LOCUS       CP099105                4245 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB41-E2-C05 plasmid unnamed3, complete
            sequence.
ACCESSION   CP099105
VERSION     CP099105.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488632
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4245)
  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  JOURNAL   Unpublished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 4245)
  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                     :: RHB41-E2-C05
            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 18:11:39
            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)                     :: 4,652
            CDSs (total)                      :: 4,535
            Genes (coding)                    :: 4,366
            CDSs (with protein)               :: 4,366
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 169
            CDSs (without protein)            :: 169
            Pseudo Genes (ambiguous residues) :: 0 of 169
            Pseudo Genes (frameshifted)       :: 59 of 169
            Pseudo Genes (incomplete)         :: 98 of 169
            Pseudo Genes (internal stop)      :: 36 of 169
            Pseudo Genes (multiple problems)  :: 23 of 169
            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..4245
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB41-E2-C05"
                     /isolation_source="Pooled sediment sample collected from
                     floor of pig farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(3995..4245,1..268)
                     /locus_tag="NFK68_23230"
     CDS             join(3995..4245,1..268)
                     /locus_tag="NFK68_23230"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016246513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WFZ55179.1"
                     /translation="MKCFWACSVSVVLVMSFTVASAENITHTKPLARSDLYLTCKGYQV
                     KGASVINVEKPSYLEGTGEQVEFAIISLGDASDGLKVFFDSWGFSPFGLIESHVMHEHW
                     SLVHVGGRVSVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCINSDKRPSWVEKIYTRT
                     GVFRGGIED"
                     /name="hypothetical protein"
     gene            complement(498..1085)
                     /locus_tag="NFK68_23235"
     CDS             complement(498..1085)
                     /locus_tag="NFK68_23235"
                     /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="WFZ55180.1"
                     /translation="MIRNIFFASAIVVAISGCTAMDKLAGMGVVSQQTSTFDNSTVIDV
                     SPNSLYDPNSTWGTQLQLGAIWSSSQPDQVGLILSYNSNVSNGSSAYLGFIGIDINIDG
                     KISSYKAQQLTNLSNSGYNTVSKTIYTSSKNTVVIPYEVLEKMVSAKNCRLRIHTTEGN
                     QDIDFSAASIPGGKATAIVSIKEFMTKVAKVK"
                     /name="hypothetical protein"
     gene            complement(1400..1513)
                     /locus_tag="NFK68_23240"
     CDS             complement(1400..1513)
                     /locus_tag="NFK68_23240"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WFZ55181.1"
                     /translation="MHEPPVQSDRCALSGNYHLESNPERHAKAPLAAATDN"
                     /name="replication initiation protein"
     gene            2161..2484
                     /locus_tag="NFK68_23245"
     CDS             2161..2484
                     /locus_tag="NFK68_23245"
                     /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="WFZ55182.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGKLPSL
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2693..3127
                     /locus_tag="NFK68_23250"
                     /pseudo=""
     CDS             2693..3127
                     /locus_tag="NFK68_23250"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            3162..3647
                     /locus_tag="NFK68_23255"
     CDS             3162..3647
                     /locus_tag="NFK68_23255"
                     /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="WFZ55177.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSALLTASGASILWWQGQQIL
                     DNYTTIREQKRTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            3651..3866
                     /locus_tag="NFK68_23260"
     CDS             3651..3866
                     /locus_tag="NFK68_23260"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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="WFZ55178.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSDQLRRLSKG"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          1875..2047
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="94.828"
                     /coverage="100.0"
                     /evalue="9.34e-71"
     Typing          complement(1405..1950)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.078"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          2475..3958
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.313"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tgattcatgg ggtttttctc cttttggatt gattgaaagt catgtaatgc atgagcactg
       61 gtctttagtt catgttgggg ggcgtgtttc agtcaagggt gaaaagattg attattcatt
      121 tgtagataac cagccacagg agggtgggag ctataaaccc aaaacaggtg tgttcctgta
      181 tggctgcatt aactctgata aaaggccatc ttgggtcgaa aaaatctaca caagaacagg
      241 cgtgtttcga gggggcatag aagactaaaa tactgcgtac agcatgaaaa ttcattgaac
      301 agagtgttag ttcattttcg tgcatggcta tgcatacacg caaaacttat cagcgcgatt
      361 ccgggcggtt ttcggtgaga agacgggctc ttttgtggct caggacggaa aaacgccctg
      421 agcgcgtctg agcggtgcgc ccaagggatg ttatggtaaa tagtgtgaag tgccgcctgt
      481 aatggcggct tagttaccta tttaactttt gccactttag tcatgaattc tttaatggaa
      541 acaatcgcag tagctttccc cccagggata cttgcagctg agaaatcgat gtcttgatta
      601 ccttcagttg tatgtatgcg aaggcggcag tttttagccg acaccatctt ttctagcact
      661 tcatatggga taacaacggt atttttgctg gatgtgtaga tcgttttgga tacagtattg
      721 tatccactgt tacttagatt agttagttgc tgtgctttat agctagatat cttgccatca
      781 atatttatat ctattcctat gaaacctaag tatgcggaac ttccattaga tacatttgaa
      841 ttgtaggaaa ggatcagccc tacttgatct ggttgggagc tggaccatat tgctcctaac
      901 tgaagttgtg ttccccaagt gctgttcggg tcgtatagcg aatttggaga gacatctatg
      961 acagttgagt tgtcaaaagt ggatgtttgt tgagaaacca cacccattcc cgccagttta
     1021 tccattgctg tacagccaga gatggctact acgatcgcag aagcaaaaaa aatattcctt
     1081 atcatttcgt tatcctattt ttttcttgtt accagagagt gaaaaaagca tcgtattacc
     1141 gaaactattt tgcacgcgat tttcttttta agaaggattt tgaaaggata cgggcagatc
     1201 ttcttgagat ccttaagcga gcgtcgtaat ctcttgacca cgaaacgaaa aaaccgcctt
     1261 gcagggcggt ttttcgaagg ttctcagagc taccaactct ttgaaccgag gtaactggct
     1321 tggaggagcg cagtcaccaa aacttgtcct ttcagtttag ccttaaccgg cgcataactt
     1381 caagactaac tcctctaaat cagttatcag tggctgctgc cagtggcgct tttgcatgtc
     1441 tttccgggtt ggactcaaga tgatagttac cggacaaggc gcagcggtcg gactgaacgg
