LOCUS       CP098981                3351 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB46-C16 plasmid unnamed2, complete
            sequence.
ACCESSION   CP098981
VERSION     CP098981.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488712
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3351)
  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  JOURNAL   Unpublished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 3351)
  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                     :: RHB46-C16
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 178x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:00:49
            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)                     :: 4,688
            CDSs (total)                      :: 4,570
            Genes (coding)                    :: 4,346
            CDSs (with protein)               :: 4,346
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 224
            CDSs (without protein)            :: 224
            Pseudo Genes (ambiguous residues) :: 0 of 224
            Pseudo Genes (frameshifted)       :: 63 of 224
            Pseudo Genes (incomplete)         :: 153 of 224
            Pseudo Genes (internal stop)      :: 47 of 224
            Pseudo Genes (multiple problems)  :: 34 of 224
            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..3351
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB46-C16"
                     /isolation_source="Pooled faeces sample collected from
                     floor of poultry farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3229..3351,1..69))
                     /locus_tag="NFL48_23405"
     CDS             complement(join(3229..3351,1..69))
                     /locus_tag="NFL48_23405"
                     /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="WGB77403.1"
                     /translation="MNKQQKTAVNMAKFIQDQSLLLLDRLNDLDLDHEADFCEKLHEDA
                     ERLYRSLSARLNEQQDGA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            505..585
                     /locus_tag="NFL48_23410"
                     /pseudo=""
     CDS             505..585
                     /locus_tag="NFL48_23410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001333247.1"
                     /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="replication initiation protein"
                     /name="replication initiation protein"
     gene            complement(859..1593)
                     /locus_tag="NFL48_23415"
     CDS             complement(859..1593)
                     /locus_tag="NFL48_23415"
                     /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="WGB77404.1"
                     /translation="MALMVTRRYLLGGEYPSEEFVQASLEKYFFRQGFDIDTGSYIDLI
                     CRDKESRDVVWHIEVKGKTSQPGLDFRTCLGQLVQRMTKDNINYAIAVPRIKQYERLIE
                     ETSILAVSKLNLHWIFVGPDGSVTIKEPDSSTMKNGNGNGNGNGREVSLVNGGFKRFIP
                     GDFMPTCSYGKAPVVFKSSRREMWDWLDDFVISNGVIPSIADIKEEAESRGGKWTLSNV
                     KIEYQFWKIYHLYKGHFFYQSE"
                     /name="hypothetical protein"
     gene            complement(1664..1963)
                     /locus_tag="NFL48_23420"
     CDS             complement(1664..1963)
                     /locus_tag="NFL48_23420"
                     /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="WGB77405.1"
                     /translation="MATATNFDAWLDDVDGDYEEVMALYDSVQNVSDMGLYQCVEGGRG
                     DAWVVSSNHHPEALFLASAVARDTFLKLIRERLCGGEDVDSWYGFQRNISNDHS"
                     /name="hypothetical protein"
     gene            complement(2176..2388)
                     /locus_tag="NFL48_23425"
     CDS             complement(2176..2388)
                     /locus_tag="NFL48_23425"
                     /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="WGB77402.1"
                     /translation="MSNIKPDSLIRITKRKNENGDETTDLEWKPGSKEAIATGAAAGAA
                     LGSAVPVIGTAVGAVIGGTLALIFG"
                     /name="hypothetical protein"
     Typing          227..632
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.892"
                     /coverage="93.0"
                     /evalue="3.81e-158"
ORIGIN
