LOCUS       CP057676                4073 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB18-C12 plasmid pRHB18-C12_4, complete
            sequence.
ACCESSION   CP057676
VERSION     CP057676.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148156
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4073)
  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 4073)
  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                     :: RH13 T2-C12
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 87.576727862526x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 11:13:33
            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)                     :: 5,060
            CDSs (total)                      :: 4,944
            Genes (coding)                    :: 4,861
            CDSs (with protein)               :: 4,861
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 83
            CDSs (without protein)            :: 83
            Pseudo Genes (ambiguous residues) :: 0 of 83
            Pseudo Genes (frameshifted)       :: 30 of 83
            Pseudo Genes (incomplete)         :: 43 of 83
            Pseudo Genes (internal stop)      :: 25 of 83
            Pseudo Genes (multiple problems)  :: 12 of 83
            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..4073
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB18-C12"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB18-C12_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(426..1340)
                     /locus_tag="HVX39_25290"
     CDS             complement(426..1340)
                     /locus_tag="HVX39_25290"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001448734.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Abi family protein"
                     /protein_id="QML41157.1"
                     /translation="MPNTIHYPHVIPFISQGKINAIKSTFGNNLSDRECYGIYIWSQKA
                     SSAIYPLLQQLEVTLRNSIDKEATKLIGQKWWDNVYTDTSKSKHGDFIHNINKAKRRYE
                     NEFKKKNPSMANTKIIAPHDDIIAHTDFYTWQAVLSDAFHTQSRSEASRALWPRLTYRV
                     LKGLDRSKDEGTARIDFLNELNEIRNYRNRLSHNDCIWIKIHSKNLQSAVETIREKINK
                     IEGLIKTINPQVHLSLTKWGSFYHAKRICSQKEAELHLGKGIINSTTDEMNTILDQLYA
                     LTADGKLTGVVKRNTNNIAFHKF"
                     /name="Abi family protein"
     gene            complement(2345..2539)
                     /locus_tag="HVX39_25295"
     CDS             complement(2345..2539)
                     /locus_tag="HVX39_25295"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041627.1"
                     /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="QML41158.1"
                     /translation="MNKQQQTALNMARFIKSQSLTLLEKLDALDADEQAAMCERLHELA
                     EELQNSIQVRFETESETGT"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(3312..3905)
                     /locus_tag="HVX39_25300"
     CDS             complement(3312..3905)
                     /locus_tag="HVX39_25300"
                     /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="replication protein"
                     /protein_id="QML41159.1"
                     /translation="MSGRKFGRLPNWWARSSWLVNNVRSNEIGGGIASMKCLLALSVLI
                     DFHSRTASVSFTGMERLTGLSRPMIVKGVAKLEKDGLIKIDREMFVNSYELTVQPNDDR
                     WAKVPVDTIRKKLNTISNRGMAPFVALKLYLTIISLRYQSNNTVKVTHETLRSYTGVQP
                     NQIRFGLDVLYCSRLIHLQPKEDRESNIYEIIGL"
                     /name="replication protein"
     Typing          2178..2264
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.43e-38"
     Typing          2576..2674
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="97.0"
                     /coverage="100.0"
                     /evalue="6.26e-40"
     Typing          2799..3054
                     /name="MOBF"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="93.411"
                     /coverage="89.0"
                     /evalue="2.67e-103"
     Typing          complement(1608..2167)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.027"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gttgttgtgt tttaacttta tatacgctta ttagaataaa tctagataaa gcaatatttg
       61 gtggctgctt gttttcccat ataaaacatg atgttatctt gtttttatcg ttttttaact
      121 ggtaaatgta aatttgataa tgctggttta atcggcgttt ttagttattt ttgttgtgtg
      181 ttttttgatc tattggtaaa tggtggatgg taagctttgg cgtgatcatg ggaaatagtt
      241 tgctcttttt cctgatgatg atgtatcatg tatggcagtg aagccttgag ctttcgcttt
      301 aatgcattgt gaaattttta tagattcaca atgacattaa ggccacgctc caccgaaagg
      361 tgataatggc aagagatttg gatgaggctc gacaggaaac tgtcgggcct tttctatttt
