LOCUS       CP099031                3861 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB45-C13 plasmid unnamed4, complete
            sequence.
ACCESSION   CP099031
VERSION     CP099031.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488687
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3861)
  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  JOURNAL   Unpublished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 3861)
  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-C13
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 145x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:11:49
            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)                     :: 4,706
            CDSs (total)                      :: 4,584
            Genes (coding)                    :: 4,356
            CDSs (with protein)               :: 4,356
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 228
            CDSs (without protein)            :: 228
            Pseudo Genes (ambiguous residues) :: 0 of 228
            Pseudo Genes (frameshifted)       :: 63 of 228
            Pseudo Genes (incomplete)         :: 160 of 228
            Pseudo Genes (internal stop)      :: 46 of 228
            Pseudo Genes (multiple problems)  :: 37 of 228
            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..3861
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB45-C13"
                     /isolation_source="Pooled faeces sample collected from
                     floor of poultry farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(34..558)
                     /locus_tag="NFL23_23510"
     CDS             complement(34..558)
                     /locus_tag="NFL23_23510"
                     /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="WGB09632.1"
                     /translation="MTKKSVPHCIVHACMNGLFFLTTELHRSFSSYITFTTLLQHSFGL
                     YITFTTLLHHFYIIYTSLLHHSFSSYVTFTSVPSSVPFVHPPPFLNVLKTVFPAVPATP
                     HGHAINCVPVHRFRVRRTSETGLTPAEWREFPHYALARILMHAVKTEPARFWRVFGWFV
                     ACFTGFPSETP"
                     /name="hypothetical protein"
     gene            complement(798..947)
                     /locus_tag="NFL23_23515"
     CDS             complement(798..947)
                     /locus_tag="NFL23_23515"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WGB09633.1"
                     /translation="MPSEYDEQRGSTDTQLPGEYDLFDLMAKVTEEILHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            1518..1676
                     /locus_tag="NFL23_23520"
     CDS             1518..1676
                     /locus_tag="NFL23_23520"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001403044.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WGB09634.1"
                     /translation="MHEPPVQPDCCACSGNYRLESNPERHDKTPLAAAIGIWFTEQRGA
                     YKHTQSS"
                     /name="replication initiation protein"
     gene            1898..2815
                     /locus_tag="NFL23_23525"
     CDS             1898..2815
                     /locus_tag="NFL23_23525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014263272.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="WGB09635.1"
                     /translation="MLKEIPLLDEIEHNSITNGDSIELIKKVQTQSAHLILSDIPYGIG
