LOCUS       CP058030                4072 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB03-C16 plasmid pRHB03-C16_4, complete
            sequence.
ACCESSION   CP058030
VERSION     CP058030.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15147980
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 T1-C16
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 90.0087138364517x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 14:08:09
            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)                     :: 4,455
            CDSs (total)                      :: 4,334
            Genes (coding)                    :: 4,168
            CDSs (with protein)               :: 4,168
            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)              :: 166
            CDSs (without protein)            :: 166
            Pseudo Genes (ambiguous residues) :: 0 of 166
            Pseudo Genes (frameshifted)       :: 87 of 166
            Pseudo Genes (incomplete)         :: 71 of 166
            Pseudo Genes (internal stop)      :: 32 of 166
            Pseudo Genes (multiple problems)  :: 21 of 166
            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..4072
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB03-C16"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB03-C16_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            43..744
                     /locus_tag="HVV63_22265"
     CDS             43..744
                     /locus_tag="HVV63_22265"
                     /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="QMQ48181.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(1002..3149)
                     /locus_tag="HVV63_22270"
     CDS             complement(1002..3149)
                     /locus_tag="HVV63_22270"
                     /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="QMQ48183.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALVNAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRENRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="MobA/MobL family protein"
     gene            3328..3582
                     /locus_tag="HVV63_22275"
     CDS             3328..3582
                     /locus_tag="HVV63_22275"
                     /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="QMQ48182.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobilization protein"
     Typing          complement(2792..3150)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.722"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3151..3327
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          44..744
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.715"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(1006..3236)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.722"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cgtacagtaa aaaaacgcca ccaatagcaa cgagcaagcg aaatgtcaga tctgatagct
       61 tacaaatcaa acgcccttat cgaggcaagc tacaagctca ctttgcagga acagcgcttc
      121 ctgctggtct gtatcagccg cctgaaatcc ggagaagatt ccccttcgcc ggatgaacaa
      181 aaaaccatga ccatcacggc tgcagagttt catgatgcct ttcctgacat gggacggcag
      241 cacgctgaag ctaggctcaa ggaagcgata gatcgcctct gggacaggtc agtaatcatc
      301 aagaacgagg aaaaacgaga agagttccgc tgggtgcagt accgggcgca gtatttcaaa
      361 ggtgaggcga aagtagatat caccttctcc gatgccatca tgccgtatct gacacagctc
      421 aaggggcagt ttacgcgggt agtcgtgaag aacgtctcca gcctttccag cacctacagc
      481 atccgcattt acgagctgct ccagcagttc cgcagcaccg gtgacagaac gatagctatc
      541 gatgatttcc gaaccatgct tgctgttgaa gataaatatc aacaattcaa agacttgaat
      601 aagatgataa tcaagccagc catcgccgaa ctgaacgaaa aaagcgatct ggttgtaact
      661 gttgagacga tcaaaaaggg gcgcacggtt gtagccctgc attttcgctt caaggaagac
      721 aaacagatca agatgacgat ctaaaatcga ttttaaggca cctaaaacgc tccctgctgc
      781 gttttttttg tgttagtagt gcgaaggtac tattgaagtg aaaaattgcg tcaaaaacgc
      841 tctgatgcag cgaaaaaaga ccccccaatt tttgggggcg gaaaaacaaa actatgcttg
