LOCUS       CP057534                4237 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB23-C10 plasmid pRHB23-C10_10, complete
            sequence.
ACCESSION   CP057534
VERSION     CP057534.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148215
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4237)
  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 4237)
  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                     :: RH12 T2-C10
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 121.496788627939x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 09:29:45
            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)                     :: 4,794
            CDSs (total)                      :: 4,672
            Genes (coding)                    :: 4,533
            CDSs (with protein)               :: 4,533
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 139
            CDSs (without protein)            :: 139
            Pseudo Genes (ambiguous residues) :: 0 of 139
            Pseudo Genes (frameshifted)       :: 54 of 139
            Pseudo Genes (incomplete)         :: 71 of 139
            Pseudo Genes (internal stop)      :: 35 of 139
            Pseudo Genes (multiple problems)  :: 20 of 139
            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..4237
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB23-C10"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB23-C10_10"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            105..395
                     /locus_tag="HVX98_23950"
     CDS             105..395
                     /locus_tag="HVX98_23950"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="transcriptional regulator"
                     /protein_id="QMJ44367.1"
                     /translation="MTKHDAIRISQLHQIFYDDDGLIDSEKNVTILYSIGFTVDEIAHF
                     RNSTPNTVASQLLNARVKLGCASVSSLKPMILLRLLLNIKEIRFGFETDCK"
                     /name="transcriptional regulator"
     gene            483..746
                     /locus_tag="HVX98_23955"
     CDS             483..746
                     /locus_tag="HVX98_23955"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001677227.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EexN family lipoprotein"
                     /protein_id="QMJ44363.1"
                     /translation="MKKICTLLMSIFILSACGEDTKSSDWWLNHPKEATEKYKECKKSG
                     EDSVNCQNVKKVAGIIGRTYGPMLEILKAESAEYDKQHGLNR"
                     /name="EexN family lipoprotein"
     gene            751..1749
                     /locus_tag="HVX98_23960"
     CDS             751..1749
                     /locus_tag="HVX98_23960"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000012467.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type IV secretion system protein"
                     /protein_id="QMJ44364.1"
                     /translation="MSGFFEKFNSEVVSKIEEMTKPLQSQLGQDMLSLLSAGISVYILW
                     VGYQILAGKRQTPLQDLVWDLSKFAIILTFVSNADGYLTAAMDAIKSMKDGFLGKPVWA
                     TLDTMWSTTQLLADKVYAMDQSKYVSVEGGIGSMLVWGGSILIMSVAAVIYMLADVTMQ
                     LAILVAPIFIGCYMFGFTRVMFNNWLGILFSSVFTVIFAGVLVKIGTEFQTDMLSQISR
                     DANSTNILTMGAMAFVIGVLIAVFVWKSSSFAQQLAGAGVEGTLQGMALLGIGAAGMAV
                     EKTRNQMKRGTRTAAEWAGEKGEQKRASIGALGMEARRRASLEKARARNSA"
                     /name="type IV secretion system protein"
     gene            1746..2459
                     /locus_tag="HVX98_23965"
