LOCUS       CP057602                3524 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB21-C11 plasmid pRHB21-C11_3, complete
            sequence.
ACCESSION   CP057602
VERSION     CP057602.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148194
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3524)
  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 3524)
  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                     :: RH06 T2-C11
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 127.160307260902x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 10:35:28
            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)                     :: 4,714
            CDSs (total)                      :: 4,595
            Genes (coding)                    :: 4,491
            CDSs (with protein)               :: 4,491
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 104
            CDSs (without protein)            :: 104
            Pseudo Genes (ambiguous residues) :: 0 of 104
            Pseudo Genes (frameshifted)       :: 38 of 104
            Pseudo Genes (incomplete)         :: 49 of 104
            Pseudo Genes (internal stop)      :: 30 of 104
            Pseudo Genes (multiple problems)  :: 13 of 104
            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..3524
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB21-C11"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB21-C11_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(3157..3524,1..358)
                     /locus_tag="HVX77_23555"
     CDS             join(3157..3524,1..358)
                     /locus_tag="HVX77_23555"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001427890.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NYN domain-containing protein"
                     /protein_id="QMK30008.1"
                     /translation="MASMETEQQPQQTTEQIEVKTKRVQCFIDGYNLYHAIEETGNKAL
                     HWVDLKSLCKRYLPKNASIDNVFWFSAKPSHLSRAINENYQNYTNALTECGVDVIGGRF
                     KKKNVTCEADNGCGGVFHKHEEKESDVNLAISLVSGACNDEYDIAIIITADSDLCPPIK
                     YVRERFPNKELWLVAPPGRIRRATDLCSLSSRSMEIKNGALRACCMRDEFYKDGVLVAR
                     RPQEWRAVANTRQRRARSR"
                     /name="NYN domain-containing protein"
     gene            complement(1132..1341)
                     /locus_tag="HVX77_23560"
     CDS             complement(1132..1341)
                     /locus_tag="HVX77_23560"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001399823.1"
                     /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="QMK30009.1"
                     /translation="MNKQQQTALNIAKFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEAENRTRAGCRTA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1613..1936
                     /locus_tag="HVX77_23565"
     CDS             1613..1936
                     /locus_tag="HVX77_23565"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nikA protein"
                     /protein_id="QMK30010.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MED"
                     /name="nikA protein"
     gene            complement(2223..2837)
                     /locus_tag="HVX77_23570"
     CDS             complement(2223..2837)
                     /locus_tag="HVX77_23570"
                     /inference="COORDINATES: protein motif:HMM:NF025107.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="QMK30011.1"
                     /translation="MSTKNAQKEQKKESLITTHWGDDATIHGWTAIPNSLLMLQGDLGI
                     GSTEMCILLNILMHQWPESGESISFPSIGTIASRIGVSKRTIQRGVSNLEALGILTRYQ
                     STRNDPLTNGANIFDSTPLKEYLNKKAKGITISNSNKKKERKKTGITPNIKLPRICPKC
                     SKTKATSHEEVVKFFGVRKTMAGEIINSYCKECRASEKDLF"
                     /name="helix-turn-helix domain-containing protein"
     Typing          1379..1604
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.583"
                     /coverage="99.0"
                     /evalue="1.05e-76"
     Typing          complement(605..1127)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.106"
                     /coverage="94.0"
                     /evalue="0.0"
     Typing          1614..1933
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="4.29e-63"
ORIGIN
        1 gcatgaagaa aaagagtccg atgttaattt ggctataagt ctagtgtctg gtgcgtgtaa
