LOCUS       CP099301                4664 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB02-E1-C06 plasmid unnamed2, complete
            sequence.
ACCESSION   CP099301
VERSION     CP099301.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488483
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4664)
  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  JOURNAL   Unpublished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 4664)
  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                     :: RHB02-E1-C06
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 96x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 20:15:33
            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)                     :: 4,798
            CDSs (total)                      :: 4,677
            Genes (coding)                    :: 4,490
            CDSs (with protein)               :: 4,490
            Genes (RNA)                       :: 121
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 187
            CDSs (without protein)            :: 187
            Pseudo Genes (ambiguous residues) :: 0 of 187
            Pseudo Genes (frameshifted)       :: 60 of 187
            Pseudo Genes (incomplete)         :: 111 of 187
            Pseudo Genes (internal stop)      :: 44 of 187
            Pseudo Genes (multiple problems)  :: 25 of 187
            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..4664
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB02-E1-C06"
                     /isolation_source="Pooled sediment sample collected from
                     floor of pig farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed2"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(329..652)
                     /locus_tag="NFJ19_23955"
     CDS             complement(329..652)
                     /locus_tag="NFJ19_23955"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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="WFV06444.1"
                     /translation="MLTMWVTEGEHRRLLERCDGRQLAAWMRQTCLDEKPARSGKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(1709..3265)
                     /locus_tag="NFJ19_23960"
     CDS             complement(1709..3265)
                     /locus_tag="NFJ19_23960"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013199864.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sensor domain-containing diguanylate cyclase"
                     /protein_id="WFV06443.1"
                     /translation="MRIKKPHLRPIVITLSVGGILLTSIFLIAVIMVFQRENIEKDLLY
                     ANSSYAMKMSDVMSGYIEMAQGELAYGAKKIKSTNDIDSLKDEADRLRLQSGMFNSVLV
                     VSNDAVVLATSPESLDLVGTRLNSSASKLAVEEKKPFISSPLKSVAGNLIVLLSHPIYD
                     KGGNYIGYVGGSIYLKKHSLFGDVLSRHFFKNNTEISIVSDDGNVIFNNDKSAVDRPMV
                     MSDDLKSKLTASDRGEGAFFSSGHRYLLGYASMKNTAWNVLVYSRADSVTTILIAYAKS
                     VLVLLIIIIIVFSLISYFIASSISLPLEKLAISTNAKDIGASLVYIKAINAWYAEADRL
                     KKALFTYIKVMMERVDSLNEVALKDPLTGVNNRLGFLSKIQNHKRDSGCSVIVIDVDFF
                     KEINDSFGHGVGDEVLVSLAHIINSCCRSEDVVCRFGGEEFVVFLPNTSVVTAKCVAER
                     IRSVIESTVFPNNLRVTISAGVATQDDPLGRIDFLLKNADDALYQAKREGRNKVIVYSA
                     I"
                     /name="sensor domain-containing diguanylate cyclase"
     gene            complement(3611..3826)
                     /locus_tag="NFJ19_23965"
     CDS             complement(3611..3826)
                     /locus_tag="NFJ19_23965"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /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="WFV06441.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWESAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSEQLRRLSSD"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3830..4315)
