LOCUS       CP099044                5874 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB44-C17 plasmid unnamed3, complete
            sequence.
ACCESSION   CP099044
VERSION     CP099044.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488665
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  JOURNAL   Unpublished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                     :: RHB44-C17
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 118x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:25:06
            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)                     :: 4,905
            CDSs (total)                      :: 4,782
            Genes (coding)                    :: 4,609
            CDSs (with protein)               :: 4,609
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 173
            CDSs (without protein)            :: 173
            Pseudo Genes (ambiguous residues) :: 0 of 173
            Pseudo Genes (frameshifted)       :: 73 of 173
            Pseudo Genes (incomplete)         :: 111 of 173
            Pseudo Genes (internal stop)      :: 38 of 173
            Pseudo Genes (multiple problems)  :: 41 of 173
            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="RHB44-C17"
                     /isolation_source="Pooled faeces sample collected from
                     floor of poultry farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(813..1679)
                     /locus_tag="NFL01_24480"
     CDS             complement(813..1679)
                     /locus_tag="NFL01_24480"
                     /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="WGA64140.1"
                     /translation="MIKGMLFAFLAAFSWGAAIVMSKKGVEELDAGGVFFWQICSAVIL
                     SWIVLFIKRKKLPLNSKAILAYATGVFEPFLAYTFTLYGLYFISAGSASIIFSLESVFI
                     LVLSVLICSVKINSPQYFILFLIGAIVGSILVALPDISNGSNNIVGYCLVVAGVLSAAF
                     YVVISSRLIKSFEPITLLSGQLTFSLILSSLFIFISKSSIYLPLESVIIVFSSGILQYF
                     LAFCFYLNSLRWLPVHLAGIMLYFIPLVALFLSWLFLDEQFTFLQGVGFIVTVLSVYFL
                     NRKYSEE"
                     /name="DMT family transporter"
     gene            complement(1681..2733)
                     /locus_tag="NFL01_24485"
     CDS             complement(1681..2733)
                     /locus_tag="NFL01_24485"
                     /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="WGA64141.1"
                     /translation="MNLQQRINKLPQLSSSFSFGKDIDNIHSFIFNETSKDKIEDLLRK
                     WVSGNQPCVFGKLASKKIKGLDFHLSIVNSPQLYNDDGHLFDFLRNERVRFKERARRGE
                     VSAHLIYFIYPQLAFARPSEELVDIQKYICSLHMPECYPIKEDVIYTESVPFQDKDGLK
                     IYKAGVNVFYSSAHRTRNHDRRIPGGILISVNAPGHFMRLAIEKGFYKDQEQALADIRN
                     MTIQSVGNGGYSHPEGISTTWHSESKLDRFGCPVHTGNSSYYSGFYHTDVLIPGELTKD
                     ERLLHEIDNSDPMIFNWNVLFYVSLEEFPIDDPYYGEFIGVPVDDASMFFNSFQPRKFE
                     NNPLYEKEDD"
                     /name="hypothetical protein"
     gene            complement(3453..3686)
                     /locus_tag="NFL01_24490"
     CDS             complement(3453..3686)
                     /locus_tag="NFL01_24490"
