LOCUS       CP099113                4671 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB40-SO-C05 plasmid unnamed5, complete
            sequence.
ACCESSION   CP099113
VERSION     CP099113.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488629
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4671)
  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  JOURNAL   Unpublished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 4671)
  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                     :: RHB40-SO-C05
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 150x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:33:40
            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)                     :: 5,174
            CDSs (total)                      :: 5,056
            Genes (coding)                    :: 4,893
            CDSs (with protein)               :: 4,893
            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)              :: 163
            CDSs (without protein)            :: 163
            Pseudo Genes (ambiguous residues) :: 0 of 163
            Pseudo Genes (frameshifted)       :: 71 of 163
            Pseudo Genes (incomplete)         :: 101 of 163
            Pseudo Genes (internal stop)      :: 40 of 163
            Pseudo Genes (multiple problems)  :: 44 of 163
            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..4671
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB40-SO-C05"
                     /isolation_source="Pooled soil sample collected from floor
                     of cattle farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(4506..4671,1..593)
                     /locus_tag="NFK65_25840"
     CDS             join(4506..4671,1..593)
                     /locus_tag="NFK65_25840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001555316.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WFZ41903.1"
                     /translation="MSGIENSNQGPGWHDHNTPYGTIHSYDGDSHSGYGAHSGGNGGNR
                     HEGISDKTHISIPSTRNYNGYYMSMCVNNLKAHEGFKNTMYKDSEGNITVGIGHLLSTP
                     DMAASLPFTRTHTWHGHGDDMEKEVAASKKEITDAFNNFKKDSRQVPMNLHLSNDAVIG
                     LCISDVQTTEKGLRSLYSGYDGFSNSRKTALVDMGFNLGIPKLSRNFPNFNAAVNRGDW
                     ESAARESHRNLHQRGDQRNKDTADQLRDKH"
                     /name="hypothetical protein"
     gene            676..1155
                     /locus_tag="NFK65_25845"
     CDS             676..1155
                     /locus_tag="NFK65_25845"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001485345.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WFZ41904.1"
                     /translation="MIKRLLFLYVALLFLSEGAYASVTVFIAPSWERNTDSVNEIYKYI
                     DDINSNNHVIDQAYVEPIRKELGVYRDYIQKKLINFNGKGVCKLSITTGSTGVKDIEPP
                     DVVLLNSLAENSSLDCKKLYREIQSIVDNDPSLLFPEKIKSNGLLSIDMIIVMGR"
                     /name="hypothetical protein"
     gene            1167..1298
                     /locus_tag="NFK65_25850"
     CDS             1167..1298
                     /locus_tag="NFK65_25850"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001368419.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_component:
                     GO:0019867 - outer membrane [Evidence IEA]; GO_process:
                     GO:0019835 - cytolysis [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WFZ41905.1"
                     /translation="MRGLVFCALILILPGCQANYIRDVQGGTVAPSSSSAATGIEIR"
                     /name="colicin release lysis protein"
     gene            complement(1511..1642)
                     /locus_tag="NFK65_25855"
     CDS             complement(1511..1642)
                     /locus_tag="NFK65_25855"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001422066.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WFZ41906.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLTPLAAATGRGCTRNC"
                     /name="replication initiation protein"
     gene            complement(2284..2475)
                     /locus_tag="NFK65_25860"
     CDS             complement(2284..2475)
                     /locus_tag="NFK65_25860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /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="WFZ41907.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGETL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(3306..3734)
                     /locus_tag="NFK65_25865"
     CDS             complement(3306..3734)
                     /locus_tag="NFK65_25865"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000830439.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="WFZ41901.1"
                     /translation="MKRSGGTRYMYLSALITVSAALTACTPKTSLEQHTRHYVYASDDG
                     FDPNFYTKKADTTRMMIPFFQQFREMGVKDKAAGVSAETAQQRIKEFHSEEFLQSLRTT
                     TTFAGRKYTNSDMPSPEKMKLLADTISAIYLDGYEGRQ"
                     /name="Exc2 family lipoprotein"
     gene            complement(3815..4252)
                     /locus_tag="NFK65_25870"
     CDS             complement(3815..4252)
                     /locus_tag="NFK65_25870"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001405929.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="entry exclusion protein 1"
                     /protein_id="WFZ41902.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGLVSYRTSQDGRR
                     EFETSELIRAYGELKRNETPERHTAGQAEKPHDQQTERILRELNELKQCLTLMLEDKQA
                     QDTERRRQEAEREQLQNEIAQLRQALEQERKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     Typing          complement(1571..2118)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.374"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gtataccatc taccagaaac tataatggct actatatgag catgtgtgtt aataatttaa
       61 aagcccatga ggggttcaaa aacaccatgt ataaggatag cgaaggtaat attactgttg
      121 gtattggtca tttgctatct acgccagata tggcggcatc tctccctttt acaagaactc
      181 atacatggca tggtcatggt gatgatatgg aaaaagaagt tgcagcatca aaaaaagaaa
      241 taaccgatgc ttttaataac tttaaaaaag actctagaca agtaccaatg aacttgcatt
      301 tatcaaatga tgctgttatt ggattatgta tttccgatgt tcagactaca gagaaaggct
      361 tgcgttcttt atattctggt tatgatggtt tttctaactc tagaaaaact gccttagtgg
      421 atatgggatt taacttagga attcctaagc tatcgagaaa ctttccgaac tttaatgctg
      481 ctgtgaaccg tggggattgg gagtctgcag cacgtgaaag ccatcgaaat cttcatcaac
      541 gaggcgatca gagaaacaag gatacagcag atcagttgcg ggataaacat taatagacca
      601 taacatatag atatgagatg tatttcatct tatattaaag atgaaataca tcaacctata
      661 atgggaatgg attatatgat caagcggtta ttattcttat atgttgcttt attgttctta
      721 tcagaaggtg cttatgcatc tgtaacagta ttcattgctc caagttggga aaggaataca
      781 gattcagtta atgagatata taaatatatt gatgatataa atagtaataa ccatgtcatc
      841 gatcaagcat atgtagaacc tattaggaag gagttagggg tatatcgaga ttatatccag
      901 aaaaaactaa ttaactttaa tgggaaggga gtttgtaaat tatcgataac aacaggaagt
      961 acaggtgtta aagatattga gcctccagat gttgttttgt taaactcatt ggcggaaaac
     1021 tcatcattag actgtaaaaa actgtataga gaaatacaaa gtattgttga taacgatccg
     1081 tcacttttat ttcctgagaa aataaagtca aatggtttgt tatcaattga tatgatcatt
     1141 gttatgggga gataaaatac aattctatgc gtggtttggt tttttgtgcg ctaattttaa
     1201 tattgcccgg ctgtcaggca aattatatca gggatgttca aggagggact gttgcgccat
     1261 cttctagctc agcagctact ggaatcgaaa ttaggtaaaa agattaaagg atcttcttga
     1321 gatccttttt ttctacgcgt aatctgctgc ctgtaaacga aaaaacccac gttctcaggc
     1381 gtgggttctt tcgaaggtta gaagtttctc aggctttcta acccgaggta acagggtgta
     1441 caagaccgct gccaccaaat ctgtcctttc agtgtagccg cagtcggtcc ttcacttcaa
     1501 gaactacgta tcagcaattt cttgtacatc ctctaccagt ggctgctgcc agtggcgtta
     1561 agtcgtgtct taccgggttg gactcaagac gatagttacc ggataaggcg cagcggtcgg
