LOCUS       CP099023                5564 bp    DNA     circular BCT 13-APR-2023
DEFINITION  Escherichia coli strain RHB45-C21 plasmid unnamed3, complete
            sequence.
ACCESSION   CP099023
VERSION     CP099023.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15488692
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5564)
  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  JOURNAL   Unpublished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 5564)
  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                     :: RHB45-C21
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 171x
            Sequencing Technology             :: Illumina/Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/15/2022 18:10:04
            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)                     :: 4,768
            CDSs (total)                      :: 4,648
            Genes (coding)                    :: 4,418
            CDSs (with protein)               :: 4,418
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 230
            CDSs (without protein)            :: 230
            Pseudo Genes (ambiguous residues) :: 0 of 230
            Pseudo Genes (frameshifted)       :: 62 of 230
            Pseudo Genes (incomplete)         :: 158 of 230
            Pseudo Genes (internal stop)      :: 52 of 230
            Pseudo Genes (multiple problems)  :: 37 of 230
            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..5564
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB45-C21"
                     /isolation_source="Pooled faeces sample collected from
                     floor of poultry farm"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(103..318)
                     /locus_tag="NFL28_23810"
     CDS             complement(103..318)
                     /locus_tag="NFL28_23810"
                     /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="WGB18585.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLMQRENA
                     ALSERVTGLSRQVQSLSDQLRRLSKG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(322..807)
                     /locus_tag="NFL28_23815"
     CDS             complement(322..807)
                     /locus_tag="NFL28_23815"
                     /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="WGB18586.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMVRMVSQTWLTIVLVSALLTASGASILWWQGQQIL
                     DNYTTIREQKRTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            complement(842..1276)
                     /locus_tag="NFL28_23820"
                     /pseudo=""
     CDS             complement(842..1276)
                     /locus_tag="NFL28_23820"
                     /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            complement(1485..1808)
                     /locus_tag="NFL28_23825"
     CDS             complement(1485..1808)
                     /locus_tag="NFL28_23825"
                     /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="WGB18587.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2961..4174
                     /locus_tag="NFL28_23830"
     CDS             join(2961..3252,3252..4174)
                     /locus_tag="NFL28_23830"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_086558238.1"
                     /ribosomal_slippage=""
                     /note="programmed frameshift; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology. GO_function: GO:0004803 - transposase
                     activity [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="IS3 family transposase"
                     /protein_id="WGB18582.1"
                     /translation="MTKNTRFSPEVRQRAVRMVLESQDEYDSQWAAICSIAPKIGCTPE
                     TLRVWVRQHERDTGGGDGGLTSAERQRLKELERENRELRRSNDILRQASAYFGEGGVRP
                     PLEKMMPLLDKLREQYGVGPVCSELHIAPSTYYHCQQQRHHPDKRSARAQHDDWLKREI
                     QRVYDENHQVYGVRKVWRQLLREGIRVARCTVARLMAVMGLAGVLRGKKVRTTISRKAV
                     AAGDRVNRQFVAERPDQLWVADFTYVSTWRGFVYVAFIIDVFAGYIVGWRVSSSMETTF
                     VLDALEQALWARRPSGTVHHSDKGSQYVSLAYTQRLKEAGLLASTGSTGDSYDNAMAES
                     INGLYKAEVIHRKSWKNRAEVELATLTWVDWYNNRRLLERLGHTPPAEAEKAYYASIGN
                     DDLAA"
                     /name="IS3 family transposase"
     misc_feature    3242..3358
                     /locus_tag="NFL28_23830"
                     /inference="COORDINATES: nucleotide
                     motif:Rfam:14.4:RF01497"
                     /inference="COORDINATES: profile:INFERNAL:1.1.1"
                     /note="AL1L pseudoknot; Derived by automated computational
                     analysis using gene prediction method: cmsearch."