                     /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="WGA64137.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWENAFVELQKMFSLTQRDNA
                     MLNGRVMQLSQQVQHLSERTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3693..4223)
                     /locus_tag="NFL01_24495"
     CDS             complement(3693..4223)
                     /locus_tag="NFL01_24495"
                     /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="WGA64138.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLEESVNRELTSNE
                     SLIRNAINDHTTALKELLERYQKTTVDTMDAHWKTVLKMSVKRWLWLIIVSVLMFATTG
                     SLLWYQGMKINANMNILREQKESLEKLNAKTWGVRYHEDSNGRFLVLPKGMKAETNWTK
                     DNGKLNAVRLVQE"
                     /name="MbeB family mobilization protein"
     gene            complement(4261..4692)
                     /locus_tag="NFL01_24500"
                     /pseudo=""
     CDS             complement(4261..4692)
                     /locus_tag="NFL01_24500"
                     /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"
     gene            complement(4901..5224)
                     /locus_tag="NFL01_24505"
     CDS             complement(4901..5224)
                     /locus_tag="NFL01_24505"
                     /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="WGA64142.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAAWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALIAIGDELRRLRLAVREQGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            5290..5481
                     /locus_tag="NFL01_24510"
     CDS             5290..5481
                     /locus_tag="NFL01_24510"
                     /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="WGA64139.1"
                     /translation="MTKQEKTALNMVRFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENR"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(5576..5657)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.795"
                     /coverage="100.0"
                     /evalue="6.23e-34"
     Typing          complement(240..427)
                     /name="rep_cluster_2401"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="4.63e-94"
     Typing          complement(3350..4911)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.232"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cggaaaaggc cgcgccggag gcgctttttc cataggctcc gcccccctga cggacttcac
       61 aaaacagaca ctttttcggt gcatctgtgg gagccttgcg gctcaaccat gaaatccgcc
      121 agcggtggcg aaacccgacg tggcttaaag atcatcaccg tttccggtga atcgctccct
      181 cctgcgcccc cacgttcccg ccatatcgat taccggatac cttttccgcc tttctccctt
      241 acgggacacg tggcgctttc tcatagctca cgtcttctgg tatctcgggg cgacttaggc
      301 agttcgctcc gggctgggct gtatgcagga accccccgtt cagcccgact gctgcgcctt
      361 ctccggtaac tgttctcttg ggtccaaccc ggaaaagaca ccacaaagcg ccactggcag
      421 cagccattgg taaaagtcat gtgcgagata tttagagagt acttgaagtg gctgccggag
      481 tgcggctaca ctagaagaac aattttggtg actcgtctcg cataagacag ttacctggtt
      541 aagcagtctg caagctgact taaccttcga tcaaaccgcc ctgcaaggcg gttttttcgt
      601 ttacaggcag cagattacgc gcagaaaaaa aggatctcaa gaggatcctt tgatcttttt
      661 gttacaaacg tctctatttg actcccctga gagcgtttta gcgcgcctct gccccccctt
