LOCUS       CP099195                6221 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB20-E4-C04 plasmid unnamed3, complete
            sequence.
ACCESSION   CP099195
VERSION     CP099195.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488567
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6221)
  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  JOURNAL   Unpublished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 6221)
  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..6221
                     /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="unnamed3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(6018..6221,1..321)
                     /gene="cni"
                     /locus_tag="NFK03_25765"
     CDS             join(6018..6221,1..321)
                     /gene="cni"
                     /locus_tag="NFK03_25765"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_061352107.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin N immunity protein"
                     /protein_id="WFX40395.1"
                     /translation="MDIKDRNKISKKISFSLLLLLSPFALIFFSYNNAPIPLLEKIIAY
                     LSLPGFHSLNNPPLSEAFNLYVHTAPLAAISLFIFTHKELELKPKSSPLRALKILTPFT
                     ILYISMIYCFLLTDTELTLSSKTFVLMSKNDLFLSFFYITLYIGIYIFTYLYFWFLIGT
                     YKLFTRGGILP"
                     /name="cni"
     gene            complement(330..1493)
                     /gene="cna"
                     /locus_tag="NFK03_25770"
     CDS             complement(330..1493)
                     /gene="cna"
                     /locus_tag="NFK03_25770"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_032488335.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin colicin N"
                     /protein_id="WFX40396.1"
                     /translation="MGSNGADNAHNNAFGGGKNPGIGNTSGAGSNGSASSNRGNSNGWS
                     WSNKPHKNDGFHSDGSYHITFHGDNNSKPKPGGNSGNRGNNGDGASAKVGEITITPDNS
                     KPGRYISSNPEYSLLAKLIDAESIKGTEVYTFHTRKGQYVKVTVPDSNIDKMRVDYVNW
                     KGPKYNNKLVKRFVSQFLLFRKEEKEKNEKEALLKASELVSGMGDKLGEYLGVKYKNVA
                     KEVANDIKNFHGRNIRSYNEAMASLNKVLANPKMKVNKSDKDAIVNAWKQVNAKDMANK
                     IGNLGKAFKVADLAIKVEKIREKSIEGYNTGNWGPLLLEVESWIIGGVVAGVAISLFGA
                     VLSFLPISGLAVTALGVIGIMTISYLSSFIDANRVSNINNIISSVIR"
                     /name="cna"
     gene            1752..2189
                     /locus_tag="NFK03_25775"
     CDS             1752..2189
                     /locus_tag="NFK03_25775"
                     /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="WFX40397.1"
                     /translation="MGHCHFMAWHTLRDALKMTGRSRSQFYRDMRAGFVSYRTSQDGRR
                     EFETSELIRAYGELKQNETPERHSAGQAENPHDQPTERILRELNELKQCLTLMLEDKQA
                     QDMDRKRQEAEREQLQNEIAQLRQALELEKKRGFWSRLFGR"
                     /name="entry exclusion protein 1"
     gene            2270..2689
                     /locus_tag="NFK03_25780"
     CDS             2270..2689
                     /locus_tag="NFK03_25780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016247941.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Exc2 family lipoprotein"
                     /protein_id="WFX40398.1"
                     /translation="MRRTGNKLCLIAMITATVALTACTPKGSVEQHTRHYVYASDDGFD
                     PNFSTQKADTTRMMVPFFRQFWDMGAKDKATGKSRSDVQQRIQHFHSQEFLNSLRGTTQ
                     FAGTDYRSKDLTPKKSRLLADTISAVYLDGYEGRQ"
                     /name="Exc2 family lipoprotein"
     gene            2883..3053
                     /locus_tag="NFK03_25785"
     CDS             2883..3053