                     /db_xref="RFAM:RF01497"
     gene            complement(4351..4764)
                     /locus_tag="NFL28_23835"
     CDS             complement(4351..4764)
                     /locus_tag="NFL28_23835"
                     /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="WGB18583.1"
                     /translation="MKIIKWASLSGVLLISACGVSQNEVNSANYGSKPIDNDAKVIGMI
                     KESLKDPDSLKVISITTPARGFSKYGFGSTEHGWFTTITYNAKNSYGGYVGAKSSTFVY
                     LNGDYKVAVPMSNGERVMLDKVSFSCKDNCQTK"
                     /name="hypothetical protein"
     gene            complement(5020..5538)
                     /locus_tag="NFL28_23840"
     CDS             complement(5020..5538)
                     /locus_tag="NFL28_23840"
                     /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="WGB18584.1"
                     /translation="MKCFWACSVSVVLVMSFTVASAENITHTKPLARSDLYLTCKGYQV
                     KGASVINVEKPSYLEGTGEQVEFAIISLGDASDGLKVFFDSWGFSPFGLIESHVMHEHW
                     SLVHVGGRVSVKGEKIDYSFVDNQPQEGGSYKPKTGVFLYGCINSDKRPSWVEKIYTRT
                     GVFRGGIED"
                     /name="hypothetical protein"
     Typing          2075..2564
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.501"
                     /coverage="81.0"
                     /evalue="0.0"
     Typing          complement(12..1495)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.515"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 acattccaag ctcaaaacct ttctgccgct gcgatcgttc cagctccagc gttttctgat
       61 gctgcgccgc ccgctcctgc tgcctgtgtg cttcaatcga gttcagcctt tcgacaaccg
      121 gcgcagctga tcgctcaaac tctgcacctg cctgctcaag cccgtgacgc gctcgctcag
      181 cgccgcgttc tcccgttgca taagaccaga catcgtccgc cattccgcga aggcgttctc
      241 ccactcgtcc agccttttcg agtagtcctg ctgtagctgc tctaatgcgc tcagcaactg
      301 tttttccagc tccgtcatgt gctatttccc cgccagtatc atccagctcg aatcctctcc
      361 gaaccgtccc gcttccgggt tcaccctcac gcagcggcgt ctctgctctc cgcaggtcga
      421 gagctgcacg ccgctgttcc tctcggacag catggcctgc gtgcgcttct gctcccggat
      481 ggtcgtgtaa ttgtcgagta tctgctgccc ctgccaccac agaatgcttg cgcccgatgc
      541 tgtcagcagt gcagacacca ggacgatggt cagccacgtc tggctgacca tacgcaccat
      601 gcctttcgtg cgctggctca tggctgagga cagcttccgg tcgtggtcga ggatggcggc
      661 gctgattctc ttctcgcttt cgctcagttc cgctctgaca gacttctcgt gctcgctgaa
      721 tgcggctttc agcatctcgc cggtactctg ctgctgcgct ttcgatttct gctctaagtc
      781 ctttgccagc gttaaaagac tgttcataga tggctccctt cagtcggatg tttcgccccc
      841 cgtccgggtc ggcaatgctg atgctgcttt ttgtggtgcg taccacctca aaacctgcgc
      901 tttccagcgc ctcagtgacg tcctggcggg ttttcagctc cccggacgag gctaaggcca
      961 gtaaaccccg tgtaattgcc tgagcggctt cctgcttcgt ttccggcagc gcggacggcg
     1021 tgaccagcgc ccgccggttt tcaggtgcgt tcgggtcatg cagccccagc ctgccgttca
