LOCUS       CP057821                4074 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB14-C14 plasmid pRHB14-C14_4, complete
            sequence.
ACCESSION   CP057821
VERSION     CP057821.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148110
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4074)
  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 4074)
  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                     :: RH04 T1-C14
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 97.4237353799961x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 12:02:32
            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)                     :: 5,090
            CDSs (total)                      :: 4,973
            Genes (coding)                    :: 4,772
            CDSs (with protein)               :: 4,772
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 201
            CDSs (without protein)            :: 201
            Pseudo Genes (ambiguous residues) :: 0 of 201
            Pseudo Genes (frameshifted)       :: 80 of 201
            Pseudo Genes (incomplete)         :: 118 of 201
            Pseudo Genes (internal stop)      :: 36 of 201
            Pseudo Genes (multiple problems)  :: 31 of 201
            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..4074
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB14-C14"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB14-C14_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(3894..4074,1..1979)
                     /locus_tag="HVW93_25420"
     CDS             join(3894..4074,1..1979)
                     /locus_tag="HVW93_25420"
                     /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="QMM92638.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="MobA/MobL family protein"
     gene            complement(2237..2929)
                     /locus_tag="HVW93_25425"
     CDS             complement(2237..2929)
                     /locus_tag="HVW93_25425"
                     /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="QMM92639.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVDELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(3461..3715)
                     /locus_tag="HVW93_25430"
     CDS             complement(3461..3715)
                     /locus_tag="HVW93_25430"
                     /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="QMM92640.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKTEVTRQADVTRILPLINELEALPGQ"
                     /name="mobilization protein"
     Typing          4..178
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.727"
                     /coverage="99.0"
                     /evalue="7.540000000000001e-80"
     Typing          complement(3717..3893)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          3894..4074
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.352"
                     /coverage="99.0"
                     /evalue="7.48e-85"
     Typing          complement(2238..2929)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.821"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          4..1976
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.696"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cttggtgtac gaaccgtgcc gaactctgga atgccgttga gaaggccgaa cgccggaaga
       61 actcacaact tgcgcgggaa attgaactcg ctatcccccg tgaactgccg caggatgccg
      121 cacgggaaac cgttctcgcc tttgtcagag aaaattttgt cagtcagggc atgattgctg
      181 atgtggcgtt ccatcacatg gataaaacaa atccccatgc gcacatcatg ctgaccacga
      241 gggctgtcgg acctgctggg ttcggcggaa aggtcaggga ctggaacgac cggacacatg
      301 ccgagacgtg gcgtgcatca tgggctgacc atgcaaacag agcactggcg aacgccggtt
      361 atcaggaaga gatagaccat cgttcatacg agcgacaggg gcttgagaaa acgcctggta
      421 ttcacctcgg aaagtctgcc tgtgcgatgg aaacacgcgg tatcgaaaca gaacgcggcg
      481 aacagaatcg tctgattaac aggcttaacc tggaaataca gatttcccgc actgaactca
      541 ggaacagcgg gctgacagag cctgcccgcc gtgtggctga ccttctgaat atcgtgcttc
      601 ctgacaacgc aacttcgtac acactacgtg acatcatcga agcgttgccg aaggacagta
      661 atgcggcatg gaaactcacc agtaatgcca tgtcgatgat ggcagatatg caggcgacgc