      721 ggttacattc cgacaccaga aacgctcccg ttttttacgt gcatttggca cggtatcgat
      781 ggaggccggg gggggcaatc ctgaacagaa tgttactcct ctgagtattt tctgttaaga
      841 aaatatacac ttagcacagt tacaataaat cctaccccct gtaagaatgt gaattgttca
      901 tccaaaaaca accatgacaa aaataatgca actagcggaa taaagtacaa cattatccct
      961 gccaaatgaa ctgggagcca acgcaaggag ttcaagtaaa aacaaaaagc taaaaaatat
     1021 tgtaatattc cagatgaaaa aacaataatc acggattcca acggaagata aattgaggat
     1081 ttagatataa aaataaagag cgatgacagt ataagggaga atgtcaactg tccgctcaat
     1141 aatgtgatag gctcaaacga tttaataagg cgagacgata taacaacata aaatgctgcc
     1201 gataacacac cggcaacaac aagacaatat ccaacaatat tattcgatcc attactgatg
     1261 tctggcaagg ctaccaaaat actgccaaca attgcaccta taaggaacaa tataaaatat
     1321 tgcggggaat taattttaac tgagcaaata agaacagaca acaccaatat aaacactgat
     1381 tcaagtgaaa aaataattga tgcgcttcct gctgaaataa aataaagtcc gtagagtgta
     1441 aaagtatacg ctaagaatgg ttcaaaaacg cctgtcgcat aagcaagtat cgcttttgag
     1501 tttaatggga gtttttttct ttttataaaa agaactatcc aagatagtat tactgcacta
     1561 caaatctgcc agaaaaacac ccctccggca tctagttctt caactccttt tttgctcatt
     1621 acgatagctg ccccccatga gaacgctgct aaaaaagcaa aaagcattcc tttaatcata
     1681 ttaatcatcc tctttctcat aaagggggtt gttttcaaat ttccttggtt gaaaggagtt
     1741 aaaaaacata gatgcatcat ctacaggaac accaataaac tctccataat aaggatcatc
     1801 tataggaaac tcttctaatg aaacataaaa caatacattc cagttgaaga tcattggatc
     1861 actattatct atttcatgga gcaatctttc atccttagtt aattctcctg gaattaatac
     1921 atcagtatga taaaaaccgc tgtaataaga actattaccg gtgtgcactg ggcatccaaa
     1981 acgatccaat ttagattctg aatgccatgt tgtagaaatc ccttccggat gtgaataccc
     2041 accgttacca acagactgaa tagtcatgtt acgaatatcc gctaacgctt gttcttgatc
     2101 tttatagaaa cctttttcta tcgccagcct cataaaatgc cccggggcat ttacagaaat
     2161 aagtattccc cccggtattc ttctatcatg atttcttgtt ctatgagcag aagagtaaaa
     2221 aacattaaca ccagccttat atatttttag cccatcttta tcctgaaatg gtacgctttc
     2281 agtataaata acatcctctt ttattggata gcactctggc atatgcagcg aacaaatata
     2341 tttttgtatg tccactaact cttctgatgg acgagcaaat gcaagttgtg gataaataaa
     2401 ataaatgaga tgcgcactga cctctcctct tcttgcgcgt tctttaaaac gaactctttc
     2461 attacgcaaa aaatcaaaca aatgaccatc atcattatat agttgggggc tatttacaat
     2521 agataaatgg aaatcaagcc ctttaatttt cttgcttgcc aatttaccaa atacacaggg
     2581 ctgattgcct gacacccatt ttcttagtaa atcttcaatt ttatctttag aagtttcgtt
     2641 aaagataaat gaatgaatat tatcaatatc ttttccaaat gaaaaactgg atgataattg
     2701 tggtagttta tttatacgtt gttgaagatt catgaaagct cccacaagac acctcatata
     2761 ttttttatat actgaaacta cattatattt attaccgacg taaaacgaaa taatttatta
     2821 tcgttaccga tattttaaaa aatcattatt tgcacagtgt tcgagttgtt agtatcactc
     2881 cttcctgaaa atccgctcca tttaccataa cgtcgcattg tacgcaccgc caaaacgcgt
     2941 tcggtgcgat cacggcagca gacaggtaaa aatggcaaca aaccacccga aaaactgccg
     3001 cgatcgcacc cgataaattt taaccacatg catagctatg cagccatgtg aatcacgcag
     3061 gaattgccag ccagagactg ctgaaacgga tttttttcat actttcggaa aggcagaaga
     3121 cggaaccgga gcggaaaaac agaaattcat gggaatgagc gcgatctggc aataacggca
     3181 aaacacagca acaaagacac accagaatcg cgcccgcatg cgttttaacg cgttcctgtg
     3241 ttttcagcaa gctctgactg aagcgcgttc ccggtgcccc cgaaccaacc attatcccaa
