COORDINATES: protein motif:HMM:NF015397.1"
                     /note="incomplete; partial on complete genome; missing
                     N-terminus and C-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(1484..1807)
                     /locus_tag="HV006_22205"
     CDS             complement(1484..1807)
                     /locus_tag="HV006_22205"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="QMB26679.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1871..2062
                     /locus_tag="HV006_22210"
     CDS             1871..2062
                     /locus_tag="HV006_22210"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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="QMB26678.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2144..2227)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.882"
                     /coverage="95.0"
                     /evalue="4.11e-16"
     Typing          complement(2..1494)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.382"
                     /coverage="94.0"
                     /evalue="0.0"
ORIGIN
        1 atcccttagc tgttgttcgc gataaataac cgactcaagc gatccacttg cccggctaat
       61 ctctgcacct gctgactcaa tatcacgacg cgctcgttca gtatcgcgtt gttccgttgc
      121 gtaacctcgt gcatcttctg caattccgcg aaggcgctct cccactcgtt cagccgccgc
      181 atatagtcct gttgcaaatg ctctaaggcg ttcagcaaat gcccttccag ttccgtcata
      241 ctcgtttact ccctgaccag cctcacggcg ttcttgtcgc ccaccgtcca ggtgttttcc
      301 cctttcaccc cgtccggcag caccagaaat ttcccgttct cgccattgac gaacgtcacc
      361 ccccaggttt ttgcctcgag tttcgccagc gtgttttcct gctctctgat agtcaggata
      421 tttttcgcaa tcttgctttc ttgccactcc atcagccccc agcaccccag gaaaatgccg
      481 cccgtgacgc tgagcgcggt cagcgccgga aacagtatcc gccctttgat cacctgccag
      541 agcagttttt tctgctgccg ggacagttcg gcctctgtgg tgctgaactg cgtgctcacg
      601 gtggcgctca gtgtatccag ttgctgtttc acggatgttg tatgtccgct gatagcgtct
      661 ctgattttct gcctgtttaa gctcagtgcc ttgtctacag actcttcgag cttcctgaac
      721 tcgctgttca gcatgttctc ggtagaagcg gctcgctctt tcagtttctt ctcgaagtct
      781 gttcccattt gtaaaagatt gctcatacag cgcccccttt agcctgagat tccgcccacc
      841 ctccgggtcg gcaatactga tactgcttct ggttgtcctc accacctcaa aacctgccgc
      901 tgtgagcgcc tcagtgacat cctgacgcgt ttttattgct ccggcatggt aaagcgcctc
      961 aagaccccgt gtaatcgctt ctgcggcctc ctgtttcgct tttggcagat tatttggcgt
     1021 gacaagcgtc cgtctgttct ccggtgcgtt cgggtcacgc agcccgtaat gatgattaac
     1081 cagcgtctgc caggcattta tcctcggcct gtccgcacgg tcgtagtacg gctggaggcg
     1141 cttaccgctc tgtagctcca tgttcgggat gacaaaattc agttcgagcc gccccttatc
     1201 ctggtgttcc acccagagaa tgctgtactg gtctttttcg agaccgggca taagaacacg
     1261 ctcaaagctc gtcatcactc tttcgcgttc acccggcggt aactccttct ccgcgaacga
     1321 cagaacgcct gacgtgtatt tcttcgaaaa tggcgtggaa tcaatgagtt cccgcacttc
     1381 ttccgggtta ccccggagca ccgttgcgcc ttcgcggtta cgctcccgcc ccagcaggta
     1441 atcgaccggg ccacttccac cgcctttccc cctggcatga aatttaacta tcatcccgta
     1501 ccccctgttc cctgacagcc tgccgcaact ggcgcaattc accctcgatg gccatcagtg
     1561 cggccaccac atgaacccgg tcaatcgaag accactgacc gctgttcacc ttccgggctg
     1621 tctggttcag gttgttcccg atggcagcca gatgccgcag caatggcggt gatagtgtcg
     1681 gcagttttcc tgtgcgtgca accggctccc ccagacagac ccgccgcatc cattctgcca
     1741 gtcgtttacc ctcgcagcgt tccagtaacc gggcgtgctc ctcatcgcta acccgtatcg
     1801 tgagcatctt ctcgcgtttc atcggtatca ttccccctaa caaatcccca atacaaggag
     1861 ccttaagacc atgaccaaac aggaaaaaac agcccttaac atggcccgtt ttatcagaag
     1921 ccagacgctg accctgctgg aaaaactcaa cgagctggac gcggacgaac aggcagacat
     1981 ctgcgaatca cttcacgacc acgccgacga actctaccgc agttgcctcg cacgcttcgg
     2041 cgatgacggt gaaagcaact gaaacatgca gctcccggag acgttcacag cttgcctgtg
     2101 agcggatgcc gggagcagac aagcccatga gggcgcgtca gtgcgggtgt cggggcgcag
     2161 ccctgaccca gttcacagag cgatagcgat gtgtatactg gcttatctca ttttgcatcg
     2221 gagcagagtg gatggaaagt actccatgtc aggagtaaaa agccgcacag atgcgtaaaa
     2281 acagcgcacc cgataaacag cacacatgcg gacacgggca caggcgcgta agtgcacaat
     2341 gcttgcctcg gtgacacttc cgcttcctcg cccactcgct cactacgttc ggtcgctggg
     2401 gctgcggcga gcggtgtgat cactctcgtt gtgatgcaga tccgtttttt ttttttgcac
     2461 aggagttatc aggagttgcg gtgcacatgg gatcgtgcga tatgccggat ggtgaaaggt
     2521 tggagggaac ggcaacaact cacccctccc agtgaaggga cgggtagttt gccgctctcg
     2581 atatgccgga cggagccaag gccatcgatc acggggcgcg tcagtggaag aacccgcgcc
     2641 tgcgtgacgt atgcgtcttc gccgcaccat ctcacccgtc acgccaccac ataccgggaa
     2701 ctgccgccaa ggtctaactc aaccaatcta gccgcgctac atacggtttt tgtggcaact
     2761 catcaggtgt ccgctgtcga tgaaactctc tgcgccggta gcggaactct cacgcgtgcg
     2821 gtcgccgtcg tcacagctcc cccaaccgca aacggtcttt gcaaacacgc aagcatctgc
     2881 aaaaaaaggt tttttttcgg gtatctggga ggctgtgcag cggaaaaatt cttgaagaat
     2941 acagaaggtt catgcaaact gaatgaactg gtttctgtcg ctgcgaacaa cagactccac
     3001 aggaacattg aggaggtcga aaacctcaat gaacccgaag aagctcgcct aatggcgggc
     3061 ttttttcgtt ctacgctctc cgacgaaaga tcgcaagtga aataacgaga tttttcacgt
     3121 ctttacgctc aaaaagcaaa aaaaccatgt tttcccctgg ctgaatcccc aaaaacgcgt
     3181 gaaatgcgtt ttcaggatat tgcatagcta tgcacaaata cggcacacga tttgtttcgc
     3241 tcgcccccag ccgtcgaatg ggtcaaaatg gcaaggtttc gtcacttccc cggtcacatc
     3301 tccattgatg gcccactccg aacccgcgcc gcgcgttcct gtacctcatg tctgtaccgg
     3361 gcacgctcct gttc
//