                     ADDWDVLHKNSNNAYLGSSPAQKSAGAIFKKRGKPINGWSDADRKIPLEYQQWCEEWAS
                     EWYRTLKPGASAIIFAGRRFSHRCICAMENAGFNLRDIIAWMRTKAPHRAQRLSCVYER
                     RGDKYNTEKWEGWRVGNLQPTFEPILWFSKPYKIGGTIADNVLLHGVGAYNQDAFVARN
                     GKPENVIHAGFASKESGLHPTQKPISLMKTLIELTTQEGQLVIDPFSGSGSTLVAAKEL
                     GRSYIGFELNPAYVEISKKRLKDK"
                     /name="site-specific DNA-methyltransferase"
     gene            complement(2816..3742)
                     /locus_tag="NFL23_23530"
     CDS             complement(2816..3742)
                     /locus_tag="NFL23_23530"
                     /EC_number="3.1.21.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000362418.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HindIII family type II restriction endonuclease"
                     /protein_id="WGB09631.1"
                     /translation="MELGDFKFINKDAVIRRRYWIDEIVKLSGHFVNDSSRVENEIIDE
                     VKKSGNQALLDHLRLCTAIPESYGHDSSEEKLYSKYTDALISECFKYLGLNSIVLTERA
                     DAADVEVVCDNYSFVADAKVFRLSRTAKNQKDFKVQAMDGWRNTKDFAMVVCPIYQLPT
                     KSSQIYQQAILRNVCIFTYTHLAVLIRYSSIATTEDSKKILSDIFKSVSLLNPSKDSVQ
                     YWVNINRTMLNYDDRIAALWADEKLATTEGIAVSKKMAIEFLSSERTRMLMMTKDEAVN
                     ALIKMHKIDSRIDQINKVTDNNILSLK"
                     /name="HindIII family type II restriction endonuclease"
     Typing          complement(983..1156)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.286"
                     /coverage="100.0"
                     /evalue="2.58e-81"
     Typing          1123..1626
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.248"
                     /coverage="96.0"
                     /evalue="0.0"
ORIGIN
        1 taacatccgt tgcgtgcacc gcctgagagg ccctcagggc gtttctgacg ggaaaccggt
       61 aaaacaggca acaaaccacc cgaaaacccg ccagaaacgc gcaggctctg tttttacggc
      121 atgcatgagt atgcgcgcaa gtgcatagtg cggaaattca cgccattcag ccggggtaag
      181 tcctgtttcc gatgttcttc ttacccgaaa acggtgaacg gggacgcaat ttattgcgtg
      241 gccgtgaggc gttgccggca cagccggaaa aaccgttttc agcacgttca ggaagggggg
      301 cggatgtaca aatggcacag aggatggaac tgacgtaaaa gtgacgtatg agctgaagga
      361 atgatgtaaa agtgatgtat aaatgatgta aaagtgatgc aaaagtgttg taaaagtgat
      421 gtacagaccg aaggagtgtt gtaaaagtgt tgtaaaagtg atgtatgaac tgaaggagcg
      481 atgtaattct gtagtcagga agaataaccc gttcatgcag gcatgaacga tacagtgagg
      541 aacgcttttt tttgtcacga tctcccctta acctgcgtaa atcaccctcc atggttgatt
      601 atttttcaac ctcaaaatgg tcatacacct aacgcagccg cgattttcat cgcaactgca
      661 tgaattaaaa gaaaaaaaag gaatgtttcg ttttcacgag taatacccag gtattaaaaa
      721 cccactgtaa ttacatgaaa ataaagaaat aaaaggtaat accggcgtat taccacgtac
      781 gcgggcaagc gaaaaagcta taacgcttcc cggccgacag gcggcccaga atccacaggg
      841 gcatgcagga tctcttcagt aaccttcgcc attaaatcaa aaaggtcata ttcgccggga
      901 agctgcgtat cagtcgaacc ccgttgttca tcatattcag atggcatggg gtgatatcca
      961 gtagcagaga ggttgttagc gggtttcggg gcgcagccct gaaccagtca cgtagcgcta
     1021 gcggagtgta tactggctta ctatgttggc actgatgagg atgtcagtga agtgcttcat
     1081 gtggcaggag aaaaaaggct gcaccggtgc gtcagcagaa tatgtgatac aggatatatt
     1141 ccgcttcctc gctcactgac tcgctacgct cggtcgttcg actgcggcga gcggaaatgg
     1201 cttacgaacg gggcggagat ttcctggaag atgccaggaa gagacttaac agggaagcga
