LOCUS       CP057554                4237 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB23-C05 plasmid pRHB23-C05_10, complete
            sequence.
ACCESSION   CP057554
VERSION     CP057554.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148212
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-C05
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 147.407323264371x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 09:47:00
            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)                    :: 4,532
            CDSs (with protein)               :: 4,532
            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)              :: 140
            CDSs (without protein)            :: 140
            Pseudo Genes (ambiguous residues) :: 0 of 140
            Pseudo Genes (frameshifted)       :: 56 of 140
            Pseudo Genes (incomplete)         :: 70 of 140
            Pseudo Genes (internal stop)      :: 35 of 140
            Pseudo Genes (multiple problems)  :: 20 of 140
            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-C05"
                     /isolation_source="Pooled sheep faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB23-C05_10"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3544..4237,1..20))
                     /locus_tag="HVX95_23950"
     CDS             complement(join(3544..4237,1..20))
                     /locus_tag="HVX95_23950"
                     /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="QMJ59004.1"
                     /translation="MNKKLIFSVLLCLFSFGSVAGIPVAIDASPEWAVEATRWTERLKQ
                     WSETARHYQSQIQAYKDQLATATGIRNIAAFTNELSNLQSELANIYKQGNSYISDFTSN
                     PEGALSSQAKNLFSKYGAFNMCSTGIESSDNLCKARIVSTAASIEQGNEINKQLSSAMS
                     QIQSLSNRIESSKDMKESQDLANALQAQSLKIQAIKMQYDVWDSKNRADAEMLKEQKYA
                     EYRLRQKNAKIPSFE"
                     /name="type IV secretion system protein"
     gene            complement(17..1015)
                     /locus_tag="HVX95_23955"
     CDS             complement(17..1015)
                     /locus_tag="HVX95_23955"
                     /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="QMJ59000.1"
                     /translation="MSGFFEKFNSEVVSKIEEMTKPLQSQLGQDMLSLLSAGISVYILW
                     VGYQILAGKRQTPLQDLVWDLSKFAIILTFVSNADGYLTAAMDAIKSMKDGFLGKPVWA
                     TLDTMWSTTQLLADKVYAMDQSKYVSVEGGIGSMLVWGGSILIMSVAAVIYMLADVTMQ
                     LAILVAPIFIGCYMFGFTRVMFNNWLGILFSSVFTVIFAGVLVKIGTEFQTDMLSQISR
                     DANSTNILTMGAMAFVIGVLIAVFVWKSSSFAQQLAGAGVEGTLQGMALLGIGAAGMAV
                     EKTRNQMKRGTRTAAEWAGEKGEQKRASIGALGMEARRRASLEKARARNSA"
                     /name="type IV secretion system protein"
     gene            complement(1020..1283)
                     /locus_tag="HVX95_23960"
     CDS             complement(1020..1283)
                     /locus_tag="HVX95_23960"
                     /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="QMJ59001.1"
                     /translation="MKKICTLLMSIFILSACGEDTKSSDWWLNHPKEATEKYKECKKSG
                     EDSVNCQNVKKVAGIIGRTYGPMLEILKAESAEYDKQHGLNR"
                     /name="EexN family lipoprotein"
     gene            complement(1371..1778)
                     /locus_tag="HVX95_23965"
     CDS             complement(1371..1778)