                     /locus_tag="NFJ19_23970"
     CDS             complement(3830..4315)
                     /locus_tag="NFJ19_23970"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /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="WFV06442.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQNTGEMLKAAFSEHEKSVKAELNESA
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     DNYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVKVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     Typing          complement(766..938)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.276"
                     /coverage="100.0"
                     /evalue="9.21e-81"
     Typing          863..1414
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.639"
                     /coverage="91.0"
                     /evalue="0.0"
     Typing          complement(2..339)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.345"
                     /coverage="86.0"
                     /evalue="3.95e-66"
     Typing          complement(336..652)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="1.9499999999999998e-60"
     Typing          complement(3508..4664)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="90.933"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ctccgtgttc gggatcagaa aattcagctc aagccgcccc ttgtcacgat gctccaccca
       61 caggatgctg tactggtctt tatcaagtcc gggaatcaga acccgctcaa agcttgccat
      121 cagcttttcc cgctggccgg aaggtaaatc cgcttccgca aacgacagta ccccggaggt
      181 gtatttctta acgtaaggcg acgcgtcaat cagctcccgg acttcttccg gcttcccctg
      241 caggacggtg gcgccttcac gctgccggtc tttacccagc agatagtcca ccggcccggc
      301 gccaccgccg cgaccgcgtg gatgaaattt aacgatcatc gtccgttcct ttctcaagaa
      361 cggcgtgccg cagccgctca agtccggcat cgatggccat cagcgccgca acaatctgca
      421 ccctgtcatg gccggtaccg ccgccggcgt taacacggcg ggctatctgg ttcaggttat
      481 tgcccatgcc ggcaagctgg cgcagcagcg ccggcgagat tgagggaagc tttccggaac
      541 gtgccggctt ttcgtccagg caggtctgcc gcatccacgc cgccagctgc ctgccgtcac
      601 agcgctcaag cagccgccgg tgctcgccct ccgtcaccca catggtgagc atcttgttcc
      661 gtttctctga caaaccggcc tcctgataac gccgggacgg gcgggaaagg ctttcccggt
      721 cggcgcgggg ttggacaagc cgcaggcgcg tcaggctttt ggcgggtttc ggggcgcagc
      781 cctgaaccag tcacgtagcg ctagcggagt gtatactggc ttactatgtt ggcacggatg
      841 cgagtgtcag tgaagtgctt catgtggcag gagaaaaatg cagcagcgga gcgtcagcag
      901 aatatgtgat acaggatata ttccgcttcc tcgctcactg actcgctgcg ctcggtcgtt
      961 cggctgcggc gagcggtacc gacttacagg cggggcggaa atttcctggg agatgccagg
     1021 aagaagctta acagggaagc gataaggcca cggcgaagcc gtttttccat aggctccgcc
     1081 cccctgacaa gcatcacgaa atctgacgct caaatcagtg gtggcgaaac ccgacaggac
     1141 ttaaagatac caggcgtttc cccctggtgg ctccctcgtg cgctctcctg ttcctgcctt
     1201 tcggtttacc gatgtcaatc cgctgttatg gccgcgttta tctcattcca cgcctgacac
     1261 tcggttccgg gaaggcagtt cgctccaagc tggactgtat gcacgaaccc cccgttcagc
     1321 ccgactacca cgttgtcccg gtaactatca tcttgagtcc aacccggaac agacacgaaa
     1381 aatcgccagt ggcggtagcc attagtaaga ggattcacgg agcggagtag tagagtgttc
     1441 tacagagttc ttgaagtggt ggcctgactg cggctacact ggaaggacag ttttggtacc
     1501 tgcgctccgt gaaagccagt taccttcgga agaaagagtt ggtagctctg aattccggca
     1561 aacgaaccac cgttggtagc ggtggttttt ttgtttacag ggtatgagat tacgacgaca
     1621 tcgaagggat aacaagagga tccgcttctt gcccactctt cgccacaaaa aaaacgacac
     1681 actagcgcgt aaagcatcat caaaaaactc aaatagcgct atatacaatc actttattac
     1741 gcccctccct tttggcttga taaagagcat cgtcagcatt tttcagcaaa aaatcgatcc