     CDS             1746..2459
                     /locus_tag="HVX98_23965"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001590713.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type IV secretion system protein"
                     /protein_id="QMJ44365.1"
                     /translation="MNKKLIFSVLLCLFSFGSVAGIPVAIDASPEWAVEATRWTERLKQ
                     WSETARHYQSQIQAYKDQLATATGIRNIAAFTNELSNLQSELANIYKQGNSYISDFTSN
                     PEGALSSQAKNLFSKYGAFNMCSTGIESSDNLCKARIVSTAASIEQGNEINKQLSSAMS
                     QIQSLSNRIESSKDMKESQDLANALQAQSLKIQAIKMQYDVWDSKNRADAEMLKEQKYA
                     EYRLRQKNAKIPSFE"
                     /name="type IV secretion system protein"
     gene            3646..4161
                     /locus_tag="HVX98_23970"
     CDS             3646..4161
                     /locus_tag="HVX98_23970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000097059.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="QMJ44366.1"
                     /translation="MSSLSLQRYETNPFLELMTIPMKGKRIQVSRLGRDDNVLVNQNTG
                     EKFGTHVTTFKRVDSEQFVKLFTANIGLTFDLSSAGIKAFNVLLWAVQKQAFAKDQVLL
                     DSRALDDFLKSYDSLKLSYATLKRGINELEKAQIIAKTMRKGFYFINPNFVFNGDRIAF
                     TTLIERDC"
                     /name="replication/maintenance protein RepL"
     Typing          752..1554
                     /name="MPF_T"
                     /typing="mate-pair-formation"
                     /tool="MOB-suite"
                     /identity="89.552"
                     /coverage="91.0"
                     /evalue="1.15e-160"
ORIGIN
        1 atgtttttgc ctgtgcctgc cgcaggctac tagaagtagt cgcaggcgaa caaaagtggt
       61 gttttgttcg cctgctaatc acaacaacct ggctagaggt ttttatgact aaacatgatg
      121 ctatacgcat ttctcaactt catcaaattt tttacgatga tgatggatta attgattcag
      181 aaaagaacgt gactatttta tacagtatag gatttacagt tgatgaaata gctcatttta
      241 gaaattcaac accaaacaca gttgcgagtc agctattaaa tgcaagggtt aaattaggtt
      301 gcgcctcggt ttcatcttta aagccaatga tcttattaag attgcttttg aacataaaag
      361 agattcgttt tggattcgaa actgattgca aataatatag ttcaataggt atttttgctc
      421 ttgactagaa ttacaattgc tgattgtatc agcaattgta atgtccatac gaggaatcaa
      481 agatgaaaaa aatttgtacg ctcttaatgt ctattttcat tctttccgca tgtggtgaag
      541 atacaaaatc atcagattgg tggcttaatc atcccaaaga agcgacggag aaatataagg
      601 agtgtaaaaa gtcaggggaa gattctgtta attgtcaaaa tgttaaaaaa gttgccggaa
      661 ttattggtag aacctatggc cctatgcttg aaatacttaa ggctgagtca gctgaatatg
      721 ataagcaaca tggattgaac aggtgataac atgtctggtt tctttgaaaa gtttaatagc
      781 gaagttgtta gtaaaatcga agagatgacc aaaccacttc aaagtcaatt aggtcaggat
      841 atgttatctc ttctaagtgc aggtattagc gtttatatcc tctgggttgg ctatcaaata
      901 ttggcaggga aacgccagac cccattacaa gatctcgtct gggatctatc aaaatttgcc
      961 attattttaa cattcgtaag caatgctgat ggctatctga cggcagcaat ggatgctatt
     1021 aaatctatga aggatgggtt ccttggtaaa cctgtatggg caacgctaga taccatgtgg
     1081 agtacaactc agcttttggc tgacaaagtt tatgctatgg atcaatccaa atatgtgtca
     1141 gttgaaggtg gaatcgggtc aatgttggtt tggggaggaa gtatcctgat tatgtctgta
     1201 gcggctgtta tttacatgct tgccgatgta acaatgcagt tagctattct tgtagctccg
     1261 atatttatcg gttgttatat gtttggattc actagagtaa tgtttaataa ctggcttggt
     1321 atattatttt ctagtgtatt tactgttatt tttgctggag ttctcgtcaa aattggtacc
     1381 gagtttcaaa ctgatatgct tagtcagata tcgagagatg ctaactcaac aaatatttta
     1441 acaatgggcg caatggcatt tgtaattgga gttctgattg ctgtctttgt ctggaaatca