                     /locus_tag="HVX95_23965"
                     /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="hypothetical protein"
                     /protein_id="QMJ59002.1"
                     /translation="MSKNDVFACACRRLLEVVAGEQKWCFVRLLITTTWLEVFMTKHDA
                     IRISQLHQIFYDDDGLIDSEKNVTILYSIGFTVDEIAHFRNSTPNTVASQLLNARVKLG
                     CASVSSLKPMILLRLLLNIKEIRFGFETDCK"
                     /name="hypothetical protein"
     gene            complement(1842..2357)
                     /locus_tag="HVX95_23970"
     CDS             complement(1842..2357)
                     /locus_tag="HVX95_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="QMJ59003.1"
                     /translation="MSSLSLQRYETNPFLELMTIPMKGKRIQVSRLGRDDNVLVNQNTG
                     EKFGTHVTTFKRVDSEQFVKLFTANIGLTFDLSSAGIKAFNVLLWAVQKQAFAKDQVLL
                     DSRALDDFLKSYDSLKLSYATLKRGINELEKAQIIAKTMRKGFYFINPNFVFNGDRIAF
                     TTLIERDC"
                     /name="replication/maintenance protein RepL"
     Typing          complement(213..1015)
                     /name="MPF_T"
                     /typing="mate-pair-formation"
                     /tool="MOB-suite"
                     /identity="89.552"
                     /coverage="91.0"
                     /evalue="1.15e-160"
ORIGIN
        1 aaaattagtt ttttgttcat gctgaattcc tcgcacgtgc tttttccagg gatgctcgtc
       61 ttcttgcttc cattcccaat gcgcctattg aagcccgttt ctgctcccct ttttcacctg
      121 cccattcggc ggctgttcgc gttccacgtt tcatctggtt tctcgttttc tctacggcca
      181 ttccagcagc cccaatccct aaaagagcca ttccctgaag agtaccttca acacctgcac
      241 cggcaagctg ctgcgcgaaa ctcgatgatt tccagacaaa gacagcaatc agaactccaa
      301 ttacaaatgc cattgcgccc attgttaaaa tatttgttga gttagcatct ctcgatatct
      361 gactaagcat atcagtttga aactcggtac caattttgac gagaactcca gcaaaaataa
      421 cagtaaatac actagaaaat aatataccaa gccagttatt aaacattact ctagtgaatc
      481 caaacatata acaaccgata aatatcggag ctacaagaat agctaactgc attgttacat
      541 cggcaagcat gtaaataaca gccgctacag acataatcag gatacttcct ccccaaacca
      601 acattgaccc gattccacct tcaactgaca catatttgga ttgatccata gcataaactt
      661 tgtcagccaa aagctgagtt gtactccaca tggtatctag cgttgcccat acaggtttac
      721 caaggaaccc atccttcata gatttaatag catccattgc tgccgtcaga tagccatcag
      781 cattgcttac gaatgttaaa ataatggcaa attttgatag atcccagacg agatcttgta
      841 atggggtctg gcgtttccct gccaatattt gatagccaac ccagaggata taaacgctaa
      901 tacctgcact tagaagagat aacatatcct gacctaattg actttgaagt ggtttggtca
      961 tctcttcgat tttactaaca acttcgctat taaacttttc aaagaaacca gacatgttat
     1021 cacctgttca atccatgttg cttatcatat tcagctgact cagccttaag tatttcaagc
     1081 atagggccat aggttctacc aataattccg gcaacttttt taacattttg acaattaaca
     1141 gaatcttccc ctgacttttt acactcctta tatttctccg tcgcttcttt gggatgatta
     1201 agccaccaat ctgatgattt tgtatcttca ccacatgcgg aaagaatgaa aatagacatt
     1261 aagagcgtac aaattttttt catctttgat tcctcgtatg gacattacaa ttgctgatac
     1321 aatcagcaat tgtaattcta gtcaagagca aaaataccta ttgaactata ttatttgcaa
     1381 tcagtttcga atccaaaacg aatctctttt atgttcaaaa gcaatcttaa taagatcatt
     1441 ggctttaaag atgaaaccga ggcgcaacct aatttaaccc ttgcatttaa tagctgactc
     1501 gcaactgtgt ttggtgttga atttctaaaa tgagctattt catcaactgt aaatcctata
     1561 ctgtataaaa tagtcacgtt cttttctgaa tcaattaatc catcatcatc gtaaaaaatt