                     /locus_tag="NFK03_25785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005074609.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WFX40399.1"
                     /translation="MSKAPIGTTASTGQKCPESGVWKVVGTPSTTAPIAKGNVMPPYNG
                     KAVTWKLTQYA"
                     /name="hypothetical protein"
     gene            complement(3409..3642)
                     /locus_tag="NFK03_25790"
     CDS             complement(3409..3642)
                     /locus_tag="NFK03_25790"
                     /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="WFX40391.1"
                     /translation="MTELEIHLLNALEQLQQDYMQRLSEWESAFVELQKMFSLTQRDNA
                     MLNERVMQLSQQVQHLSEQTERLSQLYSENWR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3649..4167)
                     /locus_tag="NFK03_25795"
     CDS             complement(3649..4167)
                     /locus_tag="NFK03_25795"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /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="WFX40392.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTEKMLNDEFRKLGESVSEAVTSNE
                     TKIRDAIALFTASTEKSLEKHREGVKEAMMQHRKDVLKLAGNTGMMLLGIVFLLFTASG
                     GTLWYLGGRIQTNLEEIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVIPFQ
                     GKEWVHLKE"
                     /name="MbeB family mobilization protein"
     gene            complement(4276..4578)
                     /locus_tag="NFK03_25800"
     CDS             complement(4276..4578)
                     /locus_tag="NFK03_25800"
                     /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="WFX40400.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVRM"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4642..4833
                     /locus_tag="NFK03_25805"
     CDS             4642..4833
                     /locus_tag="NFK03_25805"
                     /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="WFX40393.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(5853..5990)
                     /locus_tag="NFK03_25810"
     CDS             complement(5853..5990)
                     /locus_tag="NFK03_25810"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001329514.1"
                     /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="WFX40394.1"
                     /translation="MCGKILLILFFIMTLSACQVNHIRDVKGGTVAPSSSSRLTGVEIK
                     "
                     /name="colicin release lysis protein"
     Typing          complement(4919..5006)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.876"
                     /coverage="100.0"
                     /evalue="3.19e-37"
     Typing          5020..5575
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.086"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(4283..4608)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.165"
                     /coverage="92.0"
                     /evalue="1.83e-63"
ORIGIN
        1 acagcccctt tagctgcaat cagcttattc atattcacac acaaagaatt agagttaaaa
       61 ccaaagtcgt cacctctgcg ggcactaaag atattaactc ctttcactat tctttatata
      121 tccatgatat actgtttctt gctaactgac acagaactaa ccttgtcatc aaaaacattt
      181 gtattaatgt caaaaaacga tctgtttttg tcttttttct atataacact atatattggg
      241 atatatatat tcacatattt gtacttttgg ttccttatag gaacatataa gctatttacc
      301 aggggaggaa tactcccctg acactaatat catcgaataa cactagatat aatgttattt
      361 atattcgaaa ctcgatttgc atctatgaaa gatgacaagt aactaatcgt cattattcct
      421 attaccccca acgcagtaac tgcaagtcca gagattggga gaaaactcaa cacagccccg