      721 gcagacgctg ggaagagctg aacaccgaac gaaaggaagc gatgagccat gctgccagcc
      781 tgaaaaaatc atcgccgttt tcgtccggtt tttcccgtat tcccctgatg caatgggcgg
      841 caccggaata ccgtagcgaa cagggaaaaa tccagtcgct gagccagcaa atggaaaaat
      901 tgcgacagca ttaccggaag gtggagaaac aggacattcc cgcgagtcag acggcatttg
      961 aaaaacagtg gcagcagtgg ggggcatccg gccttgcagc tctcagagtc cagttgctta
     1021 aacgtgaaga ggaattgcgc cggaaggagc aggaggatac agaacgtagt cgcgcggagc
     1081 gacgagcgga acagctcagg aaaaatgaca atgccgttat ggattcaggg gtactgagcg
     1141 cagtcgttac ggggtatggc gaggccccca tgcctggtaa cggggaaatg acctgttacc
     1201 ttctgcttca caaccggaac ggagaatata cgctctgggg gaacgagctg gagaaatacc
     1261 gcaccagaat ctttgagcgt gttgatttaa tgcgtgacag gagtggttat atctgtgacc
     1321 gaagcgaaat cggtcaacat ccaccactgc aacgtgttta ttcctctgcg acctttgagc
     1381 aacttctgac gcaggtttgc cagacatggc cgcaatatac ccgcaatctc cgccagccga
     1441 agacatggcc ggagtctttc tgtcttggag aagaccgcca gccagccatg ccatcactgg
     1501 cagcaaggaa ggtggatttt acgcagggac gtctgccacc gacgctgatg ccggtaatga
     1561 gttctgtcga ccgggaaacc cgccagcttc agcttttgct ggtcatgggc gtggatgact
     1621 ctctgggcgg tgttgtccgg cttaatggta cgctgtatcc cgcgtttgcc gttccctcag
     1681 ccgataacag ccagctggtc atcagtgcac tgaccgataa ggggttacgg tatgcagggt
     1741 atggtgttgc cgtaaatcac gatgcagaca gccacatatc acctgcgccg gaactaatgg
     1801 agtttcatct gaaaacccgt gaggcaccgc tttttgctgc cgtcaacaca ccagaaaaac
     1861 agccggatca tctgttccgc tcgctgggtt tcaatcgtac ctgggacgaa tggcggcgcg
     1921 aggaagatgc aagaacacac accaccgaga ggagacatga tcgcggttgg tcacagtgaa
     1981 tgtgaacaat attttgtttt gtttaacatc gtgttatgtt cgtcgatgtt cttcaatgtt
     2041 catcgacagg gatgaatgca agaagcacac tcacataacg caagcatagt tttgtttttc
     2101 cgcccccaaa aattgggggt tcttttttcg ctgcatcaga gcgtttttga cgcaattttt
     2161 cacttcaata gtaccttcgc actactaaca caaaaaaaac gcagcaggga gcgttttagg
     2221 tgccttaaaa tcgattttag atcgtcatct tgatctgttt gtcttccttg aagcgaaaat
     2281 gcagggctac aaccgtgcgc ccctttttga tcgtctcaac cgttacagcc aggtcgcttt
     2341 ttttgttcag ttcgtcaaca cagggtttta ttagtatttt atttaagtct ctgaattgtt
     2401 tgtatttatt ttcaatccct aacattgaac gaaagtcatt aagagcaata attctctctc
     2461 ccgtactgcg gaattgctgg aggaactcgt atattcttat actgtaacta cttgataaac
     2521 ctgatatgtt ttttataaca acgcgcgtga attgcccctt cagttgcgtc agataaggca
     2581 ttaccgcgtc agaaaaggtt attcgagcct tggcctcacc tttagcgtac tgtgctcgat
     2641 actggatcca gcggaactcc tcacgcttct cgtcattctt gagaatgatc gacctgtccc
     2701 ataaacgatc gatcgcttcc tgtaactgaa cctcggcatt tttccgcccc atgtcaggga
     2761 atgaatcaaa atattccgca gcggtaatgg tcattgtctt ttgcaattca gcatcagcac
     2821 cagatttcaa tcgactgata cacagcaaca gaaaacgctg ttcctgtagg gtcaacttgt
     2881 agctggcctc aaccaaagca ttcgacttgt aggcaatcaa gtccgacata caaagatccc
     2941 gttcaaatgt ggtgatgctt taatgtgccc cacaaataag aaatgtggaa tgtttttttt
     3001 tatatcctca catttctgtg aataacacct taaattcctc cacctttacc ttaaattcct
     3061 ccacctaaac accttaaatt cctccacctt taccttaaat tcctccacat ataccactat
     3121 aacatattga ttttattaat gaatttcacc cctaaaacaa gtattaaaaa caagatctta
     3181 aaaacaagat ctaaaaactt aacggcgagc ctgtggataa cttggggtgc taaaaacaaa
     3241 aaaccaataa aaacaatgtg ttgcaagaaa gcagaattgc aagttccgaa tactccccct
     3301 ccaaccctgt ggaaatccag tattcatgcg ggttcagcgc atatcacctg ccgaaaaacc
     3361 gtgcgtatgt gctcaacctg gcgacggatt cacttccgct tcctcgccca ctcgctcgct
     3421 aacgctcggt cgctggggct gcggcgagcg gacgatacaa tcactgtcct ggcagcgcct
     3481 ccagctcgtt aatcagcggc agtatgcgcg tcacatcagc ctgtcgtgtc acctctgtct
     3541 tcaggaactg gagtaaccag gcacgcaact gcacctcctc cggctttctg acctttgcca
     3601 gcaatgctgc acccacaaca accttctgcg ctgtatccag gctccggctc ttcgccttca
     3661 ggcgctgtaa tctcgcctca gcatcagcaa tcttctgttc gagcgttctg ctcatgatgt
     3721 aactccgtgc gcgatgaaaa atcgcatttt agcgcgccac tggtagttta aaaactgagc
     3781 tggcataatg cacgacaaat cacgaagtgc gcacttatac aatctccact ccgtttcgat
     3841 tgtgtgcgcc ctgcggggct gaaagaaaac tacaaaaagg cattacggca gaaatggcga
     3901 tttatcatct cagcatgaaa attatctcca gaagcagcgg ctacagcgcc gtagcttccg
     3961 ctgcctatcg ttccggttca ctgatgcttg atgagcgtac cggactgact cacgactaca
     4021 cccgcaaaag cggtgtggct gaagctgtga ttctgacccc cgcgacagcc cctg
//