     1621 tgatgaagtt gagaaatgcg tatagcatca tgtttagtca taaaaacctc tagccaggtt
     1681 gttgtgatta gcaggcgaac aaaacaccac ttttgttcgc ctgcgactac ttctagtagc
     1741 ctgcggcagg cacaggcaaa aacatcgttt ttggacaatc cactgaaaat tgcatgcaat
     1801 ttctagtgga ttgtctatcc tgcattgtat tgttctatcg attaacaatc cctctcaatt
     1861 agggttgtaa atgctattcg atctccatta aatacaaaat tggggtttat aaaataaaat
     1921 cctttacgca ttgtctttgc tataatctga gctttttcta actcgttaat tcctctcttt
     1981 aacgtagcat aactaagttt taagctatca tagcttttta aaaagtcatc aagagccctt
     2041 gaatccaaaa gaacctgatc ctttgcaaag gcttgttttt gaacagccca taaaagaaca
     2101 ttaaaagctt taattcctgc cgatgataaa tcaaacgtta acccaatatt cgcagtaaac
     2161 aacttaacaa attgctcact atctacacgc ttaaaagtgg ttacatgtgt tccaaacttt
     2221 tctcccgtgt tttgattaac caaaacattg tcatcccgcc caagacgaga tacttgtatc
     2281 cgtttccctt tcatcgggat cgtcataagc tctaaaaacg ggtttgtttc gtatctctgt
     2341 aagcttagcg agctcattat tgcatccttt tttgggcttt ggagattcac aataaatcct
     2401 cataagctca aaatcaagca atttttgagc ctgcaaggta ccggatctga gcttacaagg
     2461 tacagatcct gatcaccact ttctaggatt catgcgggtt ccgagaattt cccttcttag
     2521 ttcttaacta aggagcgtag gtgctcaatt atggctatca attctcttcc gcttcctcgc
     2581 ccactcgctc actacgttcg gtcgctgggg ctgcggcgag cgggatcacc tctcgcatgt
     2641 tgtcagaaat gccgttgctg ttctgttcga aaatgcgttc tgtgggccat ccagagcacc
     2701 agaacgcgat tttcaggtgt tggtaatgtt ttagtcgtct tagctcttaa aacgcgctca
     2761 gacgcacgaa acgggcttta gatgcccgtc agggcatgaa aggcgcgaaa aatgcttaca
     2821 gagggtttca ggaggtcagg cgcgccgata cccctaacca ggggctttca ggtcgccagg
     2881 aaccgcgcca gccccctgca aagcccatta gcatggaaca ggtagccaca cggttggtag
     2941 gtggtcgtag accgtcgatg ttacagcgat gggggtctgg ggttctcccc agacggtttc
     3001 cggttgcgct caaggcgctg ccggaaccgt ggcggctcgg tggttctaga gatcgggaaa
     3061 caaaaacacg ctaggggttt tgaggtcggc aaaagagcaa tgcaggatag acaatccgat
     3121 gtcaaatgtt aacatttgaa tcagattgtc caaaaacgat gtttttgcct gtgcctgccg
     3181 caggctctat atttagaatt tagaatagaa aaggccatct attcgatgac ctttattttt
     3241 tacttcattg aaaatcgcat tactattaat aacagaagta aaatacaaaa cagctttaac
     3301 gtaaaaagga gtctttcttt tataccaccg ctgggaacaa acctcttttc aattttatca
     3361 gtgataaatt gcaatgtacc ataatacatt aaagcattaa tcagctttaa cgtaagctcc
     3421 acacttaaaa caataactat gattggtagc gagattaaca gtggcggcgg tgtagaaccg
     3481 gtactattca atctagacca atgattatct acccattctt ttagcttatt tagctttatc
     3541 atatcattcg aaactcggta tctttgcatt tttctgacgc aggcgatact cagcatactt
     3601 ttgctctttc aacatttccg catcagccct gtttttacta tcccatacat catactgcat
     3661 tttaattgcc tgtattttta acgactgcgc ctgcaatgcg ttagccaaat cctgggattc
     3721 tttcatatcc tttgaagact caattcggtt acttaaactc tgaatctgag acattgcact
     3781 tgatagctgc ttatttatct catttccctg ttcaatgcta gcggccgttg aaactattct
     3841 ggccttacaa aggttatcag aactttcaat gcctgtagaa cacatattaa aagcaccata
     3901 cttgctgaac agatttttcg cctgactact taatgcacct tcaggattac tggtaaaatc
     3961 agaaatataa ctgttcccct gcttataaat gtttgccagc tctgattgta ggttacttag
     4021 ttcatttgtg aatgccgcaa tattccttat acctgttgcc gtggctaact ggtctttata
     4081 tgcctgaatc tgactttgat aatgccgcgc tgtttcagac cattgtttga gtcgttctgt
     4141 ccatcttgtg gcttcaacag cccattccgg actggcatca atagcaaccg gaatacctgc
     4201 gacagaacca aatgaaaata agcacaaaag tactgaa
//