       61 tgatgagtat gatatagcca ttattatcac tgcggattct gacttatgcc cccctattaa
      121 atacgtaaga gagcgattcc ctaataaaga gctttggctt gtagctcctc cggggagaat
      181 caggcgagcg acagatctct gctctctgtc atcgagaagt atggagatca agaatggtgc
      241 tttgagagcc tgctgtatgc gtgatgagtt ctacaaagat ggagtacttg tagccagaag
      301 gcctcaggaa tggcgagctg ttgccaatac caggcaaaga agggctagaa gtcgttaggc
      361 tttgttgacg cagctagcgc aaggagatta atctaactag gttgaaaacg aaaaaaccgc
      421 cttggcgggc ggtttttcga aggttcatag agttggcgct ctttgaaccg aggtaactgg
      481 cttggaggag cacagtcgcc aaaacttgtt ctttcagttt agccttatca ggtgcataac
      541 ttcaagactc aactcctcta aatcagttac caatgactgc tgccagtggc gttaagtcgt
      601 gtctttccgg gttggactca agacgatagt taccggataa ggcgcagcgg tcgggctgaa
      661 cggggggttc gtgcacacag cccagcttgg agcgaacgac ctacaccgaa ctgagatacc
      721 aacagcgtga gctatgagaa agcgccacgc ttcccgaagg gagaaaggcg gacaggtatc
      781 cggtaagcgg cagggtcgga acaggagagc gcacgaggga gcttccaggg ggaaacgcct
      841 ggtatcttta agtcctgtcg ggtttcgcca cctctgactt gagcgtcgat ttttgtgatg
      901 ctcgtcaggg gggcggagcc tatggaaaaa cgccaccggc gcggcctttt tcgggttctt
      961 gttttttgct cacatgtttc ttttggcttt atcccctgat tctgtggata acctcattac
     1021 cgtctttgag tgagctgaca ccgctcgccg cagtcgaacg accgagcgta gcgagtcagt
     1081 gagcgaggaa gcggaagagc gtctgacgtg gcattttctc cttacgctcc gctatgccgt
     1141 tctgcatcct gcccgtgtgc gattttccgc ttcaaagcgt gtctgtatgc tgttctggag
     1201 ttcttctgcg agttcgtgca gtttctcaca catggcggcc tgttcgtcag catcgagtgc
     1261 gtccagtttt tcgagcagcg tcaggctctg gctttttatg aattttgcta tgttgagtgc
     1321 ggtttgctgc tgcttgttca tctttctgtt ttctccgttc tgtctgtcat ctgcgtcgtg
     1381 tgattatatc gcgcaccact tttcgaccgt cttaccgccg gtattctgcc gacggacatt
     1441 tcagtcagac aacactgtca ctgccaaaaa acagcagtgc tttgttggta attcgaactt
     1501 gcagacagga caggatgtgc aattgttata ccgcgcatac atgcacgcta ttacaattac
     1561 cctggtcagg gcttcgcccc gacaccccat gtcagatacg gagccatgtt ttatgacaaa
     1621 acgaagtgga agtaatacgc gcaggcgggc tatcagtcgc cctgttcgtc tgacggcaga
     1681 agaagaccag gaaatcagaa aaagggctgc tgaatgcggc aagaccgttt ctggtttttt
     1741 acgggcggca gctctcggta agaaagttaa ttcactgact gatgaccggg tgctgaaaga
     1801 agtcatgcga ctgggggcgt tgcagaaaaa actctttatc gacggtaagc gtgtcgggga
     1861 cagagagtat gcggaggtgc tgatagctat tacggagtat caccgggccc tgttatccag
     1921 gcttatggaa gattagcttc ccggagagaa actgtcgaaa acagacggta tgaacgccgt
     1981 aagctcccaa accgatcgcc attcactttc atgcatagct atgcagtgag ctgaaagcga
     2041 tcctgacgca tttttccggt ttaccccggg gaaaacatct ctttttgcgg tatttgcggc
     2101 agaatcgcgt tcagcgcgtt ttagcggtgc gcgtaatgtg acgttatggt aaatgggagc
     2161 gttagaaaca gtcccattta cttgagtggg ggcagttggc catataaaaa atggtcaact
     2221 gtttaaaata gatctttttc agaagctcgg cattctttgc aatatgaatt tattatttcc
     2281 ccagccattg tttttcgcac accaaaaaat ttaacaactt cttcgtggct ggttgcttta
     2341 gttttcgaac attttgggca aatgcgtggt aattttatgt tgggtgtaat tccggttttc
     2401 tttctttctt tctttttgtt gctgttgcta attgttatgc ctttagcttt tttgtttaaa
     2461 tattctttta gaggagttga gtcgaatata ttagcgccat tggttagagg gtcattcctt
     2521 gttgattggt atctagttaa tatccccaat gcctctaggt tactaacccc gcgttgaatt
     2581 gttcttttag atacacctat tcttgatgca atggtaccaa ttgacggaaa agatattgac
     2641 tcccctgact caggccattg atgcatcaat atattcagca gaatacacat ctcagtactc
     2701 ccaataccaa gatcaccttg cagcataagg aggctatttg gtatagccgt ccacccatgt
     2761 atggttgcat catctcccca gtgagtagtg attaatgact cttttttttg ttctttctgt
     2821 gcgttttttg tgctcataga tgcttttctc gcgaaaaaaa atcaaaatgt gaatagttac
     2881 tacctaacta ctcttatatt aagagtagtt aggtagtaac atgtatcttt taggatgaca
     2941 taaatgtcat ccatttgctc tttttttata tagaacttaa gttgagtcca ctacctaaga
     3001 gttatgctct tagtggctat ccaagtcgag gcttggaagc gcattgtaca aaattcttcc
     3061 tgtattggat gcgtccatac agtggtctgt taactgcggt taagagacgc aaaaaggcct
     3121 gcatatgcag gcctttttgc tatctagagg tcaaaaatgg caagtatgga aacagagcag
     3181 caaccacaac aaactactga gcaaatcgaa gtaaaaacaa agcgagtgca gtgctttatt
     3241 gatgggtata atttatatca tgcaattgaa gagactggta ataaagctct tcattgggtt
     3301 gatcttaaat ctttatgcaa gagatacctt cctaaaaatg catctattga taatgttttt
     3361 tggttttccg ctaagccatc acatttatca agagccataa atgaaaatta tcaaaattac
     3421 accaacgctt taaccgaatg tggtgttgat gttatcggtg gacgttttaa aaaaaagaat
     3481 gtaacgtgcg aagctgataa tggatgtggt ggagttttcc ataa
//
