LOCUS       CP098959                4074 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB47-C04 plasmid unnamed4, complete
            sequence.
ACCESSION   CP098959
VERSION     CP098959.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488719
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4074)
  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  JOURNAL   Unpublished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 4074)
  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                     :: RHB47-C04
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 135x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:05:17
            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)                     :: 4,847
            CDSs (total)                      :: 4,733
            Genes (coding)                    :: 4,500
            CDSs (with protein)               :: 4,500
            Genes (RNA)                       :: 114
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 82
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 233
            CDSs (without protein)            :: 233
            Pseudo Genes (ambiguous residues) :: 0 of 233
            Pseudo Genes (frameshifted)       :: 69 of 233
            Pseudo Genes (incomplete)         :: 158 of 233
            Pseudo Genes (internal stop)      :: 50 of 233
            Pseudo Genes (multiple problems)  :: 39 of 233
            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..4074
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB47-C04"
                     /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(357..611)
                     /locus_tag="NFL55_24180"
     CDS             complement(357..611)
                     /locus_tag="NFL55_24180"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091744.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="mobilization protein"
                     /protein_id="WGC04372.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobilization protein"
     gene            790..2949
                     /locus_tag="NFL55_24185"
     CDS             790..2949
                     /locus_tag="NFL55_24185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WGC04373.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAECRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="MobA/MobL family protein"
     gene            complement(3207..3899)
                     /locus_tag="NFL55_24190"
     CDS             complement(3207..3899)
                     /locus_tag="NFL55_24190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WGC04371.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVEELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(613..789)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.438"
                     /coverage="100.0"
                     /evalue="2.610000000000001e-86"
     Typing          790..1148
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          complement(3208..3899)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.671"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          704..2946
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.332"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccacatatac cgctataaca tattgatttt attaatgaat tttgacccta aaacaagtat
       61 taaaaacaag atcttaaaaa caagatctaa aaacttaacg gcgagcctgt ggataacttg
      121 gggcgctgaa aacaaaaaac caataaaaac aatgtgttgc aagaaagcag aattgcaagt
      181 tccgaatact ccccttccaa ccctgtggaa atccagtatt catgcgggtt cagcgcatat
      241 cacctaccga aaaaccgtgc gtatgtgctc aacctggcga cggattcact tccgcttcct
      301 cgcccactcg ctcgctaacg ctcggtcgct ggggctgcgg cgagcggacg atacaatcac
      361 tgtcctggca gcgcctccag ctcgttaatc agcggcagta tgcgcgtcac atcagcctgt
      421 cgtgtcacct ctgccttcag gaactggagt aaccaggcac gcaactgcac ctcctccggc
      481 tttctgacct ttgccagcaa tgctgcaccc acaacaacct tctgcgctgt gtccaggctc
      541 cggctcttcg ccttcaggcg ctgtaatctc gcctcagcat cagcaatctt ctgttcgagc
      601 gttctgctca tgatgtaact ccgtgcgcga tgaaaaatcg cattttagcg cgtcactggt
      661 agtttaaaaa ctgagctggc ataatgcacg acaaatcaca aagtgcgcac ttatacaatc
      721 tccactccgt ttcgattgtg tgcgccctgc ggggctgaaa gaaaactaca aaaaggcatt