     1621 gctgaacggg gggttcgtgc acacagccca gcttggagcg aacgacctac accaagccga
     1681 gataccaaca gcgtgagcta tgagaaagcg ccacgcttcc cgaagggaga aaggcggaca
     1741 ggtatccggt aagtggcagg gtcggaacag gagagcgcac gagggagctt ccagggggaa
     1801 acgcctggta tctttatagt cctgtcgggt ttcgccacct ctgacttgag cgtcaatttt
     1861 tgtgatgctc gtcagggggg cggagcctat ggaaaaacgc cagcggcgcg gcctttttcc
     1921 ctggttttgc ctttttgctc acatgttctt tccggcatta tcccctgatt ctgtggataa
     1981 ctgtattaca gcttttgagt gagtagacac cgctcgccgc agccgaacga ccgagcgtag
     2041 cgagtcagtg agcgaggaag cggaagagcg cctatactgg cattttctcc ttacgcatct
     2101 gtgcggcatt tcacaccgga catgccgcat gattaagcca gtatacactc cgctatcgct
     2161 acgtgactgg gtcatggctg cgccccgaca cccgctaaaa cccgctgacg cgccctgacg
     2221 ggcttgtctg ctcccggcat tcgctcacag acaagctgtg accgtctccg ggagctgcat
     2281 atgtcagagg gtttcaccgt catccccgaa acgtgcgagg caactgcggt aaagctcatc
     2341 ggcgtggtcg tgaagcgatt cacagatgtc tgcctgttca tccgcgtcca gttcgttgag
     2401 cttctccagc agggttaatg tctggcttct gatgaagcgg gccatgttca gggcggtttt
     2461 ttcctgtttg gtcactggtc tgatgtctcc gtgtaaggga atttctgttc atgggagcat
     2521 gataactgtg acgcaggcga gagtgataaa gctgagtgag cggttagtca ggggcgcaaa
     2581 cattcgaacg cggccagtgc gatgcaggat agggaaaacg ccgtaaaacg acgtcccttt
     2641 cggcaatagc aatatcatgg cacagcatat caactgataa ataatccctg tgcagtacag
     2701 ccgctgttgc ataaaatcgc gctctgcggc gagtgttttt taatcagata ttccgctgat
     2761 actccggaaa aacgcgagtc tgttctcatg tctgaaatgt ccacacccca cgcaaaacca
     2821 actttttgct gatttgcttt ttaaatcatg ttgttatggt tttaaaaatg tattttctta
     2881 ttcagattta tacaaaagca cgtcgtcgac gaccctatgg cgacgctatg acgaccctgc
     2941 ttagggtcag tactgactat ctgtagaaaa aacagttaat taatgtaggg gcgcccctag
     3001 gggcgcgtcg ccttttttta cataacaccc ctgggggcgc tgccaggggt gtctgcccgg
     3061 atatgtagca atgagccagg gattcacgaa ctgaaaatgt ccgaaaatgt gcctcatggg
     3121 caccgtatgc gcccaaacag atcgctattc agtttcgtgc atagtcatgc aacgccctga
     3181 aaacgatcct gacgcatttt tccggttttc ctgggggtaa acatttcttt ttgctgtgcc
     3241 tgcgtcagaa tcgcgctcaa cgcgttttaa tggtgcgtac aattaaggga ttatggtaaa
     3301 tccacttact gtcttccctc gtagccatcg agataaatcg cagaaatcgt gtcagccagc
     3361 agcttcattt tttccggtga tggcatatca ctgttcgtgt attttctgcc cgcaaaggtg
     3421 gttgtggttc tcagtgactg aaggaattct tcagagtgga attcttttat gcgttgctgt
     3481 gccgtttctg ctgatactcc ggctgctttg tctttcaccc ccatctccct gaactgctga
     3541 aagaacggaa tcatcatccg tgtggtgtca gctttcttgg tgtagaagtt aggatcgaac
     3601 ccatcatctg aagcataaac ataatgccgg gtatgttgtt ccaggctggt ttttggggta
     3661 caggctgtga gggctgctga cacagttatc agggcgctaa gatacatata gcgtgtgccg
     3721 ccagaacgtt tcatgcgagt ctccttacct taatgtattt attttcggtg agttattatc
     3781 agaagactat cttatcatca gtctctgaca gcgttcagcg accaaacaac cgggaccaga
     3841 atccccgttt cctttcctgc tccagcgcct gcctgagctg ggctatctca ttctgtagtt
     3901 gttcccgttc tgcttcctgg cgccggcgct ccgtatcctg ggcttgttta tcctcaagca
     3961 tcagcgtcag gcattgtttc agctcgttca gctcccggag aatgcgttct gtctgctgat
     4021 catgaggttt ttctgcctgt cccgctgtgt gcctttctgg tgtctcattc cgctttaatt
     4081 cgccgtatgc ccggatcagt tcactagttt caaactcccg tcgtccgtcc tggcttgtac
     4141 ggtaactgac aaggcctgcg cgcatatcac ggtaaaactg tgaacgcgat ctgcccgtca
     4201 ttttcagtgc gtcccggagt gtgtgccatg ccataaagtg acagtgtccc ataggtgtct
     4261 catctcatgg tctcagtaaa acatactgag gccggagaac ggtaatgttt gtgctggttt
     4321 ttgtgtcatc tggcggggat ggcacatggt gtgagtggct gtttttttga ccgttttcac
     4381 aaaaatgaaa atccacaggg ttgacaggga aaacgcagcg gcgtaatttt aaactgtata
     4441 taaaaccagt ggttatatat acagttgtat tgatcgttgt tttaaatgtc aaagaggaaa
     4501 ttaagatgag tggtattgaa aattctaatc aaggtccggg gtggcatgat cacaatactc
     4561 cctatggaac aattcatagt tatgatgggg acagccatag cggttatggt gctcattctg
     4621 gtggtaatgg gggaaatcgc catgaaggta tttctgataa gacacatatt a
//