     1081 cgatggtctg ccaggcatca atgcgcggac ggtcggcgcg gtcgtaatac ggctggagac
     1141 gcctgccggt cagcagctcc gtgttcggga tcaggaagtt cagctccagc ctccccttat
     1201 cctggtgctc aacccacagc acgctgtact ggtctttatc gagtccgggc atcagaaccc
     1261 gttcaaagct cgccatcagc ttttcgcgct gcccgggcgg taaatccttt tcggcaaagg
     1321 acaggacgcc ggatgtgtac ttttttgcgt agggcgaggc gtcgataagc tccctgactt
     1381 cttccggctt cccctgcaga acggtggcgc cgtcgcgctg tcggtctttc cccagcagat
     1441 aatccaccgg accggcgcca ccgccgcgcc ctcgcgggtg aaacttaacg atcatcgtct
     1501 gcaccctttt ccagcacggc atgccgcagc cgctcgagtc cggcatctat ggccatcagc
     1561 gcggcgacga cctgcacgcg gtcatgcccg ctgccaccac cggcgttaac ctgccgggca
     1621 atctggttga gattgttccc catgccggca agctgacgaa gcagcgccgg cgagatcgag
     1681 ggaagcttgc cggcgcgggc gggtttctcg tccaggcacg tctggcgcat ccaggctgca
     1741 agctgtttac cgtcgcagcg ttccagcaga cggcggtgct catcttcggt cacccacata
     1801 gtgagcattt tactgcgttt gtctgccaat ccagcctcct gataacgccg ggacgggcgg
     1861 gaaatctttt cccggtcggc gcggtgttgg acaagccgca ggcgcgtcag tggttttagc
     1921 aggtttcggg gcgcagccct gaaccagtca cgtagcgcta gcggagtgta tactggctta
     1981 aaatgtaaca tcgcagaaac ataatgcata gatgccacat aaagcaggtg taatgccatg
     2041 gcgggcgcgt aagcagaaaa tgcaggaccg gtgatattcc gcttcctcgc tcactgactc
     2101 gctacgctcg gtcgttcggc tgcggcgagc ggtaccggct tacgaatggg gcggaaattt
     2161 ccggggagat gccaggaggg aacttaacag ggaaacgaga aggccgcggc gctgccgttt
     2221 ttccataggc tccgcccccc tgacaagcat cacagaatcg gacgctcaaa tcagtggtgg
     2281 cgaaacccga caggacttaa agataccagg cgtttccccc tggtggctcc ctcgtgcgct
     2341 ctcctgttcc tgcctttcgg tttaccggtg tcattccgct gttatggccg cgtttgtctc
     2401 attccacgcc tgacactcag ttccgggtag gcagttcgct ccaagctgga ctgtatgcac
     2461 gaaccccccg ttcagtccga ctgctgcgcc ttatccggta actatcgtct tgagtccaac
     2521 ccggaaagac acgacaaaac gccactggca gcagccactg gtaacaggtt tgtgcgagag
     2581 atgtgttcag agttcttgaa gtggcggcct gactgaggct acactggaag gacagatttg
     2641 gtgacatgtc tcgcacaaga ctgttaccac ggttagagaa tctgccagga ttaactaacc
     2701 ttcgaaaaac cacctgccag ggtggttttt tcgtttacag tcatgaagat tacgcgtaga
     2761 aaaaaaggat ctcaagaaga tctttccatc atttaacaat gtcggtatag ataaaaatca
     2821 ttcacgaata aatgaatatc caaaggtgac tgtagtgaac agcaaacaaa aatgttctca
     2881 ttcaaatcta gaaaaagaat actacttgaa ccgccccggg aatcctggag actaaacttc
     2941 ctgagaaaga ggtaaacagg atgactaaaa atactcgttt ttcccccgaa gtccgtcaac
     3001 gggcagtccg tatggttctg gaaagtcagg atgaatatga ctcacagtgg gcggcaattt
     3061 gttccattgc cccaaagatt ggctgtacgc cggagactct gcgtgtctgg gttcgccagc
     3121 atgagcggga taccgggggc ggtgatggtg ggctcaccag cgctgaacgt cagcgtctga
     3181 aagagctgga acgtgaaaat cgtgaactgc gccgcagtaa cgatatcctt cgccaggctt
     3241 ccgcttattt tgcgaaggcg gagttcgacc gcctctggaa aaaatgatgc cactgctgga
