LOCUS       CP057083                3702 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB38-C24 plasmid pRHB38-C24_9, complete
            sequence.
ACCESSION   CP057083
VERSION     CP057083.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148394
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3702)
  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 3702)
  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 T3-C24
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 140.926036525725x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 05:31:07
            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)                     :: 5,830
            CDSs (total)                      :: 5,691
            Genes (coding)                    :: 5,293
            CDSs (with protein)               :: 5,293
            Genes (RNA)                       :: 139
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 103
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 398
            CDSs (without protein)            :: 398
            Pseudo Genes (ambiguous residues) :: 0 of 398
            Pseudo Genes (frameshifted)       :: 138 of 398
            Pseudo Genes (incomplete)         :: 233 of 398
            Pseudo Genes (internal stop)      :: 59 of 398
            Pseudo Genes (multiple problems)  :: 32 of 398
            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..3702
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB38-C24"
                     /isolation_source="Pooled pig faecal samples collected from
                     floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB38-C24_9"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            450..1121
                     /locus_tag="HVZ77_29130"
     CDS             450..1121
                     /locus_tag="HVZ77_29130"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004864809.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="inovirus-type Gp2 protein"
                     /protein_id="QMC48079.1"
                     /translation="MGGILISNAVTRHYDNGRYSLINSKEYICNDIVFELNYEKDKNHS
                     PIRKEIMDRFIDQICAMRTHYKKTFAFRFDLHTRNYIYVPEGNRLVSQLFTRLHGKFKA
                     KNWNKQPIKNSANGWVREIGDKEEKLHYHCWLALPYFQVRKPGFNDSGIFGLINSIWGE
                     LTGGNGYTYLCDGRYVIDRDDDEALKAFITQVSYMAKSRGKFSTGDGHRIFSASRLARK
                     I"
                     /name="inovirus-type Gp2 protein"
     gene            complement(1286..1846)
                     /locus_tag="HVZ77_29135"
     CDS             complement(1286..1846)
                     /locus_tag="HVZ77_29135"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016245123.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="recombinase family protein"
                     /protein_id="QMC48077.1"
                     /translation="MGTFGYVRVSSKDQNESRQIEALKTLVDEILIDKASGKNADRPAL
                     KELMSKVRSGDTVRVKSVDRLARNTRDLLGILDELTTKGVRVEFIDNHMTFDDSPTSKF
                     ITTMLGAVGELERSFIRQRQAEGIKIAKAKGAFKGRQKDDEIRKKVAEYLTKGTYTNEE
                     IYKLVGCGRATFFRIKKELSKSL"
                     /name="recombinase family protein"
     gene            2529..2699
                     /locus_tag="HVZ77_29140"
     CDS             2529..2699
                     /locus_tag="HVZ77_29140"
                     /inference="COORDINATES: protein motif:HMM:NF021447.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF2158 domain-containing protein"
                     /protein_id="QMC48078.1"
                     /translation="MRFNIGDVVYLKSESKAMTIIDVDYYHSTAVCSWLDRSDQYYQVR
                     FHFLSLEKRTN"
                     /name="DUF2158 domain-containing protein"
ORIGIN
        1 gatttttgtg tagaactcta tctcatagtg tatcgataga gtcagttgtc ttgctctctc
       61 ttttctttag tcaattggag agcaatttcg cgctctttgt ctggcatagt acgtttcatc
      121 atttttcccc gaaaattgaa aatttactct acagatccag cggagaatcg atttgcgttg
      181 atgtttttac ctacccgtag gttacatttg caaatctgat tcgtggatgc gtttttgaat
      241 ccttaaaatc aattttagga cataactcga aatcgaatat cgctgcccta ggttgaaacg
      301 gacagtgttg ccgaaacttt tctgagtaaa aaaatggcaa taaatacatt ggctatgcca
