LOCUS       CP099018                5874 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB45-C22 plasmid unnamed1, complete
            sequence.
ACCESSION   CP099018
VERSION     CP099018.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488693
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5874)
  AUTHORS   Matlock,W.
  TITLE     Plasmid overlap and evolution between Enterobacterales isolates from
            bloodstream infections and non-human compartments
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5874)
  AUTHORS   Matlock,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-JUN-2022) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.4
            Assembly Name                     :: RHB45-C22
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 110x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 17:47:34
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.1
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,018
            CDSs (total)                      :: 4,900
            Genes (coding)                    :: 4,724
            CDSs (with protein)               :: 4,724
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 176
            CDSs (without protein)            :: 176
            Pseudo Genes (ambiguous residues) :: 0 of 176
            Pseudo Genes (frameshifted)       :: 66 of 176
            Pseudo Genes (incomplete)         :: 123 of 176
            Pseudo Genes (internal stop)      :: 36 of 176
            Pseudo Genes (multiple problems)  :: 37 of 176
            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..5874
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB45-C22"
                     /isolation_source="Pooled faeces sample collected from
                     floor of poultry farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed1"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(5704..5874,1..153))
                     /locus_tag="NFL29_25055"
     CDS             complement(join(5704..5874,1..153))
                     /locus_tag="NFL29_25055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WGB23307.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAAWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALIAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            219..410
                     /locus_tag="NFL29_25060"
     CDS             219..410
                     /locus_tag="NFL29_25060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165975.1"
                     /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="WGB23308.1"
                     /translation="MTKQEKTALNMVRFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1616..2482)
                     /locus_tag="NFL29_25065"
     CDS             complement(1616..2482)
                     /locus_tag="NFL29_25065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335763.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DMT family transporter"
                     /protein_id="WGB23309.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     gene            complement(2484..3536)
                     /locus_tag="NFL29_25070"
     CDS             complement(2484..3536)
                     /locus_tag="NFL29_25070"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001557502.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WGB23310.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIHPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGNGGYSHPEGISTTWHSESKLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIDNSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGVPVDDASMFFNSFQPRKFE
                     NNPLYEKEDD"
                     /name="hypothetical protein"
     gene            complement(4256..4489)
                     /locus_tag="NFL29_25075"
     CDS             complement(4256..4489)
                     /locus_tag="NFL29_25075"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WGB23305.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(4496..5026)
                     /locus_tag="NFL29_25080"
     CDS             complement(4496..5026)