      421 gtgatctaaa acttgtgaaa tgcgatattg ttggtatttc gttttacaac acccgttagc
      481 tttccgtcag cagttagtgc gtatagttga tctagaattg tgttcatctc atctgttgtg
      541 ctattgatta ttcctttgcc tagatgcaat tcggcctctt tttgagaaca tattcttttg
      601 gcgtgataaa aggaacccca cttcgttaat gataggtgta cctgtgggtt tatcgttttt
      661 atcagtcctt ctattttgtt tattttttct cttattgttt ctactgcaga ttgcaaattt
      721 ttagagtgta tttttatcca tatgcaatca ttatgcgata acctatttct gtagtttctg
      781 atctcattca gctcgtttaa gaaatcaatt ctggctgtgc cttcatcttt gcttctatct
      841 aatcccttca gtactctgta ggtgagcctg ggccataagg ctcttgatgc ttcagatctt
      901 gattgtgtat gaaaagcatc gctcaaaacc gcttgccatg tgtaaaaatc tgtgtgtgca
      961 atgatgtcat catgaggtgc aattattttg gtatttgcca ttgatgggtt ttttttcttg
     1021 aattcattct catatcttct ttttgctttg tttatattat gtatgaagtc accgtgtttg
     1081 ctttttgatg tgtcggtgta tacattatcc caccattttt ggcctattag ttttgtcgct
     1141 tctttatcaa tcgagtttct caaagtaact tcgagttgtt gcagtaatgg atatatggca
     1201 gatgaggctt tctggctcca tatatatatc ccgtagcact ccctatcaga caggttatta
     1261 ccaaacgtgc tttttatagc atttattttt ccttgggata taaatggtat tacatgaggg
     1321 taatgaattg tatttggcat atccatctct atcatacact tagtggtgat tggatgttgc
     1381 catacacgta tggatagttg tagagtgtta aacgaaaaaa ccgccttggc gggcggtttt
     1441 tcgaaggttc aaagagttgg cgctctgtga accaaggtaa ctggcttgga ggagcgcagt
     1501 caccaaaatc tgttctttca gtttagcctt aacaggtgca taacttcaag acaaactcct
     1561 ctaaatcagt taccagtggc tgctgccagt ggcgttaagg cgtgccttac cgggttggac
     1621 tcaagacgat agttaccgga taaggcgcag cggtcgggct gaacgggggg ttcgtgcaca
     1681 cagcccagct tggagcgaac gacctacacc gaactgagat accaacagcg tgagctatga
     1741 gaaagcgcca cgcttcccga agggagaaag gcggacaggt atccggtaag cggcagggtc
     1801 ggaacaggag agcgcacgag ggagcttcca gggggaaacg cctggtatct ttatagtcct
     1861 gtcgggtttc gccacctctg acttgagcgt cggttttttt gatgctcgtc aggggggcgg
     1921 agcctatgga aaaacgccag cggcgcggcc ttttgtcctg gctttgcctt gttgctcaca
     1981 tgttctttcc ggtcttatcc cctgattctg tggataactg tgttaccgtt tttgtgtgag
     2041 tcagtaccgc tcgccgcagc cgaacgaccg agcgtagcga gtcagtgagc gaggaagcgg
     2101 aaaagcgcct ggacgtgcat tttctcctta cgcatctgtg cggcatttca cacccggcat
     2161 ggggcacttt tcatacaatc cgcactgatg ccgcatggtt aagccagtat acactccgct
     2221 atcgctacgt gactgggtca tggctgcgcc ccgacacccg ctaaaacccc ctgacgcgcc
     2281 ctgacgggct tgtctgctgc cgaaaacgct cgcggacaag ccgtgagcgc ctccgtcagc
     2341 ttcgttatgt tcctgtttca ctttcggtct caaagcgaac ctggatgctg ttctggagtt
     2401 cttccgcgag ttcgtgcagt cgttcgcaca tggctgcctg ttcgtcggca tccagagcat
     2461 ccagtttttc aagcagtgtc aggctctggc ttttgataaa tcgcgccata ttcagcgcag
     2521 tttgttgttg tttgttcacc ttccgttgtt ctccgtcagt tccgggtgtc ggggggaccc
     2581 tgagcagctg gtaattgtaa gacgttgcgg gcgacggtat tacaattgca catcctgtcc
     2641 tattttttta ggacgtatca tggcacagca tatcaactga taaataatcc ctgtgcagtg
     2701 cagccgctgt tgcataaaat ttcgctctgc gtcgagtgtt tcttaatcaa taattccgct
     2761 gatactccgg aaaaacgcga gtctgttctc attcctgaaa tgcccacacc ccacgcaaaa
     2821 acaagttttt gctgattttt ctttataaat agagagttat gaaaaattag tttctcttgc
     2881 tctctttgcg atatttaaaa aagcggtgcc ggcgcagcta caacaccgcg ccgacaccgc
     2941 tttgtagggg tggtactgac tatttttata aaaaacatca ttttatatca ggggtgctgc
     3001 tagcggcgcg gtgtgttttt ttacaggacg cccctggggg cgctgccagg ggtgtctgtt
     3061 cagatatgta gcaatgagtc agggattcac gaactgaaaa tgtccgaaaa tgtgtctcat
     3121 gggcaccgta tgcgcccaaa ccgttcgtca ttcattttca tgcatagcta tgcagtgggc
     3181 tgaaaacgat cctgacgcat tttttcggtt ttcactgggt aaaacatctc tttttgcggt
     3241 atctgcgtca gaatcgcgtt cagtgcgttt tagcggtgcg cgtaatgcga cgttatggta
     3301 aatgcatttc ctcataggcc gattatttca tagatgtttg actctctatc ttcttttggt
     3361 tgcagatgta tcaggcgact acagtacagt acatctaagc cgaacctaat ctggtttggc
     3421 tggacacctg tatagcttct cagtgtttca tgtgtcacct taacagtatt atttgactga
     3481 taacgaaggc ttataattgt taaatatagt tttaatgcca caaatggggc catccccctg
     3541 ttcgatatgg tgtttagttt tttcctgata gtatctactg gtacttttgc ccacctatca
     3601 tcatttggct gtactgttaa ttcataggag ttaacaaaca tctctctatc tatctttata
     3661 agaccatctt tctcaagttt ggctactcct ttcactatca tggggcggct tagtccagtc
     3721 agtctttcca ttccggtaaa tgatactgag gctgttcttg aatggaaatc aatcaagacg
     3781 gatagagcta acaagcattt cattgatgca atgccgcccc ctatctcatt tgaacgaaca
     3841 ttgtttacaa gccatgagct tcgggcccac cagtttggaa gcctgccaaa ttttctaccg
     3901 ctcattttta ccccattttc ggtcaaggag agatataaat agctttatta tcatatacat
     3961 gaaaaccatt gcacctaaag atacaacaga aaccaaaacc tccggctttg cggaagttag
     4021 cgttaccagc aaattgttga gggtttccaa ttggtcctcc agtcgcatac taa
//