      361 gttctggcgc ggcatagggg cgttttaccc acgtaataaa cgtactggta ccttataaga
      421 tctatataag atctatatat ctctacaaaa taggaggaat attgattagt aatgcagtaa
      481 cccgccatta tgacaatggt agatacagtc ttatcaactc aaaagaatac atctgcaacg
      541 acatagtatt cgaacttaat tacgaaaaag acaaaaatca ctctcctatc cgtaaggaga
      601 taatggacag attcattgac caaatctgtg cgatgcgaac ccattacaaa aaaacatttg
      661 ctttccgatt cgatctacat actcggaatt atatatatgt tccagaaggc aacagactag
      721 ttagtcaatt atttactcgc ctacatggaa agtttaaagc caagaactgg aacaaacaac
      781 caatcaaaaa ttcagcaaat ggatgggtcc gtgaaatagg ggataaagaa gaaaaactcc
      841 actatcactg ttggcttgct ctaccttact ttcaagttag aaagcctggc tttaatgata
      901 gtggtatatt tggattaatc aacagcatct ggggagaact gacaggaggc aatgggtata
      961 catatctatg tgatggccgt tatgttatcg acagggatga tgacgaagca ttgaaggctt
     1021 ttattacgca agtctcatat atggcaaaat ctcgtggaaa attttctaca ggtgacgggc
     1081 accgtatttt ttcagcatca aggctggcaa gaaaaatata aaatatctat aaacacaata
     1141 tatacccaaa cacgtttaac aacgttttct ccccgccatc ttaggcgata ttaaaaatat
     1201 ggtgcataat tctcatttct gaagctctat caaacgccct ggctatcatg ggcgttgata
     1261 ttaataaccg gacatatatt tcaatctaca gagatttact taattccttc ttgatccgaa
     1321 aaaatgtagc tcgcccacat ccaactaact tataaatctc ttcgttggta tatgttcctt
     1381 tagttaaata ttcagcgacc ttcttgcgga tttcatcatc tttttgtcgc cctttgaatg
     1441 cacctttcgc ctttgcaatc ttgataccct ctgcctgtct ttgacgaatg aaagaacgct
     1501 ccagttcacc aacagctccc aacatagtgg ttatgaactt gctggtgggg gaatcatcaa
     1561 aagtcatgtg attatctata aactcaactc tcacgccctt tgtagtcagt tcatccagta
     1621 tacccagaag gtcacgggta ttacgtgcca gacggtcaac gcttttaact cgaactgtgt
     1681 caccagagcg aactttactc attaactctt ttaaagctgg cctgtctgca ttcttaccgc
     1741 tggccttatc aatcaaaatc tcatcaacca gtgtttttaa cgcttcaatc tggcgtgatt
     1801 cattctgatc tttgctactt actcgtacat acccgaaagt tcccatagct ccctcaaaaa
     1861 gtctcatatc aatgacatca atgatacagt atcaaataag ttaaagcaaa gaaattttga
     1921 tactcagttc caacatcaac gacacgtatc aattgcgtct actcaaagga gactacagaa
     1981 tccctcactg atatttcgat ttttttaact actcgagata cttgctagcg tggtcgatac
     2041 cagaccgtac tgctcatgcg ctatggttga taacatgatg aagtgttcag gaggaaagca
     2101 ggtaattact aaacttcccc cccaaagtgg tttatgaggt ttgaagagtc agctcaccat
     2161 acccacctat ccgccatccg ccgcatgtgt catcaccttg ataacgtaaa atatagatgc
     2221 tctaacatag ggctttacaa ggaaaacttc ttcataatat atttaggaaa taaagctaat
     2281 atccaaaagg aagcctaaat gcccggaaaa aagtgtccct tctgtaacaa gctaactctc
     2341 ttcggaaata gttgtacatc ttgcaatgct gtggtgatca caccaccaaa cgaaggcaag
     2401 ggcggaagag gtaagcaatg tccattttgt aaaacaatga cactgttcaa agatggtacg
     2461 aatggagccc taaaatgctc cacgtgtcag cgtaggtttt ctcaatcata agggggaaag
     2521 gatttaatat gaggttcaat ataggtgatg tcgtttattt gaaatcagaa tcaaaagcaa
     2581 tgactataat tgacgtagac tactaccact ctacggctgt ttgctcttgg ctggacaggt
     2641 ctgatcagta ttaccaagta cgtttccatt ttttgtcgct ggaaaaaaga accaactaag
     2701 atttctaggg gacagcccac tgaaacggaa aaaatccacc ccctgattca ccataaccca
     2761 gtattgtatt tccccaggga agacctgaaa aatgtgtcag aaatgttttc agtgtgttgc
     2821 ataaccatgg atgaaactaa acggcgattg gtttgggcgt caggttatag gcgaaaagga
     2881 acacaggcgc gtaagtgctc aaatcagatt ggcggggaaa ttccgcttcc tcgcccactc
     2941 gctcactacg ttcggtcgct agggctgcgg cgagcggtaa caacgatcac agcgggtcaa
     3001 aatgattttc atacgctaaa tgtacaaaag ccccgtgaca gaatcacagg gcttcggtac
     3061 tctaattctt tgcagatacc tgccaggatc agacgtagca atctaaatcc tagcagggct
     3121 ggctagcttt gtcactacca gcttaatacc attcaacgac attaaaccca tatctgcacc
     3181 ttagatgctc aggtcttagc cccggactcc ggcaggataa acaggcaaac ggtgggaacg
     3241 taacttaacc gcgaaagagt taggctctac cccgtctcgc tgtacgataa ctagcacctg
     3301 ataaaatgag caactaagga gctgtaagag gtaaagtgtg attgcaaccg tctggcactt
     3361 cacccacaca atcgaacctt ttgcagggtg agacaaaaac aagaaacgag ctagacgaag
     3421 gtcgctccgc tccccgtttt ctggtgtacc caccacgggg gcattaggca actattgcct
     3481 tttttcaggc tacatgaaac acaagcctca aaaaattcac ccaaacaacg tttatctcgt
     3541 cagagagcgt tttagaggcc ttaaaatcga tttaagagca caacctcaaa ccaagccatc
     3601 aacaaactga tacaccaaac catgttaacg ctcatttcca gagtcaaaaa tctgcaaaaa
     3661 aaaacttgca tatctatata cttgacgata gcatcaatga tg
//