                     /locus_tag="NFL29_25080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001673158.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WGB23306.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            complement(5064..5495)
                     /locus_tag="NFL29_25085"
                     /pseudo=""
     CDS             complement(5064..5495)
                     /locus_tag="NFL29_25085"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     Typing          complement(505..586)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.795"
                     /coverage="100.0"
                     /evalue="6.23e-34"
     Typing          complement(1043..1230)
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          complement(4153..5714)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.232"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acgcagtaac ggcggtgcca gtgtcggcag cttcccggaa cgggcaacag gctcacccag
       61 gcagacccgc cgcatccatg ccgccagttg tttaccctca cagcgttcca gtaaacgggc
      121 atgctcatca tcagtcaccc gtatcgtgag catcctctcg cgtttcatcg gtatcattac
      181 ccccatgaac agaaatcccc cttacacgga ggcatccagt gactaaacag gaaaaaaccg
      241 cccttaacat ggtccgcttt atcagaagcc agacattaac gctgctggag aagctcaacg
      301 aactggacgc ggatgaacag gcagacatct gtgaatcgct tcacgaccac gccgatgagc
      361 tttaccgcag ttgcctcgca cgcttcgggg atgacggtga aaaccgctga cacatgcagc
      421 tcccggagac ggtcacagct tgtctgtgag cggatgccgg gagcagacaa gcccgccagg
      481 gcgcgtcagg ccgttgacct ttggggtgtc ggggcgaagc cctgacccag tcacgtagcg
      541 atagcggagt gtatactggc ttaatcattc ggcatcagtg cggattgtat gaaaagtgcg
      601 ccatgtcggg tgtgaaatgc cgcacagatg cgtaaggaga aaatgccagt tcaggcgctc
      661 ttccgcttcc tcgctcactg actcgctacg ctcggtcgtt cggctgcggc gagcggactc
      721 tcctttctca aaaacgctaa ccctgttatc cacagaaccc ggggataaac caggaaagaa
      781 catgtgcgca aaaaacgaaa ccccggaaaa ggccgcgccg gaggcgcttt ttccataggc
      841 tccgcccccc tgacggactt cacaaaacag acactttttc ggtgcatctg tgggagcctt
      901 gcggctcaac catgaaatcc gccagcggtg gcgaaacccg acgtggctta aagatcatca
      961 ccgtttccgg tgaatcgctc cctcctgcgc ccccacgttc ccgccatatc gattaccgga
     1021 taccttttcc gcctttctcc cttacgggac acgtggcgct ttctcatagc tcacgtcttc
     1081 tggtatctcg gggcgactta ggcagttcgc tccgggctgg gctgtatgca ggaacccccc
     1141 gttcagcccg actgctgcgc cttctccggt aactgttctc ttgggtccaa cccggaaaag
     1201 acaccacaaa gcgccactgg cagcagccat tggtaaaagt catgtgcgag atatttagag
     1261 agtacttgaa gtggctgccg gagtgcggct acactagaag aacaattttg gtgactcgtc
     1321 tcgcataaga cagttacctg gttaagcagt ctgcaagctg acttaacctt cgatcaaacc
     1381 gccctgcaag gcggtttttt cgtttacagg cagcagatta cgcgcagaaa aaaaggatct
     1441 caagaggatc ctttgatctt tttgttacaa acgtctctat ttgactcccc tgagagcgtt
     1501 ttagcgcgcc tctgcccccc cttggttaca ttccgacacc agaaacgctc ccgtttttta
     1561 cgtgcatttg gcacggtatc gatggaggcc ggggggggca atcctgaaca gaatgttact
     1621 cctctgagta ttttctgtta agaaaatata cacttagcac agttacaata aatcctaccc
     1681 cctgtaagaa tgtgaattgt tcatccaaaa acaaccatga caaaaataat gcaactagcg
     1741 gaataaagta caacattatc cctgccaaat gaactgggag ccaacgcaag gagttcaagt
     1801 aaaaacaaaa agctaaaaaa tattgtaata ttccagatga aaaaacaata atcacggatt
     1861 ccaacggaag ataaattgag gatttagata taaaaataaa gagcgatgac agtataaggg
     1921 agaatgtcaa ctgtccgctc aataatgtga taggctcaaa cgatttaata aggcgagacg
     1981 atataacaac ataaaatgct gccgataaca caccggcaac aacaagacaa tatccaacaa
     2041 tattattcga tccattactg atgtctggca aggctaccaa aatactgcca acaattgcac
     2101 ctataaggaa caatataaaa tattgcgggg aattaatttt aactgagcaa ataagaacag
     2161 acaacaccaa tataaacact gattcaagtg aaaaaataat tgatgcgctt cctgctgaaa
     2221 taaaataaag tccgtagagt gtaaaagtat acgctaagaa tggttcaaaa acgcctgtcg
     2281 cataagcaag tatcgctttt gagtttaatg ggagtttttt tctttttata aaaagaacta
     2341 tccaagatag tattactgca ctacaaatct gccagaaaaa cacccctccg gcatctagtt
     2401 cttcaactcc ttttttgctc attacgatag ctgcccccca tgagaacgct gctaaaaaag
     2461 caaaaagcat tcctttaatc atattaatca tcctctttct cataaagggg gttgttttca
     2521 aatttccttg gttgaaagga gttaaaaaac atagatgcat catctacagg aacaccaata