      781 acggcagaaa tggcgattta tcatctcagc atgaaaatta tctccagaag cagcggctac
      841 agcgccgtag cttccgctgc ctatcgttcc ggttcactga tgcttgatga gcgtaccgga
      901 ctgactcacg actacacccg caaaagcggt gtggctgaag ctgtgattct gacccccgcg
      961 acagcccctg cctggtgtac gaaccgtgcc gaactctgga atgccgttga gaaggccgaa
     1021 tgccggaaga actcacaact tgcgcgggaa attgaactcg ctatcccccg tgaactgccg
     1081 caggatgccg cacgggaaac cgttctcgcc tttgtcagag aaaactttgt cagtcagggc
     1141 atgattgctg atgtggcgtt ccatcacatg gataaaacaa atccccatgc gcacatcatg
     1201 ctgaccacga gggctgtcgg acctgctggg ttcggcggaa aggtcaggga ctggaacgac
     1261 cggacacatg ccgagacgtg gcgtgcatca tgggctgacc atgcaaacag agcactggcg
     1321 aacgccggtt atcaggaaga gatagaccat cgttcatacg agcgacaggg gcttgagaaa
     1381 acgcctggta ttcacctcgg aaagtctgcc tgtgcgatgg aaacacgcgg tatcgaaaca
     1441 gaacgcggcg aacagaatcg tctgattaac aggcttaacc tggaaataca gatttcccgc
     1501 actgaactca ggaacagcgg gctgacagag cctgcccgcc gtgtggctga ccttctgaat
     1561 atcgtgcttc ctgacaacgc aacttcgtac acactacgtg acatcatcga agcgttgccg
     1621 aaggacagta atgcggcatg gaaactcacc agtaatgcca tgtcgatgat ggcagatatg
     1681 caggcgacgc gcagacgctg ggaagagctg aacaccgaac gaaaggaagc gatgagccat
     1741 gctgccagcc tgaaaaaatc atcgccgttt tcgtccggtt tttcccgtat tcccctgatg
     1801 caatgggcgg caccggaata ccgtagcgaa cagggaaaaa tccagtcgct gagccagcaa
     1861 atggaaaaat tgcgacagca ttaccggaag gtggagaaac aggacattcc cgcgagtcag
     1921 acggcatttg aaaaacagtg gcagcagtgg ggggcatccg gccttgcagc tctcagagtc
     1981 cagttgctta aacgtgaaga ggaattgcgc cggaaggagc aggaggatac agaacgtagt
     2041 cgcgcggagc gacgagcgga acagctcagg aaaaatgaca atgccgttat ggattcaggg
     2101 gtactgagcg cagtcgttac ggggtatggc gaggccccca tgcctggtaa cggggaaatg
     2161 acctgttacc ttctgcttca caaccggaac ggagaataca cgctctgggg gaacgagctg
     2221 gagaaatacc gcaccagaat ctttgagcgt gttgatttaa tgcgtgacag gagtggttat
     2281 atctgtgacc gaagcgaaat cggtcaacat ccaccactgc aacgtgttta ttcctctgcg
     2341 acctttgagc aacttctgac gcaggtttgc cagacatggc cgcaatatac ccgcaatctc
     2401 cgccagccga agacatggcc ggagtctttc tgtcttggag aagaccgcca gccagccatg
     2461 ccatcactgg cagcaaggaa ggtggatttt acgcagggac gtctgctacc gacgctgatg
     2521 ccggtaatga gttctgtcga ccgggaaacc cgccagcttc agcttttgct ggtcatgggc
     2581 gtggatgact ctctgggcgg tgttgtccgg cttaatggta cgctgtatcc cgcgtttgcc
     2641 gttccctcag ccgataacag ccagctggtc atcagtgcac tgaccgataa ggggttacgg
     2701 tatgcagggt atggtgttgc cgtaaatcac gatgcagaca gccacatatc acctgcgccg
     2761 gaacttatgg agtttcatct gaaaacccgt gaggcaccgc tttttgctgc cgtcaacaca
     2821 ccagaaaaac agccggatca tctgttccgc tctctgggtt tcaatcgtac ctgggatgaa
     2881 tggcggcgcg aggaagatgc aagaacacac accaccgaga ggagacatga tcgcggttgg
     2941 tcacagtgaa tgtgaacaat attttgtttt gtttaacatc gtgttatgtt cgtcgatgtt
     3001 cttcgatgtt catcgacagg gatgaatgca agaagcacac acacataatg caagcatagt
     3061 tttgtttttc cgcccccaaa aattgggggt tcttttttcg ctgcattaga gcgcttttga
     3121 cgcaattttt cacttcaata gtaccttcgc actactaaca caaaaaaaac gcagcaggga
     3181 gcgttttagg tgccttaaaa tcgattttag atcgtcatct tgatctgttt gtcttccttg
     3241 aagcgaaaat gcagggctac aaccgtgcgc ccctttttga tcgtctcaac cgttacagcc
     3301 aggtcgcttt ttttgttcag ttcttcaaca cagggtttta ttagtatttt atttaagtct
     3361 ctgaattgtt tgtatttatt ttcaatccct aacattgaac gaaagtcatt aagagcaata
     3421 attctctctc ccgtactgcg gaattgctga aggaactcgt atattcttat actgtaacta
     3481 cttgataaac ctgatatgtt ttttataaca acgcgcgtga attgcccctt cagttgcgtc
     3541 agataaggca ttaccgcgtc agaaaaggtt attcgagcct tggcctcacc tttagcgtac
     3601 tgtgcccgat actggatcca gcggaactcc tcacgcttct cgtcattctt gagaatgatc
     3661 gacctgtccc ataaacgatc gatcgcttcc tgtaactgaa cctcggcatt tttccgcccc
     3721 atgtcaggga atgaatcaaa atattccgca gcggtaatgg tcattgtctt ttgcaattca
     3781 gcatcagcac cagatttcaa tcgactgata cacagcaaca gaaaacgttg ttcctgtagg
     3841 gtcaacttgt agctggcctc aaccaaagca ttcgacttgt aggcaatcaa gtccgacata
     3901 caaagatccc gttcaaatgt ggtgatgctt taatgtgccc cacaaataag aaatgtggaa
     3961 tatttttttt tatatcctca catttctgtg aataacacct taaattcctc cacctttacc
     4021 ttaaattcct ccacctaaac accttaaatt cctccacctt taccttaaat tcct
//