     1801 taccaagagg atcatcttgt gttgccacac cagcagatat ggtgacccgc aagttattag
     1861 ggaagacagt actttcaata acactcctaa tacgctccgc aacacactta gctgttacca
     1921 cagatgtatt cggcaggaaa acaacaaact cttcgccacc aaaccgacaa acaacatctt
     1981 cactacggca acaggaatta ataatatgag ccaaagaaac aagcacctca tctccgaccc
     2041 catgcccgaa actgtcattt atctctttaa aaaaatcaac atcaattaca ataactgaac
     2101 accctgaatc ccgcttatga ttctgtattt tacttaaaaa ccccaatcta ttattcacgc
     2161 cggtaagggg atctttaagc gccacctcat ttagagaatc aactctttcc atcattacct
     2221 taatatacgt aaaaagcgcc tttttaagcc tatcagcttc ggcataccaa gcattgatag
     2281 ctttaatata aactagcgaa gctccgatat ctttagcatt ggtagatata gcaagctttt
     2341 ctaaaggaag tgaaatactg gaggcaatga aatatgaaat aagtgaaaac acaataatta
     2401 ttataattag cagaacaagt acacttttag cataagcaat aagaatagta gtcacactgt
     2461 cagcacgact ataaaccaac acattccaag cggtattttt catactagca taaccaagaa
     2521 gatatctatg ccccgaagaa aaaaatgccc cctcacctct atcagacgca gttaactttg
     2581 atttcaaatc atcagacata accataggcc gatcaacagc acttttatcg ttattaaaga
     2641 tcacattccc atcatcacta acaatgctaa tttcagtgtt gttcttgaaa aaatgcctgc
     2701 tcaaaacatc gccaaataaa ctatgttttt ttagatatat agacccaccg acatacccta
     2761 tgtaattgcc acccttatca taaataggat gtgacaacaa aacaatcaaa ttcccagcaa
     2821 ctgattttaa cggtgaagat atgaatggtt tcttttcctc aaccgccaat ttgctggcac
     2881 ttgaattcaa gcgggtacca actaaatcaa gagattctgg cgaagtcgcc agaacaacag
     2941 catcattact aacaacaaga actgaattaa acataccaga ctgcaatctt aacctatccg
     3001 cctcatcttt aagtgagtca atatcattag ttgattttat tttttttgct ccatatgcta
     3061 attcaccttg agccatttca atataaccac tcattacatc tgacattttc atagcgtacg
     3121 atgaattagc ataaagcaaa tctttttcta tattttcgcg ctgaaaaacc ataataacgg
     3181 caatcagaaa aatagaagtt aacaaaatcc caccaacgga caaggttatg actatcggac
     3241 gaaggtgagg ctttttaatt ctcataaaaa tacactccat ataataaaaa atgccgcatt
     3301 taccataaca tcccttatca gcaccgcccc ggacgggttc ggaacaaatg cggcgtcagc
     3361 ccggtaaaac cggcagcaaa ctctccgcta aaccgcgcat tctgcgccag ataaatttca
     3421 cccggctgca tggctatgca gtcgggtgaa tggctccggc tttcagcgca gatgtccgcc
     3481 gaaagccccg ttttatcagg ttatcacagt gaagggctgt tatacgtccg ctgtcgctga
     3541 gatcgctcca gctccagcgc tttctgatgc tgcaccacgc gctcctgctc ccggtgcagc
     3601 tcgacggcat tcagtcgctc gacaaccggc gcagctgctc gctcaaactc tgcacctgcc
     3661 tgctcaagcc cgtgacgcgc tcgctcagcg ctgcgttctc ccgttgcata agaccagaca
     3721 tcgtccgcca ttccgcgaag gcgctctccc actcgtccag ccttttcgag tagtcctgct
     3781 gtagctgctc taatgcgctc agcaactgtt tttccagctc cgtcatgtgc tatttccccg
     3841 ccagtatcat ccagctcgaa tcctctccga accgtcccgc ttccgggttc accttcacgc
     3901 agcggcgtct ctgctcgccg caggtcgaga gctgcacgcc gctgttcctc tctgacagca
     3961 tggcctgcgt gctcttctgc tcccggatgg tcgtgtagtt gtcgagtatc tgctgcccct
     4021 gccaccacag aatgcccgcg ctcgaggcga tcagcagcgc ggagaccagg acgatggtca
     4081 gccacgtctg gctgaccatg cgcaccatgc ctttcgtgcg ctggctcatg gctgaggaca
     4141 gtttccggtc gtggtcgagg atggcggcgc tgattctctt cgcgctttcg ttcagttccg
     4201 cttttacaga tttctcgtgc tcgctgaatg cggctttcag catctcgccg gtattctgct
     4261 gctgcgcttt cgatttctgc tctaagtcct tcgccagcgt taaaagactg ttcataaatg
     4321 gctcccttca gtcggatgtt tcgccccccg tccgggtcgg caatgctgat actgcttttt
     4381 gtggtgcgga ccacctcaaa acctgcgctt tccagcgcct cagtgacatc ctgacgggtt
     4441 ttcagctccc cggatgaggc aagagcaagc agaccgcgtg taatcgcttc tgcagcctcc
     4501 tgcttcgctt taggcagtgc agacggtgtg accagtgccc gccggttctc cggtgcgttc
     4561 gggtcgtgca gccccagtct gccgttcacg atggtctgcc aggcatcgat gcgtggacgg
     4621 tcggcgcgat cgtaatacgg ctggagccgt ctgccggtca gcag
//