     2581 aactctccat aataaggatc atctatagga aactcttcta atgaaacata aaacaataca
     2641 ttccagttga agatcattgg atcactatta tctatttcat ggagcaatct ttcatcctta
     2701 gttaattctc ctggaattaa tacatcagta tgataaaaac cgctgtaata agaactatta
     2761 ccggtgtgca ctgggcatcc aaaacgatcc aatttagatt ctgaatgcca tgttgtagaa
     2821 atcccttccg gatgtgaata cccaccgtta ccaacagact gaatagtcat gttacgaata
     2881 tccgctaacg cttgttcttg atctttatag aaaccttttt ctatcgccag cctcataaaa
     2941 tgccccgggg catttacaga aataagtatt ccccccggta ttcttctatc atgatttctt
     3001 gttctatgag cagaagagta aaaaacatta acaccagcct tatatatttt tagcccatct
     3061 ttatcctgaa atggtacgct ttcagtataa ataacatcct cttttattgg atagcactct
     3121 ggcatatgca gcgaacaaat atatttttgt atgtccacta actcttctga tggacgagca
     3181 aatgcaagtt gtggatgaat aaaataaatg agatgcgcac tgacctctcc tcttcttgcg
     3241 cgttctttaa aacgaactct ttcattacgc aaaaaatcaa acaaatgacc atcatcatta
     3301 tatagttggg ggctatttac aatagataaa tggaaatcaa gccctttaat tttcttgctt
     3361 gccaatttac caaatacaca gggctgattg cctgacaccc attttcttag taaatcttca
     3421 attttatctt tagaagtttc gttaaagata aatgaatgaa tattatcaat atcttttcca
     3481 aatgaaaaac tggatgataa ttgtggtagt ttatttatac gttgttgaag attcatgaaa
     3541 gctcccacaa gacacctcat atatttttta tatactgaaa ctacattata tttattaccg
     3601 acgtaaaacg aaataattta ttatcgttac cgatatttta aaaaatcatt atttgcacag
     3661 tgttcgagtt gttagtatca ctccttcctg aaaatccgct ccatttacca taacgtcgca
     3721 ttgtacgcac cgccaaaacg cgttcggtgc gatcacggca gcagacaggt aaaaatggca
     3781 acaaaccacc cgaaaaactg ccgcgatcgc acccgataaa ttttaaccac atgcatagct
     3841 atgcagccat gtgaatcacg caggaattgc cagccagaga ctgctgaaac ggattttttt
     3901 catactttcg gaaaggcaga agacggaacc ggagcggaaa aacagaaatt catgggaatg
     3961 agcgcgatct ggcaataacg gcaaaacaca gcaacaaaga cacaccagaa tcgcgcccgc
     4021 atgcgtttta acgcgttcct gtgttttcag caagctctga ctgaagcgcg ttcccggtgc
     4081 ccccgaacca accattatcc caaaaaatgc accggaaacg cgctgccaac attttagcct
     4141 gtctctggtt accatcccag cgaagggcca tccagtgtcc gttcctgaat ttccggctgg
     4201 cgctcccgct ccagggataa cgcatattcg cgctcctgta tcagccgctc atcccttatc
     4261 tccagttctc gctgtataac tggctcaagc gttctgtccg ctcgctcaag tgctgcacct
     4321 gctgactcaa ctgcatgact cgcccgttca gcatcgcgtt gtcccgttgc gtaagcgaaa
     4381 acattttctg caattccacg aaggcgttct cccattcgtt cagccgctgc atatagtcct
     4441 gttgcagttg ctctaatgcg ttcagcaaat gtctttccag ctccgtcatg ctctgtcact
     4501 cctgcaccag tctcactgcg ttcagtttgc cgttgtcctt cgtccagttc gtttcggctt
     4561 tcatcccctt cggcaacacc agaaaacgtc cgttgctgtc ctcgtgataa cgcacgcccc
     4621 atgtcttcgc gttcagcttc tccagactct ctttctgctc gcggagaata ttcatattcg
     4681 cgtttatctt catgccctgg taccacagca gactcccggt cgtggcaaac atcagtactg
     4741 agacgataat cagccacagc cagcgtttca cgctcatttt cagtacggtt ttccagtgcg
     4801 cgtccatcgt atcgacggtc gttttctgat acctctccag cagttctttc agggctgttg
     4861 tatggtcgtt gatagcgttc ctgattaaag attcgtttga ggtcagttcc ctgtttacag
     4921 attcttcgag cttcctgaac tcgtcgttca gcattttctc tgtagattcg gctctctctt
     4981 tcagcttttt ctcgaactcc gcgcccgtct gtaaaagatt gctcataaaa cgctcctttc
     5041 agtctgatat tcctcccgcc gttcgggtct gcaatgctga tactgcttcg cgtcaccctg
     5101 accacttcaa gccccgcctc tgtgagcgcc tgaatcacat cctgacggcc ttttatctct
     5161 ccggcatggt aaagcgcgtc tatcccgcgt gtgacgccct cagcaagcgc ctgtttcgtt
     5221 tccggcaggt tatcaggaag ggtcagcgtc cggcggttct ccggggcgtt ggggtcatgc
     5281 agaccgtaat ggtgattcac cagcgtctgc caggcatcaa ttctcggcct gtctgcccgg
     5341 tcgtagtacg gctggaggcg ttttccggtc tgtagctcca tgttcggaat gacaaaattc
     5401 agctcaagcc gtcccttgtc ctggtgctcc acccacagga tgctgtactg atttttctcg
     5461 agaccgggca tcagtacacg ctcaaagctc gccatcactt tttcacgccc tccaggcggc
     5521 agctccttct ccgcgaacga cagaacacct gacgtgtatt tcttcgcaaa tggcgtggca
     5581 tcgatgagtt cccggacctc ttccggattc ccctgaagca ccgttgcccc ttcccggtta
     5641 cgctcccttc ccagcaggta atcaaccgga ccactgccac caccttttcc cctggcatga
     5701 aacttaacta tcatcccgcg ccccctgttc cctgaccgcc agacgcagcc ggcgcagctc
     5761 atccccgatg gctatcagtg cggccaccac ctgaacccgg tcaccggaag accactgccc
     5821 gctgttcacc ttcctcgctg tctggttaag gttattcccg atagcggcca gctg
//