     3301 taagctgcgt gagcagtacg gggtcggacc ggtatgcagc gaactgcata ttgccccgtc
     3361 aacgtattac cattgtcagc aacagcgaca tcatccggat aaacgcagtg cccgtgcgca
     3421 gcacgatgac tggctgaaga gagagataca gcgcgtatac gatgaaaatc atcaggtgta
     3481 cggtgtgcgt aaagtctggc gtcagttgtt acgggaagga atcagggtgg ccagatgtac
     3541 agtggcgcgc ctcatggcgg ttatgggact tgccggtgtt ctccggggta aaaaggtccg
     3601 tacgaccatc agccggaaag ccgttgccgc aggcgaccgc gtaaaccgtc agttcgtggc
     3661 agaacgacct gaccagctgt gggtggctga ttttacttac gtcagcacat ggcggggctt
     3721 cgtctatgtg gcgttcatca ttgatgtgtt tgccggatac atcgtggggt ggcgggtctc
     3781 atcgtccatg gaaacgacat tcgtgctgga tgcactggag caggcgttat gggcccgtcg
     3841 accgtccggc acggtccatc acagtgataa aggttctcag tatgtatcgc tggcctacac
     3901 acagcggctt aaggaagccg gattactggc atcaacagga agtacaggcg actcgtatga
     3961 caacgcgatg gcggagagca tcaatggtct ttacaaagcg gaggtaatac accgtaagag
     4021 ctggaaaaac cgtgcagaag tggaactggc cacactcacg tgggtggact ggtataacaa
     4081 tcgacgattg ctggaaaggc tgggccatac tcctccggca gaagcagaaa aagcttatta
     4141 tgcttccatc ggaaacgatg atctggcagc ctgagttcac agataaaaca ctctccagga
     4201 aacccggggc ggttcaactt gggtagcgcc acaggcgatt ataaatgttt ggattgcggg
     4261 gaggttggtt ttgggaagga ctggccagaa aaagaaagaa gtaaaaatga taacgaagca
     4321 taaaaaaggc cgctattgcg gcctttttta tcatttagtt tggcaattgt ctttacatga
     4381 aaatgacact ttatctaaca taaccctctc accattagac attggcactg ccactttata
     4441 atctccgttt aagtaaacga aagtactgga cttagcacca acataaccgc cataagagtt
     4501 ttttgcatta tatgtgatag tagtgaacca gccatgctct gtagagccaa agccatactt
     4561 agaaaaacct ctggcggggg tggttattga tataactttt agagaatcag gatcttttag
     4621 actctcttta atcataccaa tcactttcgc atcattatct attggttttg aaccataatt
     4681 agcactattt acttcgttct gagaaacacc acaagcagat attaacagaa caccagacag
     4741 tgaagcccac ttaattattt tcatatatat ccttgtcatt ttccaaacaa ctataggaaa
     4801 tccactatat agacatttat agatagattt accataacat ctcttgggcg caccgctcag
     4861 acgcgctcag ggcgtttttc cgtcctaagc cacaaaagag cccgtcttct caccgaaaac
     4921 cgcccggaat cgcgctgata agttttgcgt gtatgcatag ccatgcacga aaatgaacta
     4981 acactctgtt caatgaattt tcatgctgta cgcagtattt tagtcttcta tgccccctcg
     5041 aaacacgcct gttcttgtgt agattttttc gacccaagat ggccttttat cagagttaat
     5101 gcagccatac aggaacacac ctgttttggg tttatagctc ccaccctcct gtggctggtt
     5161 atctacaaat gaataatcaa tcttttcacc cttgactgaa acacgccccc caacatgaac
     5221 taaagaccag tgctcatgca ttacatgact ttcaatcaat ccaaaaggag aaaaacccca
     5281 tgaatcaaaa aaaaccttga gtccatcaga tgcatcaccg agagaaatga ttgcaaactc
     5341 aacctgctca cctgtacctt caaggtaaga aggtttctcg acgttaatta cagacgcccc
     5401 cttcacctga taacctttac aggtaagata taagtcgctc ctggctaacg gttttgtgtg
     5461 tgtaatgttc tccgcagaag cgactgtaaa tgacataacc aaaactactg agactgagca
     5521 agcccagaaa cacttcataa cgcatccctt ttcattgatt aact
//