     3301 aaaatgcacc ggaaacgcgc tgccaacatt ttagcctgtc tctggttacc atcccagcga
     3361 agggccatcc agtgtccgtt cctgaatttc cggctggcgc tcccgctcca gggataacgc
     3421 atattcgcgc tcctgtatca gccgctcatc ccttatctcc agttctcgct gtataactgg
     3481 ctcaagcgtt ctgtccgctc gctcaagtgc tgcacctgct gactcaactg catgactcgc
     3541 ccgttcagca tcgcgttgtc ccgttgcgta agcgaaaaca ttttctgcaa ttccacgaag
     3601 gcgttctccc attcgttcag ccgctgcata tagtcctgtt gcagttgctc taatgcgttc
     3661 agcaaatgtc tttccagctc cgtcatgctc tgtcactcct gcaccagtct cactgcgttc
     3721 agtttgccgt tgtccttcgt ccagttcgtt tcggctttca tccccttcgg caacaccaga
     3781 aaacgtccgt tgctgtcctc gtgataacgc acgccccatg tcttcgcgtt cagcttctcc
     3841 agactctctt tctgctcgcg gagaatattc atattcgcgt ttatcttcat gccctggtac
     3901 cacagcagac tcccggtcgt ggcaaacatc agtactgaga cgataatcag ccacagccag
     3961 cgtttcacgc tcattttcag tacggttttc cagtgcgcgt ccatcgtatc gacggtcgtt
     4021 ttctgatacc tctccagcag ttctttcagg gctgttgtat ggtcgttgat agcgttcctg
     4081 attaaagatt cgtttgaggt cagttccctg tttacagatt cttcgagctt cctgaactcg
     4141 tcgttcagca ttttctctgt agattcggct ctctctttca gctttttctc gaactccgcg
     4201 cccgtctgta aaagattgct cataaaacgc tcctttcagt ctgatattcc tcccgccgtt
     4261 cgggtctgca atgctgatac tgcttcgcgt caccctgacc acttcaagcc ccgcctctgt
     4321 gagcgcctga atcacatcct gacggccttt tatctctccg gcatggtaaa gcgcgtctat
     4381 cccgcgtgtg acgccctcag caagcgcctg tttcgtttcc ggcaggttat caggaagggt
     4441 cagcgtccgg cggttctccg gggcgttggg gtcatgcaga ccgtaatggt gattcaccag
     4501 cgtctgccag gcatcaattc tcggcctgtc tgcccggtcg tagtacggct ggaggcgttt
     4561 tccggtctgt agctccatgt tcggaatgac aaaattcagc tcaagccgtc ccttgtcctg
     4621 gtgctccacc cacaggatgc tgtactgatt tttctcgaga ccgggcatca gtacacgctc
     4681 aaagctcgcc atcacttttt cacgccctcc aggcggcagc tccttctccg cgaacgacag
     4741 aacacctgac gtgtatttct tcgcaaatgg cgtggcatcg atgagttccc ggacctcttc
     4801 cggattcccc tgaagcaccg ttgccccttc ccggttacgc tcccttccca gcaggtaatc
     4861 aaccggacca ctgccaccac cttttcccct ggcatgaaac ttaactatca tcccgcgccc
     4921 cctgttccct gaccgccaga cgcagccggc gcagctcatc cccgatggct atcagtgcgg
     4981 ccaccacctg aacccggtca ccggaagacc actgcccgct gttcaccttc ctcgctgtct
     5041 ggttaaggtt attcccgata gcggccagct gacgcagtaa cggcggtgcc agtgtcggca
     5101 gcttcccgga acgggcaaca ggctcaccca ggcagacccg ccgcatccat gccgccagtt
     5161 gtttaccctc acagcgttcc agtaaacggg catgctcatc atcagtcacc cgtatcgtga
     5221 gcatcctctc gcgtttcatc ggtatcatta cccccatgaa cagaaatccc ccttacacgg
     5281 aggcatccag tgactaaaca ggaaaaaacc gcccttaaca tggtccgctt tatcagaagc
     5341 cagacattaa cgctgctgga gaagctcaac gaactggacg cggatgaaca ggcagacatc
     5401 tgtgaatcgc ttcacgacca cgccgatgag ctttaccgca gttgcctcgc acgcttcggg
     5461 gatgacggtg aaaaccgctg acacatgcag ctcccggaga cggtcacagc ttgtctgtga
     5521 gcggatgccg ggagcagaca agcccgccag ggcgcgtcag gccgttgacc tttggggtgt
     5581 cggggcgaag ccctgaccca gtcacgtagc gatagcggag tgtatactgg cttaatcatt
     5641 cggcatcagt gcggattgta tgaaaagtgc gccatgtcgg gtgtgaaatg ccgcacagat
     5701 gcgtaaggag aaaatgccag ttcaggcgct cttccgcttc ctcgctcact gactcgctac
     5761 gctcggtcgt tcggctgcgg cgagcggact ctcctttctc aaaaacgcta accctgttat
     5821 ccacagaacc cggggataaa ccaggaaaga acatgtgcgc aaaaaacgaa accc
//
