LOCUS       CP099196                4593 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB20-E4-C04 plasmid unnamed4, complete
            sequence.
ACCESSION   CP099196
VERSION     CP099196.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488567
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4593)
  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  JOURNAL   Unpublished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 4593)
  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                     :: RHB20-E4-C04
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 121x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 20:07:38
            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)                     :: 5,168
            CDSs (total)                      :: 5,047
            Genes (coding)                    :: 4,851
            CDSs (with protein)               :: 4,851
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 196
            CDSs (without protein)            :: 196
            Pseudo Genes (ambiguous residues) :: 0 of 196
            Pseudo Genes (frameshifted)       :: 68 of 196
            Pseudo Genes (incomplete)         :: 130 of 196
            Pseudo Genes (internal stop)      :: 37 of 196
            Pseudo Genes (multiple problems)  :: 37 of 196
            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..4593
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB20-E4-C04"
                     /isolation_source="Pooled sediment sample collected from
                     floor of cattle farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(4500..4593,1..98))
                     /locus_tag="NFK03_25815"
     CDS             complement(join(4500..4593,1..98))
                     /locus_tag="NFK03_25815"
                     /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="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WFX40402.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            161..484
                     /locus_tag="NFK03_25820"
     CDS             161..484
                     /locus_tag="NFK03_25820"
                     /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="WFX40405.1"
                     /translation="MLTIRVSDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     SPPLLRHLAAIGNNLNQTARKVNSGHWSSIDRVHVVAALMAIEGELRQLRQAVREQGGR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            693..1127
                     /locus_tag="NFK03_25825"
                     /pseudo=""
     CDS             693..1127
                     /locus_tag="NFK03_25825"
                     /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            1162..1722
                     /locus_tag="NFK03_25830"
     CDS             1162..1722
                     /locus_tag="NFK03_25830"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /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="WFX40403.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKQQLDTLSTTVSTQLSTTEAELSRQQKNLLWQVIKGRVLFPALTA
                     LSVTGGIFLGCWGLIQWQESRIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            1729..1962
                     /locus_tag="NFK03_25835"
     CDS             1729..1962
                     /locus_tag="NFK03_25835"
                     /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="WFX40404.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHAVTQQNNA
                     ILNERVVNLSQQVQLLAGQVDRLSRLFITNNR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2650..3489)
                     /locus_tag="NFK03_25840"
     CDS             complement(2650..3489)
                     /locus_tag="NFK03_25840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354646.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WFX40401.1"
                     /translation="MLTLFIFFVLLIAACFFCFAPPRRGYDRNEIIPYKIKLSINKYRL
                     YIYSSGKVRQYLLFLVILSLYYSIAEPFKSELIKNISYSLMAAFIFDTGLNFSKENITK
                     GVISTRWHNDLYSSFERMKAINKIYYPSNKEINTEGLSKAITSSLFNDDANSFAKRDFR
                     LMWDLSSEKYLSYKEIIIRKGDKLDAVCLRFINDDYKFLVNFNRDEEVFKYFPSIMQPS
                     LKTYRALSRLVNSIKDPSRFKFTTESLEMELLEYLELRNELFNDIEEVMGSYAQRAP"
                     /name="hypothetical protein"
     Typing          4328..4412
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="3.03e-37"
     Typing          complement(3759..4317)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.761"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          475..2060
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tcgtccgcgt ccagctcgtt gagtttttcc agcagggtca gcgtctggct tctgataaag
       61 cgggccatgt taagggctgt tttttcctgt ttggtcatgg tcttaaggct ccttaatagg
      121 ggatttttta gggggaatga taccgatgaa acgcgagaag atgctcacga tacgggttag
      181 cgatgaggag cacgcccggt tactggaacg ctgcgagggt aaacgactgg cagaatggat
      241 gcggcgggtc tgtctggggg agccggttgc gcgcacagga aaactgccga cactatcgcc
      301 gccattgctg cggcatctgg ctgccatcgg gaacaatctg aaccagacag cccggaaggt
      361 gaacagcggc cactggtctt cgattgaccg ggttcatgtg gtggccgctc tgatggccat
      421 cgagggtgaa ttgcgccagt tgcggcaggc tgtcagggaa caggggggac gggatgatag
      481 ttaaatttca tgccaggggg aaaggcggtg gaagtggccc ggtcgattac ctgctggggc
      541 gggagcgtaa ccgcgaaggc gcaacggtgc tccggggtaa cccggaagaa atccgggaac
      601 tcattgatgc cacgccattt tcgaagaaat acacgtcagg cgttctgtcg ttcgcggaga
      661 aggagttacc gccgggtgaa cgcgaaagag tgatgacgag ctttgagcgt gttcttatgc
      721 ccggtctcga aaaagaccag tacagcattc tctgggtgga acaccaggat aaggggcggc
      781 tcgaactgaa ttttgtcatt ccgaacatgg aactacagag cggtaagcgc ctccagccgt
      841 actacgaccg tgcggacagg ccgaggataa atgcctggca gacgctggtt aatcatcatt
      901 acgggctgcg tgacccgaac gcaccggaga acagacggac gcttgtcaca ccgaataatc
      961 tgccaaaagc gaaacaggag gccgcagaag cgattacacg gggtcttgag gcgctttacc
     1021 gtgccggagc aataaaaacg cgtcaggatg tcactgaggc gctcacagcg gcaggttttg
     1081 aggtggtgag gacaaccaga agcagtatca gtattgccga cccggagggg gggcggaatc
     1141 tcaggctaaa gggggcgctg tatgagcaat cttttacaaa tgggaacgga cttcgagaag
     1201 aaactgaaag agcgagccgc ttctaccgag aacatgctga acagcgagtt caggaagcta
     1261 gaagagtctg tagacaaggc actgagctta aacaggcaga aaatcagaga cgctatcagc
     1321 gaacatacaa catccgtgaa acagcaactg gatacgctga gcaccaccgt gagcacgcag
     1381 ctcagcacca cagaggccga actgtcccgg cagcagaaaa acctgctctg gcaggtgatc
     1441 aaagggcggg tactgtttcc ggcgctgacc gcgctcagcg tcacgggcgg cattttcctg
     1501 gggtgctggg ggctgattca gtggcaggaa agcaggattg cgaaaaatat cttgaccatc
     1561 agagagcagg aaaacacgct ggcgaaactc gaggcaaaaa cctggggggt gacgttcgtc
     1621 aatggcgaga acgggaaatt tctggtgctg ccggacgggg tgaaagggga aaacacctgg
     1681 acggtgggcg acaagaacgc cgtgaggctg gtcagggagt aaacgagtat gacggaactg
     1741 gaagggcatt tgctgaacgc cttagagcat ttgcaacagg actatatgcg gcggctgaac
     1801 gagtgggaga gcgccttcgc agaattgcag aagatgcacg cggttacgca acagaacaac