     1501 tcgagtttcg cgcagcagct tgccggtgca ggtgttgaag gtactcttca gggaatggct
     1561 cttttaggga ttggggctgc tggaatggcc gtagagaaaa cgagaaacca gatgaaacgt
     1621 ggaacgcgaa cagccgccga atgggcaggt gaaaaagggg agcagaaacg ggcttcaata
     1681 ggcgcattgg gaatggaagc aagaagacga gcatccctgg aaaaagcacg tgcgaggaat
     1741 tcagcatgaa caaaaaacta attttttcag tacttttgtg cttattttca tttggttctg
     1801 tcgcaggtat tccggttgct attgatgcca gtccggaatg ggctgttgaa gccacaagat
     1861 ggacagaacg actcaaacaa tggtctgaaa cagcgcggca ttatcaaagt cagattcagg
     1921 catataaaga ccagttagcc acggcaacag gtataaggaa tattgcggca ttcacaaatg
     1981 aactaagtaa cctacaatca gagctggcaa acatttataa gcaggggaac agttatattt
     2041 ctgattttac cagtaatcct gaaggtgcat taagtagtca ggcgaaaaat ctgttcagca
     2101 agtatggtgc ttttaatatg tgttctacag gcattgaaag ttctgataac ctttgtaagg
     2161 ccagaatagt ttcaacggcc gctagcattg aacagggaaa tgagataaat aagcagctat
     2221 caagtgcaat gtctcagatt cagagtttaa gtaaccgaat tgagtcttca aaggatatga
     2281 aagaatccca ggatttggct aacgcattgc aggcgcagtc gttaaaaata caggcaatta
     2341 aaatgcagta tgatgtatgg gatagtaaaa acagggctga tgcggaaatg ttgaaagagc
     2401 aaaagtatgc tgagtatcgc ctgcgtcaga aaaatgcaaa gataccgagt ttcgaatgat
     2461 atgataaagc taaataagct aaaagaatgg gtagataatc attggtctag attgaatagt
     2521 accggttcta caccgccgcc actgttaatc tcgctaccaa tcatagttat tgttttaagt
     2581 gtggagctta cgttaaagct gattaatgct ttaatgtatt atggtacatt gcaatttatc
     2641 actgataaaa ttgaaaagag gtttgttccc agcggtggta taaaagaaag actccttttt
     2701 acgttaaagc tgttttgtat tttacttctg ttattaatag taatgcgatt ttcaatgaag
     2761 taaaaaataa aggtcatcga atagatggcc ttttctattc taaattctaa atatagagcc
     2821 tgcggcaggc acaggcaaaa acatcgtttt tggacaatct gattcaaatg ttaacatttg
     2881 acatcggatt gtctatcctg cattgctctt ttgccgacct caaaacccct agcgtgtttt
     2941 tgtttcccga tctctagaac caccgagccg ccacggttcc ggcagcgcct tgagcgcaac
     3001 cggaaaccgt ctggggagaa ccccagaccc ccatcgctgt aacatcgacg gtctacgacc
     3061 acctaccaac cgtgtggcta cctgttccat gctaatgggc tttgcagggg gctggcgcgg
     3121 ttcctggcga cctgaaagcc cctggttagg ggtatcggcg cgcctgacct cctgaaaccc
     3181 tctgtaagca tttttcgcgc ctttcatgcc ctgacgggca tctaaagccc gtttcgtgcg
     3241 tctgagcgcg ttttaagagc taagacgact aaaacattac caacacctga aaatcgcgtt
     3301 ctggtgctct ggatggccca cagaacgcat tttcgaacag aacagcaacg gcatttctga
     3361 caacatgcga gaggtgatcc cgctcgccgc agccccagcg accgaacgta gtgagcgagt
     3421 gggcgaggaa gcggaagaga attgatagcc ataattgagc acctacgctc cttagttaag
     3481 aactaagaag ggaaattctc ggaacccgca tgaatcctag aaagtggtga tcaggatctg
     3541 taccttgtaa gctcagatcc ggtaccttgc aggctcaaaa attgcttgat tttgagctta
     3601 tgaggattta ttgtgaatct ccaaagccca aaaaaggatg caataatgag ctcgctaagc
     3661 ttacagagat acgaaacaaa cccgttttta gagcttatga cgatcccgat gaaagggaaa
     3721 cggatacaag tatctcgtct tgggcgggat gacaatgttt tggttaatca aaacacggga
     3781 gaaaagtttg gaacacatgt aaccactttt aagcgtgtag atagtgagca atttgttaag
     3841 ttgtttactg cgaatattgg gttaacgttt gatttatcat cggcaggaat taaagctttt
     3901 aatgttcttt tatgggctgt tcaaaaacaa gcctttgcaa aggatcaggt tcttttggat
     3961 tcaagggctc ttgatgactt tttaaaaagc tatgatagct taaaacttag ttatgctacg
     4021 ttaaagagag gaattaacga gttagaaaaa gctcagatta tagcaaagac aatgcgtaaa
     4081 ggattttatt ttataaaccc caattttgta tttaatggag atcgaatagc atttacaacc
     4141 ctaattgaga gggattgtta atcgatagaa caatacaatg caggatagac aatccactag
     4201 aaattgcatg caattttcag tggattgtcc aaaaacg
//