      901 cgttatgtga gtgtgcttct tgcattcatc cctgtcgatg aacatcgaag aacatcgacg
      961 aacataacac gatgttaaac aaaacaaaat attgttcaca ttcactgtga ccaaccgcga
     1021 tcatgtctcc tctcggtggt gtgtgttcgt gcatcttcct cgcgctgcca ttcctcccag
     1081 gtacgattaa aacccagcga gcggaacaga tgatccggct gtttttctgg tgtgttgacg
     1141 gcagcaaaaa gcggtgcctc acgggttttc agatgaaact gcatcagttc tggtgcaggt
     1201 gatatgtggc tgtctgcatc gtgatttacg gcaacaccat accctgcata ccgtaacccc
     1261 ttatcggtca gcgcactgat gaccagatgc ctgttatcgg ctgagggaac ggcaaacgcg
     1321 ggatacagcg taccattaag ccggataaca ccgcccagag agtcatccac gcccatgacc
     1381 agcaaaagct gaagctgacg gttttcccgg tcgacagaac tcatgaccgg catcagcgtc
     1441 ggtggcagac gtccctgcat aaaatccacc ttccttgccg ctggtgatgg catggctggc
     1501 tggcggtctt ctccaagaca gaaagactcc ggccatgtct tcggctggcg gagattgcgg
     1561 gtatgttgcg gccatgtctg gcaaacctgc gtcagcagtt gctcaaaggt tgcagaggaa
     1621 taaacacgtt gcagtggcgg acgttggccg atttcgcttc ggtcacagat ataaccactc
     1681 ctgtcacgca ttaaatcaac actctcaaag attctggtgc ggtatttctc cagctcgttc
     1741 ccccagagcg tatattctcc gttccggttg tgaagcagaa ggtaacaggt catttccccg
     1801 ttaccaggca tgggagcctc gccatacccc gtaacgactg ctctcagcac ccctgaatcc
     1861 ataacggcat tgtcattttt cctgagctgc tccgcgcgac tacgttcagt atcttcctgt
     1921 tccttccggc gcaattcctc ttcacgttta agcaactggg ctctgagagc tgcaaggccg
     1981 gattcccccc actgctgcca ctgtttttca aatgccatct gactcgcggg aatgtcctgt
     2041 ttctccacct tccggtaatg ctgtcgtaat ttttccattt gctggctcag agactggatt
     2101 tttccctgct cactacggta ttccggtgcc gcccattgca tcaggggaat acgggaaaaa
     2161 ccggacgaaa acggcgatga ttttttcagg ctggcagcat ggctcatcgc ttcctttcgt
     2221 tcggtgttca gctcttccca gcgtctgcgc gtcgcctgca tatctgccat catcgacatg
     2281 gcattactgg tgagtttcca tgccgagtta ctgtccttcg gcaacgcttc gataatgtca
     2341 cgtagtgtgt acgaagttgc gttgtcagga agcccgatat tcagaaggtc agccacacgg
     2401 cgggcaggct ctgtcagccc tccgttcctg agttcggtgc gggaaatctg tatttccagg
     2461 ttaagcctgt taatcagacg attctgttcg ccgcgttctg tttcgatacc gcgtgtttcc
     2521 atcgcacagg cagactttcc gaggtgaata ccaggcgttt tctcaagccc ctgtcgctcg
     2581 tatgaacgat ggtctatctc ttcctgataa ccggcgttca ccagtgccct gtttgcatgg
     2641 tcagcccatg atgcccgcca cgtctcggca tgtgtccggt cgttccagtc cctgaccttt
     2701 ccgctgaacc cagcaggtcc gatagccctc gtggtcagca tgatgtgcgc atggggattt
     2761 gttttatcca tgtgatggaa cgccacatca gcaatcatgc cctgactgac aaagttttct
     2821 ctgacaaagg cgagaacggt ttcccgggcg gcatcctgcg gcagttcgtg ggggatggcg
     2881 agttcaattt cccgcgcaag ttgtgagttc ttccggcgtt cggccttctc aacggcattc
     2941 cagagttcgg cacggttcgt acaccaggca ggggcggtgg cgggggtcag aatcacagcc
     3001 tcagccacac cgcttttgcg ggtgtagtcg tgagtcagtc cggtacgctc atcaagcatc
     3061 agtgaaccgg aacgataggc agcggaagct acggcgctgt agccgctgct tctggagata
     3121 attttcatgc tgagatgata aatcgccatt tctgccgtaa tgcctttttg tagttttctt
     3181 tcagccccgc agggcgcaca caatcgaaac ggagtggaga ttgtataagt gcgcacttcg
     3241 tgatttgccg tgcattatgc cagctcagtt tttaaactac cagtgacgcg ctaaaatgcg
     3301 atttttcatc gcgcacggag ttacatcatg agcagaacgc tcgaacagaa gattgctgat
     3361 gctgaggcga gattacagcg cctgaaggcg aagagccgga gcctggacac agcgcagaag
     3421 gttgttgtgg gtgctgcatt gctggcaaag gtcagaaagc cggaggaggt gcagttgcgt
     3481 gcctggttac tccagttcct gaaggcagag gtgacacgac aggctgatgt gacgcgcata
     3541 ctgccgctga ttaacgagct ggaggcgctg ccagaacagt gattgtatcg tccgctcgcc
     3601 gcagccccag cgaccgagcg ttagcgagcg agtgggcgag gaagcggaag tgaatcagtc
     3661 gccaggttga gcacatacgc acggtttttc ggcaggtgat atgcgctgaa cccgcatgaa
     3721 tactgggttt ccacagggtt ggagggggtg tattcgaaac ttgcaattct gctttattgc
     3781 aacgcattgt ttttattggt tttttgtttt cagcacccca agttatccac aggctcgccg
     3841 ttaagttttt aagatcttat ttttagatct tttttttaaa acctttttag gtcttgtaac
     3901 accatgattt taaagatgtt ctggcaagat aagtggagct tttgggggtg aaaggtggag
     3961 cttttggggg tgaaaggtgg agcttttggg ggtgaaaggt ggagcttttg ggggtgtaat
     4021 ccacagaaaa agggggttgc aaaaaaaaaa cttccaccca tatgataagt gg
//