     1501 ggggttcgtg catacagtcc agcttggagc gaactgccta cccggaactg agtgtcaggc
     1561 gtggaatgag ataaacgcgg ccataacagc ggaatgacac cggtaaaccg aaaggcagga
     1621 acaggagagc gcacgaggga gccaccaggg ggaaacgcct ggtatcttta agtcctgtcg
     1681 ggtttcgcca ccactgattt gagcgtcaga tttcgtgatg cttgtcaggg gggcggagcc
     1741 tatggaaaaa cggcttcgcc gcggccttct catttccctg ttaagttcct tcttggcatt
     1801 taccaggaaa cttccgccct attcgtaagc ccgcaccgct cgccgcagcc gaacgaccga
     1861 gcgcagcgag tcagtgagcg aggaagcgga atatatcctg tctcatatat tctgcttacg
     1921 ctccgctgct gcatttttct cctgccacat gaagcgcttc actgattccc gcacccgtgc
     1981 caacatagta agccagtata cactccgcta gcgctacgtg actggttcag ggctgcgccc
     2041 cgaaacccgc taaaaccact gacgcgcctg cggcttgtcc aacaccgcgc cgaccgggaa
     2101 aagatttccc gcccgtcccg gcgttatcag gaggccggat tggcagacaa acgcagcaaa
     2161 atgctcacga tgtgggtgac cgaagatgag caccgccgtc tgctggagcg ctgcgacggt
     2221 aaacagcttg cagcctggat gcgccagacg tgcctggacg agaaacccgc ccgcgccggc
     2281 aagcttccct cgctctcgcc ggcgctgctt cgtcagcttg ccggcatggg gaacaacctc
     2341 aaccagattg cccggcaggt taacgccggt ggtggcagcg ggcacgaccg cgtgcaggtc
     2401 gtcgccgcgc tgatggccat cgatgccgga ctcgagcggc tgcggcatgc cgtgctggaa
     2461 aagggtgcag acgatgatcg ttaagtttca cccgcgaggg cgcggcggtg gcgccggtcc
     2521 ggtggattat ctgctgggga aagaccgaca gcgcgacggc gccaccgttc tgcaggggaa
     2581 gccggaagaa gtcagggagc ttatcgacgc ctcgccctac gcaaaaaagt acacatccgg
     2641 cgtcctgtcc tttgccgaaa aggatttacc gcccgggcag cgcgaaaagc tgatggcgag
     2701 ctttgaacgg gttctgatgc ccggactcga taaagaccag tacagcgtgt tgtgggttga
     2761 gcaccaggat aaggggcggc tggagctgaa cttcctgatc ccgaacacgg agctgctgac
     2821 cggcaggcgt ctccagccgt attacgaccg cgccgaccgt ccgcgcattg atgcctggca
     2881 gaccatcgtg aacggcaggc tggggctgca tgacccgaac gcgcctgaaa accggcgggc
     2941 gctggtcacg ccgtccgcgc tgccggaaac gaagcaggaa gccgctcagg caattacacg
     3001 gggtttactg gccttagcct cgtccgggga gctgaaaacc cgccaggacg tcactgaggc
     3061 gctggaaagc gcaggttttg aggtggtacg caccacaaaa agcagcatca gcattgccga
     3121 cccggacggg gggcgaaaca tccgactgaa gggagccatc tatgaacagt cttttaacgc
     3181 tggcaaagga cttagagcag aaatcgaaag cgcagcagca gagtaccggc gagatgctga
     3241 aagccgcatt cagcgagcac gagaagtctg tcagagcgga actgagcgaa agcgagaaga
     3301 gaatcagcgc cgccatcctc gaccacgacc ggaagctgtc ctcagccatg agccagcgca
     3361 cgaaaggcat ggtgcgtatg gtcagccaga cgtggctgac catcgtcctg gtgtctgcac
     3421 tgctgacagc atcgggcgca agcattctgt ggtggcaggg gcagcagata ctcgacaatt
     3481 acacgactat ccgggagcag aagcgcacgc aggccatgct gtccgagagg aacagcggcg
     3541 tgcagctctc gacctgcgga gagcagagac gccgctgcgt gagggtgaac ccggaagcgg
     3601 gacggttcgg agaggattcg agctggatga tactggcggg gaaatagcac atgacggagc
     3661 tggaaaaaca gttgctgagc gcattagagc agctacagca ggactactcg aaaaggctgg
     3721 acgagtggga gaacgccttc gcggaatggc ggacgatgtc tggtcttatg caacgggaga
     3781 acgcggcgct gagcgagcgc gtcacgggct tgagcaggca ggtgcagagt ttgagcgatc
     3841 agctgcgccg gttgtcgaaa ggctgaactc gattgaagca cacaggcagc aggagcgggc
     3901 ggcgcagcat cagaaaacgc tggagctgga acgatcgcag cggcagaaag gttttgagct
     3961 tggaatgtag ttaatcaatg aaaagggatg cgttatgaag tgtttctggg cttgctcagt
     4021 ctcagtagtt ttggttatgt catttacagt cgcttctgcg gagaacatta cacacacaaa
     4081 accgttagcc aggagcgact tatatcttac ctgtaaaggt tatcaggtga agggggcgtc
     4141 tgtaattaac gtcgagaaac cttcttacct tgaaggtaca ggtgagcagg ttgagtttgc
     4201 aatcatttct ctcggtgatg catctgatgg actcaaggtt ttttt
//