     1261 cagggccgcg gcaaagccgt ttttccatag gctccgcccc cctgacaagc atcacgaaat
     1321 ctgacgctca aatcagtggt ggcgaaaccc gacaggacta taaagatacc aggcgtttcc
     1381 ccctggcggc tccctcgtgc gctctcctgt tcctgccttt cggtttaccg gtgtcattcc
     1441 gctgttatgg ccgcgtttat ctcattccac gcctgacact cgattccggg aaggcagttc
     1501 gctccaagct ggactgtatg cacgaacccc ccgttcagcc cgactgctgc gcctgttccg
     1561 gtaactatcg acttgagtcc aacccggaaa gacacgacaa aacgccactg gcagcagcca
     1621 ttggtatctg gtttacggag cagagaggcg cgtacaagca tacacagagt tcttgaagtg
     1681 ttgacctgac tacggctaca ctggaaggac agatttggtc actgcgctcc gtttaagcca
     1741 gttaccacgg ttcagaagtt ccccaactaa ctgaaccctg aaaaaaccgc ctccccaggc
     1801 ggttttttct tttcaaaagg ctacgacgaa aggttatcct gcgtcaagat actttaacag
     1861 ttataatgaa gtgaaataat cgcgggtaag gtgttgaatg ttaaaagaaa ttccattgct
     1921 tgatgagata gaacacaact ccataacaaa tggtgactca atcgagctaa taaaaaaagt
     1981 acaaactcaa tccgcacact tgatactgag tgacatccct tacggaatag gtgctgatga
     2041 ttgggatgta ctacataaaa actcaaacaa tgcctaccta ggttcaagcc ctgcacaaaa
     2101 atcggctgga gccattttca aaaaaagagg aaagcctata aatggctggt cagatgcaga
     2161 tagaaaaata cctttagagt atcagcaatg gtgtgaagag tgggcgagtg agtggtatcg
     2221 aactttaaaa ccaggagcta gtgccattat ttttgctggt agaagatttt cacatagatg
     2281 tatttgtgca atggaaaatg ctggatttaa cctcagagat ataatcgcct ggatgagaac
     2341 aaaagcacct catcgcgcac aaaggctaag ctgcgtatat gaaaggcgtg gcgacaaata
     2401 taacacagaa aaatgggaag gctggagagt gggtaactta caaccaacat ttgagcctat
     2461 actatggttt tcaaaacctt ataaaatagg aggtaccatt gctgataacg ttctattgca
     2521 tggcgtgggt gcatataacc aagacgcgtt cgtagcgaga aatggaaaac cggaaaatgt
     2581 aatacatgca ggttttgcga gcaaggaaag cggattacac ccaacgcaga aacctatttc
     2641 tctgatgaaa accctaatag aactaaccac tcaagaaggt cagctagtaa tagatccatt
     2701 tagtggtagc ggttcaactc ttgttgccgc aaaagagctg ggtagaagct atataggctt
     2761 tgaacttaac ccagcatatg tagaaataag caaaaaaaga ttaaaagaca aataattatt
     2821 taagtgacag tatgttatta tctgtcactt tatttatttg gtctatcctg ctatctattt
     2881 tatgcatttt tatcagcgcg ttgacagcct catctttggt catcattaac attcttgtac
     2941 gttcagaaga taagaattcg atagccattt tttttgaaac ggcaatgccc tcagttgtgg
     3001 ctagcttttc atcagcccaa agggcagcta tcctgtcatc atagtttagc attgttctat
     3061 ttatattaac ccaatattga acactatctt tgctggggtt aagtaaagat acagatttaa
     3121 atatatcact aagaattttt ttgctatctt cagttgttgc aatacttgaa tatcttatca
     3181 gtacagccag atgtgtatat gtaaaaatac aaacattgcg caatatggct tgctgatata
     3241 tttgacttga tttagttggt agctgatata ttgggcagac caccattgca aagtctttgg
     3301 tatttctcca accatccata gcttgaactt taaaatcctt ttgatttttg gctgttctac
     3361 ttaaacgaaa tacctttgca tcggctacaa atgaatagtt atcgcaaaca acctcaacat
     3421 cagctgcatc tgccctttcg gttaaaacaa tgctatttaa ccctaagtat ttaaagcact
     3481 ctgatattag tgcatctgta tactttgagt acagcttctc ttcacttgaa tcatgaccat
     3541 atgactcagg tattgctgtg cataatctca ggtgatctag caacgcttga tttccggact
     3601 tcttaacctc atcgattatt tcattttcaa ccctacttga atcgttaaca aaatgaccgc
     3661 ttagttttac tatttcatca atccagtagc gccttcttat tactgcatct ttattaatga
     3721 atttgaaatc acctaattcc atttttaatt cccaatatta ttgttcaata actcaatata
     3781 atttctcgat cataacaact tttttacctg gataataata cctccatcag ttatgtggct
     3841 agacattcac ttgatttacc a
//