     1861 gcgatactga acgagcgtgt cgtgaacttg agtcagcagg tgcagctatt agccggacaa
     1921 gtcgaccgct tgagtcggtt atttatcacg aacaacagat aagggatgag caggagcgtc
     1981 aggcgcagga gcttgcccgg cgctggcatg aagagcagga acccgaagcg cggatctggc
     2041 gtggcccgtc aatggggatg tgaccggggt accccatgaa atcgagccag tttgtggcac
     2101 gccctacccg gatggcgcca atgttaatgt acgtacatta gcattaacaa tatccaaacc
     2161 tccccatttt gccccgttcg acggctggaa cgtgcgaaac tgatcgtcat tcagtttcgc
     2221 gcataactat gcatgaggtt aaaatttacc aggcgcgatc gcggcagttt ttcgggtggt
     2281 ttgttgctgt ttttacctgt ctgctgccgt gatcgcgctg aacgcgttta agcggtacgc
     2341 gcaatgcgac gttatggtaa atacggagta ttttaattgc gggcctttgt tgtatatctc
     2401 tgtcgtttgt ccccgggggg aagcattact gctaacaagt cccgtgagaa aactgcgcaa
     2461 tcgtattgcg caccatgaac ctattctcaa ccgcaatctg gaggatgatt ttgctacgat
     2521 aaagagaatt atcgcgtatc ggtgtcagca ttcattggag tggatgctga aaaaccaggt
     2581 gttactccct ctacttacac ttaaacctct ctaaaaatat aagtaagtac tatcgagggc
     2641 tatcatgaac tatggtgccc tctgagcata gctacccatt acttcttcta tgtcattgaa
     2701 taattcattt cttaactcta agtattctag taactccatt tctaatgact ctgtcgtgaa
     2761 cttaaatcta gaaggatctt tgattgagtt tactagtctt gataacgctc tatatgtttt
     2821 gagtgaaggt tgcattatag atggaaagta tttgaaaacc tcttcatctc tgttgaaatt
     2881 aactaaaaac ttgtagtcat catttataaa tctcaagcat acagcgtcaa gcttatcgcc
     2941 ttttcttatt attatttctt tataggaaag atatttttca gaagataagt cccacatcaa
     3001 gcgaaaatct ctctttgcga acgagttcgc gtcatcattg aaaagagatg atgtgatggc
     3061 tttggataga ccttctgtgt ttatctcttt gttggatggg tagtaaattt tattaattgc
     3121 tttcattctc tcaaatgatg aatataggtc attatgccac cttgttgaaa tcactccttt
     3181 agttatattc tccttgctaa aattaagccc tgtatcaaaa ataaatgcag ccatcagtga
     3241 atatgatatg ttttttatta actcagactt aaatggttcc gctatggagt agtacagtga
     3301 taaaataact aaaaataaaa ggtattgtct tacctttccc gatgagtata tgtaaaggcg
     3361 atatttattt attgatagtt ttattttgta tggaatgatc tcatttctgt catatcctct
     3421 tcgtggtgga gcaaaacaaa agaaacatgc agctattaat aaaacaaaaa agatgaacag
     3481 tgtaagcaag ttcggctcct gtgtatgctc actatgcatg attgtcttga gatctaacga
     3541 tcctgaaggt agtcttgtcc gtaaacgaaa aaaccgccca gcaaggcggc ttttcgaagg
     3601 ttctcagagc agcaactctt tgaaccaagg taactggctt ggaggagcac agccaccaaa
     3661 tctgtccttt cagtttagcc ttaaccggcg cataacttca agactaactc ctctaaacgg
     3721 ttaccaatgg ctgctgccag tggcgttttt acgtgtcttt ccgggttgga ctcaagacga
     3781 tagttaccgg ataaggcgca gcggtcgggc tgaacggggg gttcgtgcac acagcccagc
     3841 ttggagcgaa cgacctacac cgggccgaga taccaacagc gtgagctatg agaaagcgcc
     3901 acgcttcccg aagggagaaa ggcggacagg tatccggtaa gcggcagggt cggaacagga
     3961 gagcgcacga gggagcttcc agggggaaac gcctggtatc tttatagtcc tgtcgggttt
     4021 cgccacctct gacttgagca tctgtttttg tgatgctcgt caggggggcg gagcctatgg
     4081 aaaaacgcca gcggcgcggc cttcttcctg ttcctggcct tttgctcaca tgtttctttt
     4141 ggcgttatcc cctgattctg tggataaccg catcaccgtc tttgagtgag ctgataccgc
     4201 tcgccgcagc cgaacgaccg agcgtagcga gtcagtgagc gaggaagcgg aagagcgcct
     4261 gatgcggcat tttctcctta cgcatctgtg cggtatttca caccgcatat ggtgcacttt
     4321 tcttataatc cgcactgatg ccacatagtt aagccagtat acactccgct atcgctacgt
     4381 gactgggtca gggctgcgcc ccgacacccg ctaaaacccg ctgacgcgcc ctgacgggct
     4441 tgtctgctcc cggcatccgc tcacaggcaa gctgtgaacg tctccgggag ctgcatgttt
     4501 cagttgcttt caccgtcatc gccgaagcgt gcgaggcaac tacggtagag ttcgtcggcg
     4561 tggtcgtgaa gtgattcgca gatgtctgcc tgt
//