      481 aataaactaa tagcaactcc agcaacaacg ccaccaatga tccatgattc aacctccaac
      541 aggagaggtc cccagttgcc agtattgtat ccctcaatgc ttttttccct aattttctca
      601 acctttatag ctaaatcagc aaccttaaat gccttgccaa gattaccaat cttattagcc
      661 atgtccttag cattaacctg tttccaggca ttcacaatgg catccttatc agatttgttt
      721 actttcatct ttggatttgc taacacttta ttaagtgaag ccattgcttc attatagcta
      781 cgaatattac gaccatggaa gtttttaata tcattggcaa cttccttagc tacattttta
      841 tattttactc caagatactc gccaagctta tcccccatac cagacacaag ttcactagcc
      901 tttagcaagg cttctttttc atttttttct ttttcttcct tcctaaataa taaaaactgg
      961 ctcacaaacc tcttcacaag tttattgtta tatttcggtc ccttccagtt cacataatca
     1021 actctcattt tatcaatatt actatctgga acagtaacct taacatactg accttttctg
     1081 gtgtgaaaag tatatacctc tgtaccttta attgattccg catcaattaa ttttgccaac
     1141 aatgaatatt caggatttga cgaaatataa cgacctggtt tcgagttgtc aggtgtgatt
     1201 gttatctctc caaccttagc actcgctcca tcaccgttat tacctcgatt tccactattc
     1261 cctccaggtt taggctttga attattgtcc ccatgaaatg taatatggta agaaccatca
     1321 ctgtggaagc catcattttt atgaggctta ttactccatg accatccatt ggaatttcct
     1381 cggttacttg atgcactacc attacttcct gcgccactgg tattaccaat gcccggattt
     1441 ttccctccac caaaagcatt gttatgtgca ttatctgcgc cattactacc cataataaat
     1501 ccctctttga cttttaaaac aaaccgttaa aaataaatac tgtacacata accactggtt
     1561 ttatatacag tttaaaatta cgccgctgcg tttttcctgt caaccctggg aattttcgtt
     1621 tttgtgaaaa cgatcaaaaa aacagccacc cacaccacgt gctattcccg ccggatacca
     1681 caaaaaccag cacaaacatt accgttctca gacctcatta tgttttactg aaaccatgag
     1741 atgagacacc tatgggacac tgtcacttta tggcatggca cacactccgt gacgcactga
     1801 aaatgacagg cagatcgcgc tcacagtttt accgtgatat gcgcgcaggc tttgtcagtt
     1861 accgtaccag tcaagacgga cgacgggagt ttgaaaccag tgaactgatc cgggcatacg
     1921 gcgaattaaa gcagaatgag acaccagaaa ggcacagtgc gggacaggca gaaaatccac
     1981 atgatcagcc gacagaacgc attctccggg agctgaatga gctgaaacaa tgcctgacgc
     2041 tgatgcttga ggacaaacag gcacaggata tggatcgcaa acgccaggaa gcagaacggg
     2101 aacagctgca gaatgagata gcccagctca ggcaggcact ggaactggaa aagaaacggg
     2161 gattctggtc caggctgttc ggtcgctgaa cgctgtcaga gactgatgat aaaatagtct
     2221 tcggataata actcaccgag aataaacact tgaaggtagg gagacactca tgagacgtac
     2281 cggaaacaaa ctgtgtctta tcgccatgat aacagcaaca gtagctctca cagcctgtac
     2341 cccaaagggc agcgtggaac aacatacccg gcattacgta tatgcttctg atgacggttt
     2401 tgatcctaac ttttccaccc agaaggccga cacaacacga atgatggtgc ctttttttcg
     2461 gcagttctgg gatatgggag ctaaagataa agcgacagga aaatcacgga gtgatgtgca
     2521 gcaacgcatt cagcactttc acagtcagga atttttaaac tcactccgag gcacaacaca
     2581 atttgcgggt accgattacc gcagcaaaga cctcaccccg aaaaaatcca ggctgctggc
     2641 tgacaccatt tcggctgttt atctcgatgg ctacgagggc aggcagtaag ttgattttcc
     2701 ataagtcctt tataacaaaa ccaaaactta caacgccaaa atcatataca actttgttaa
     2761 aaatatgacc acaatcacat ctgtgaaaaa acgaccttta agcccgcttg aaagctgatt
     2821 tctaaaccag aaataagtat tgctacacaa gcatacggat aaaacataca agaggaatca
     2881 atatgtctaa agccccaatt ggtacaacag cttcaaccgg acaaaaatgc cctgaaagcg
     2941 gtgtttggaa agtggtagga acgccttcaa ctacagcacc aattgccaaa ggcaatgtaa
     3001 tgcctccgta taacggaaaa gccgtaactt ggaaattaac ccaatacgct tgatatctca
     3061 aaagccccca ccgggggctt tttcgttatt cttggattta ccataatccc ttaattgtac
     3121 gcaccgccaa aacgcgttcg gtgcgatcac ggcagcagac aggtaaaaat ggcaacaaac
     3181 cacccgaaaa actgccgcga tcgcgcctga taaattttaa ccgcatgaat acctatgcaa
     3241 ccagatggta caggccacat taacccctct taatccactg aagctgccat ttttcatggt
     3301 ttcaccatcc cagcgaagga ccatccagcg tgcgttcctg tatttccggc tgacgctccc