        1 cagaagaagc agggactgat cctggatgaa tttagccatg ttaacggcag tcttttgttg
       61 tttgttcatg aaagccccgg cgcgaaagtg cttactgtac gttctgatgg ttttccgctt
      121 cctcgctcat tcgctcactc cgttcggtca tgagtctgcg gcgagcggag ggaggataag
      181 cagataacgt aacggtaagc ataacgaaag ctaaggacaa gggcgaaaag gccacgcccc
      241 ggcggggcgt ttttccatag gctccgcccc cctgacaagc atcacagaat ctgacgctca
      301 aatcagtggt ggcgaaaccc gacaggacta taaagatacc aggcgtttcc ccctggtcgc
      361 tccctcgtgc gctctcctgt tccgaccctg ccgcttacca gatacctgtc cgcctttctc
      421 ccttcgggaa gcgtggcgct ttctcatagc tcacgctgtt ggtatctcag ttcggtgtag
      481 gtcgttcgct ccaagctggg ctgtgtgcac gaaccccccg ttcagcccga ccgctgcgcc
      541 ttatccggta actatcgtct tgagtccaac ccggtaagac acgactaatc gccattgaca
      601 acggccactg gtagacagga tgtgcgagag atgtatcgag agttcttgaa gtggtggcct
      661 gactgcggct acactgaaag gacagatttg gtgacatgtc tcgcacaaga ctgttaccac
      721 ggttcagaag ttccccaact tactgaacct tcgaaaaacc acctccccag gtggtttttt
      781 cgttttccga gaaagagatt acgctttgag cgaatgaatc tcaagaagat catggcattt
      841 gatgaacaaa tgagtcagct actcagattg atagaaaaaa tgccccttat acaagtgata
      901 tattttccaa aactgatact ctattttaac attagaaagc gtccatttcc caccccgcga
      961 ttcagcctct tctttaatat cagcaatact tgggatcacc ccatttgaaa taacaaaatc
     1021 gtccaaccaa tcccacattt ctcgccgaga tgatttaaat acaacaggag ctttcccata
     1081 tgagcaagtt ggcataaaat cccccggaat aaatctttta aaccctccat tcacaagaga
     1141 aacttctctt ccattaccat taccattacc attaccattt ttcatcgtag agctatcagg
     1201 ttccttaatt gtcacactgc catcaggccc aacaaatatc cagtgtaaat tcaatttact
     1261 aacagcaaga atgctcgttt cttctattaa tctttcatac tgttttattc ttggaacagc
     1321 aatagcataa ttaatattat cttttgtcat tctctgcact aattgtccaa gacaagttcg
     1381 aaaatccaac cctggctgtg atgttttccc ttttacttca atatgccaca caacatccct
     1441 agattcttta tcacgacaaa taaggtcaat ataagatccc gtatctatat cgaacccttg
     1501 tcgaaaaaaa tatttttcta aagaagcttg aacaaattcc tcggaaggat attcaccacc
     1561 tagtaagtac cttctcgtca ccataagagc cacaacccct acgcatccta tttactataa
     1621 cgtcatattt taagagttcc tacaaaggga actctctgta cgattacgag tgatcattcg
     1681 atatatttcg ttgaaatcca taccatgaat caacatcttc gccgccacat agcctttctc
     1741 taatcaattt gaggaaagta tccctagcca cagctgatgc tagaaaaaga gcttctggat
     1801 gatgattaga gctcacgacc caagcatcac cccgaccacc ctcaacacac tgatacaacc
     1861 ccatatcact tacattctga acggaatcat aaagagccat aacctcctca taatcgccat
     1921 caacatcatc taaccacgca tcaaaattag tagcagtcgc catgccaatc ctccattttt
     1981 tagttttcag gagttaattt acatagtgat aggggctgtt aagcaaataa gtttttacct
     2041 tttttgcctc atgctctaaa agtgagcaag acaggcattt accataacgc ctcattgctc
     2101 gcatgagcgt aaaaaagccc gcttttagca ggctaccttc cgccattctt gacgggtgtt
     2161 tcgctctaaa cttggttatc caaaaattaa agctaaagtc ccaccgatca cagccccgac
     2221 tgcagttcct attacaggaa cagcagaacc tagtgctgct ccagcagccg cgcctgtggc
     2281 aattgcctct tttgaaccag gcttccattc taaatctgtt gtttcatcgc cattttcatt
     2341 ctttcttttt gtaatccgga tcagactatc aggtttaata ttgctcattc gcacctcacg
     2401 taagattgaa acgtatacac caaaaacact ctccctccac ctaggctaca tttcaactac
     2461 atatattaaa aaccctgcat ttaccataac gcctcattac gcgcaccgct cagacggcct
     2521 gagcgcgttt ctgacgggaa accggtaaaa caggcaacaa accacccgaa aacccgccag
     2581 aaacgcgcag gctctgtttt tacggcatgc atgagtatgc gcacaagtgc atagcgcgga
     2641 aattcacgcc attcagccgg ggtaagtcct gtttccgatg ttcttcttac ccgaaaacgg
     2701 tgaacgggga cgcaatttat tgcgtggccg tgaggcgttg ccggcacagc cggaaaaacc
     2761 attttcagca cgtgcaggag gcccaggaag agggggcgga tgtacgaata gctcagaggt
     2821 cagatctgac gtaaaaatga tgtaaaagtg atgtaatttt gatgtacttt tgatgtaatt
     2881 ctgttgtaca cccgcgttct ggggtaaaag cagatgcaat tttgtagttt atgtgtagtc
     2941 gctgaaccca tagggtcata cgagcatgac cctttcccgg aaaaggacgc tttttagcca
     3001 gaatcatcct taacctgcgg cgccagcact cgggagtggt cgttttatat actaaaaaat
     3061 gacatacacc taacgcagct gcgattttca tcgcaacttc atgaaaaata aataaaaaat
     3121 aaaaaataca gggattctgg gtattaccgg ggtaataatg ttaagcgcta acacaatgaa
     3181 aattaaggcg atgccggtat taccccggta atacccagaa cggagccatt acgcaccgtc
     3241 ctgctgctca ttcaggcgcg ctgacaggct tcggtaaagg cgttccgcat cctcatggag
     3301 tttctcgcag aaatcagcct catgatccag atccaggtca ttaagcctgt c
//