     3361 gttccaggga taacgcatgt tcgcgctcct gtatcagccg ttcctctctt atctccagtt
     3421 ctcgctgtat aactggctca agcgttctgt ctgctcgctc aagtgctgca cctgctgact
     3481 caactgcatg acccgctcgt tcagcatcgc gttgtcccgt tgcgtaagcg aaaacatctt
     3541 ctgcaattcc acgaaggcgc tctcccattc gctcagccgc tgcatatagt cctgttgcag
     3601 ctgctctaag gcgttcagca aatgtatttc cagctctgtc actctgtgtc actccttcag
     3661 atgtacccac tctttcccct gaaagggaat cacctccgct gatttcccgt acggaaggac
     3721 aaggaatttc ctgttcccgt cctgcacaaa ctccacgccc catgtcttcg cgttcagttt
     3781 ctgcaatgtc tcttcctgct tcctgatttc ttccaggttc gtctgtatcc gtccgccaag
     3841 ataccagagc gtcccgccac tcgcggtaaa caggagaaag actatcccca gtaacatcat
     3901 gcccgtattc cctgccagct ttaacacgtc cttcctgtgc tgcatcatcg cctctttcac
     3961 cccttcccgg tgtttttcca gcgatttctc tgtcgaggct gtgaacaggg ctatagcgtc
     4021 tctgattttc gtctcgtttg aggtcacagc ctcgctgaca gactcgccga gcttcctgaa
     4081 ctcgtcgttc agcattttct ctgtagattc ggctctctct ttcagctttt tctcgaactc
     4141 cgcgcccgtc tgtaaaagat tgctcataaa acgctccttt cagtctgata ttcctcccgc
     4201 cgttcgggtc tgcaatgctg atactgcttc gcgtcaccct gaccacttca agccccgcct
     4261 ctgtgagcgc ctgaatcaca tcctgacggc cagacgcagc cggcgcagct catccccgat
     4321 ggccatcagt gcggccacca cctgaacccg gtcaccggaa gaccactgcc cgctgttcac
     4381 cttcctcgct gtctgattca ggttattccc gatggcggcc agctgacgca gtaacggcgg
     4441 tgccagtgtc ggcagcttcc cggaacgggc aaccggctca cccaggcaga cccgccgcat
     4501 ccatactgcc agttgtttac cctcacagcg ttcaagtaac ctggcatgtt catcatcagt
     4561 aacccgtatc gtgagcatcc tctcgcgttt catcggtatc attaccccat gaacagaaat
     4621 cccccttaca cggaggcatc agtgactaaa caggaaaaaa ccgcccttaa catggcgcgc
     4681 tttatcagaa gccagacatt aacgctgctg gaaaagctca acgaactgga cgcggatgaa
     4741 caggcagaca tctgtgaatc gcttcacgac cacgccgatg agctttaccg cagctgcctc
     4801 gcacgtttcg gggatgacgg tgaaaacctc tgacacatgc agctcccgga gacggtcaca
     4861 gcttgtctgt gagcggatgc cgggagcaga caagcccgtc agggcgcgtc agcaggtttt
     4921 agcgggtgtc ggggcgcagc cctgacccag tcacgtagcg atagcggagt gtatactggc
     4981 ttaactatgc ggcatcagtg cggattgtat gaaaagcacg ccatgccggg tgtgaaatgc
     5041 cgcacagatg cgtaaggaga acataccgca tcaggcgctc ttccgcttcc tcgctcactg
     5101 actcgctgcg ctcggtcgtt cggctgcggc gagcggtatc agctcactca aagacggtaa
     5161 tacggttatc cacagaatca ggggataagg ccggaaagaa catgtgagca aaagaccagg
     5221 aaccggaaaa aggccgcgcc gatggcgttt ttccataggc tccgcccccc tgacgagcat
     5281 cacaaaaacc gacactcaag tcagaggtgg cgaaacccga caggactata aagataccag
     5341 gcgtttcccc ctggaagctc cctcgtgcgc tctcctgttc cgaccctgcc gcttaccgga
     5401 tacctgtccg cctttctccc ttcgggaagc gtggcgcttt ctcatagctc acgctgttgg
     5461 tatctcggct tggtgtaggt cgttcgctcc aagctgggct gtgtgcacga accccccgtt
     5521 cagcccgacc gctgcgcctt atccggtaac tatcgtcttg agtccaaccc ggtaagacac
     5581 gccttaacgc cactggcagc agccactggt aaccggatta gcagagcgag atttatccag
     5641 atgcttacag agttcttgaa gtgatggccc aactgcggct acactgaaag gacagtattt
     5701 ggtatctgcg ctctgctgaa gccagttacc tcggttaagc agtccccaac tgacttaacc
     5761 ttcgactaaa ccgcctcccc aggcggtttt ttcgtttaca ggcagcagat tacgcgtaga
     5821 aaaaaaggat ctcaagagga tcctttgatc ttttacttaa tttcaactcc tgttagtctg
     5881 gatgatgatg atggagcaac agtccctcct ttcacatcac ggatgtgatt gacctgacat
     5941 gcactaagtg tcatgataaa aaacaagatt aataaaattt tcccacacat aattttcaac
     6001 catccaaaga aagcaacatg gatataaaag acagaaataa gatatcaaaa aaaatatcat
     6061 tcagtcttct gctcttactt tccccattcg cattaatatt tttcagttat aataatgcac
     6121 caataccact cctcgaaaaa atcatcgcat acctatccct accaggattt cattcattaa
     6181 acaacccgcc cctaagcgaa gcattcaatc tctatgttca t
//
